Sample records for multiple sine wave

  1. The Perception of "Sine-Wave Speech" by Adults with Developmental Dyslexia.

    ERIC Educational Resources Information Center

    Rosner, Burton S.; Talcott, Joel B.; Witton, Caroline; Hogg, James D.; Richardson, Alexandra J.; Hansen, Peter C.; Stein, John F.

    2003-01-01

    "Sine-wave speech" sentences contain only four frequency-modulated sine waves, lacking many acoustic cues present in natural speech. Adults with (n=19) and without (n=14) dyslexia were asked to reproduce orally sine-wave utterances in successive trials. Results suggest comprehension of sine-wave sentences is impaired in some adults with…

  2. Linear sine wave profiling to machine instability targets

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Schmidt, Derek William; Martinez, John Israel

    2016-08-01

    Specialized machining processes and programming have been developed to deliver thin tin and copper Richtmyer-Meshkov instability targets that have different amplitude perturbations across the face of one 4-in.-diameter target. Typical targets have anywhere from two to five different regions of sine waves that have different amplitudes varying from 4 to 200 μm across the face of the target. The puck is composed of multiple rings that are zero press fit together and diamond turned to create a flat platform with a tolerance of 2 μm for the shock experiment. A custom software program was written in Labview to write themore » point-to-point program for the diamond-turning profiler through the X-Y-Z movements to cut the pure planar straight sine wave geometry. As a result, the software is optimized to push the profile of the whole part into the face while eliminating any unneeded passes that do not cut any material.« less

  3. Advanced Sine Wave Modulation of Continuous Wave Laser System for Atmospheric CO2 Differential Absorption Measurements

    NASA Technical Reports Server (NTRS)

    Campbell, Joel F.; Lin, Bing; Nehrir, Amin R.

    2014-01-01

    NASA Langley Research Center in collaboration with ITT Exelis have been experimenting with Continuous Wave (CW) laser absorption spectrometer (LAS) as a means of performing atmospheric CO2 column measurements from space to support the Active Sensing of CO2 Emissions over Nights, Days, and Seasons (ASCENDS) mission.Because range resolving Intensity Modulated (IM) CW lidar techniques presented here rely on matched filter correlations, autocorrelation properties without side lobes or other artifacts are highly desirable since the autocorrelation function is critical for the measurements of lidar return powers, laser path lengths, and CO2 column amounts. In this paper modulation techniques are investigated that improve autocorrelation properties. The modulation techniques investigated in this paper include sine waves modulated by maximum length (ML) sequences in various hardware configurations. A CW lidar system using sine waves modulated by ML pseudo random noise codes is described, which uses a time shifting approach to separate channels and make multiple, simultaneous online/offline differential absorption measurements. Unlike the pure ML sequence, this technique is useful in hardware that is band pass filtered as the IM sine wave carrier shifts the main power band. Both amplitude and Phase Shift Keying (PSK) modulated IM carriers are investigated that exibit perfect autocorrelation properties down to one cycle per code bit. In addition, a method is presented to bandwidth limit the ML sequence based on a Gaussian filter implemented in terms of Jacobi theta functions that does not seriously degrade the resolution or introduce side lobes as a means of reducing aliasing and IM carrier bandwidth.

  4. Study on W-band sheet-beam traveling-wave tube based on flat-roofed sine waveguide

    NASA Astrophysics Data System (ADS)

    Fang, Shuanzhu; Xu, Jin; Jiang, Xuebing; Lei, Xia; Wu, Gangxiong; Li, Qian; Ding, Chong; Yu, Xiang; Wang, Wenxiang; Gong, Yubin; Wei, Yanyu

    2018-05-01

    A W-band sheet electron beam (SEB) traveling-wave tube (TWT) based on flat-roofed sine waveguide slow-wave structure (FRSWG-SWS) is proposed. The sine wave of the metal grating is replaced by a flat-roofed sine wave around the electron beam tunnel. The slow-wave characteristics including the dispersion properties and interaction impedance have been investigated by using the eigenmode solver in the 3-D electromagnetic simulation software Ansoft HFSS. Through calculations, the FRSWG SWS possesses the larger average interaction impedance than the conventional sine waveguide (SWG) SWS in the frequency range of 86-110 GHz. The beam-wave interaction was studied and particle-in-cell simulation results show that the SEB TWT can produce output power over 120 W within the bandwidth ranging from 90 to 100 GHz, and the maximum output power is 226 W at typical frequency 94 GHz, corresponding electron efficiency of 5.89%.

  5. Synchrony of two uncoupled neurons under half wave sine current stimulation

    NASA Astrophysics Data System (ADS)

    Peng, Yueping; Wang, Jue; Jian, Zhong

    2009-04-01

    Two uncoupled Hindmarsh-Rose neurons under different initial discharge patterns are stimulated by the half wave sine current; and the synchronization mechanism of the two neurons is discussed by analyzing their membrane potentials and their interspike interval (ISI) distribution. Under the half wave sine current stimulation, the two uncoupled neurons under different initial conditions, whose parameter r (the parameter r is related to the membrane penetration of calcium ion, and reflects the changing speed of the slow adaptation current) is different or the same, can realize discharge synchronization (phase synchronization) or the full synchronization (state synchronization). The synchronization characteristics are mainly related to the frequency and the amplitude of the half wave sine current, and are little related to the parameter r and the initial state of the two neurons. This investigation shows the mechanism of the current's amplitude and its frequency affecting the synchronization process of neurons, and the neurons' discharge patterns and synchronization process can be adjusted and controlled by the current's amplitude and its frequency. This result is of far reaching importance to study synchronization and encode of many neurons or neural network, and provides the theoretic basis for studying the mechanism of some nervous diseases such as epilepsy and Alzheimer's disease by the slow wave of EEG.

  6. Sines and Cosines. Part 1 of 3

    NASA Technical Reports Server (NTRS)

    Apostol, Tom M. (Editor)

    1992-01-01

    Applying the concept of similarities, the mathematical principles of circular motion and sine and cosine waves are presented utilizing both film footage and computer animation in this 'Project Mathematics' series video. Concepts presented include: the symmetry of sine waves; the cosine (complementary sine) and cosine waves; the use of sines and cosines on coordinate systems; the relationship they have to each other; the definitions and uses of periodic waves, square waves, sawtooth waves; the Gibbs phenomena; the use of sines and cosines as ratios; and the terminology related to sines and cosines (frequency, overtone, octave, intensity, and amplitude).

  7. Deterministic approach for multiple-source tsunami hazard assessment for Sines, Portugal

    NASA Astrophysics Data System (ADS)

    Wronna, M.; Omira, R.; Baptista, M. A.

    2015-11-01

    In this paper, we present a deterministic approach to tsunami hazard assessment for the city and harbour of Sines, Portugal, one of the test sites of project ASTARTE (Assessment, STrategy And Risk Reduction for Tsunamis in Europe). Sines has one of the most important deep-water ports, which has oil-bearing, petrochemical, liquid-bulk, coal, and container terminals. The port and its industrial infrastructures face the ocean southwest towards the main seismogenic sources. This work considers two different seismic zones: the Southwest Iberian Margin and the Gloria Fault. Within these two regions, we selected a total of six scenarios to assess the tsunami impact at the test site. The tsunami simulations are computed using NSWING, a Non-linear Shallow Water model wIth Nested Grids. In this study, the static effect of tides is analysed for three different tidal stages: MLLW (mean lower low water), MSL (mean sea level), and MHHW (mean higher high water). For each scenario, the tsunami hazard is described by maximum values of wave height, flow depth, drawback, maximum inundation area and run-up. Synthetic waveforms are computed at virtual tide gauges at specific locations outside and inside the harbour. The final results describe the impact at the Sines test site considering the single scenarios at mean sea level, the aggregate scenario, and the influence of the tide on the aggregate scenario. The results confirm the composite source of Horseshoe and Marques de Pombal faults as the worst-case scenario, with wave heights of over 10 m, which reach the coast approximately 22 min after the rupture. It dominates the aggregate scenario by about 60 % of the impact area at the test site, considering maximum wave height and maximum flow depth. The HSMPF scenario inundates a total area of 3.5 km2.

  8. Statistical properties of two sine waves in Gaussian noise.

    NASA Technical Reports Server (NTRS)

    Esposito, R.; Wilson, L. R.

    1973-01-01

    A detailed study is presented of some statistical properties of a stochastic process that consists of the sum of two sine waves of unknown relative phase and a normal process. Since none of the statistics investigated seem to yield a closed-form expression, all the derivations are cast in a form that is particularly suitable for machine computation. Specifically, results are presented for the probability density function (pdf) of the envelope and the instantaneous value, the moments of these distributions, and the relative cumulative density function (cdf).

  9. Analog circuit for the measurement of phase difference between two noisy sine-wave signals

    NASA Technical Reports Server (NTRS)

    Shakkottai, P.; Kwack, E. Y.; Back, L. H.

    1989-01-01

    A simple circuit was designed to measure the phase difference between two noisy sine waves. It locks over a wide range of frequencies and produces an output proportional to the phase difference of rapidly varying signals. A square wave locked in frequency and phase to the first signal is produced by a phase-locked loop and is amplified by an operational amplifier.

  10. Speech perception of sine-wave signals by children with cochlear implants

    PubMed Central

    Nittrouer, Susan; Kuess, Jamie; Lowenstein, Joanna H.

    2015-01-01

    Children need to discover linguistically meaningful structures in the acoustic speech signal. Being attentive to recurring, time-varying formant patterns helps in that process. However, that kind of acoustic structure may not be available to children with cochlear implants (CIs), thus hindering development. The major goal of this study was to examine whether children with CIs are as sensitive to time-varying formant structure as children with normal hearing (NH) by asking them to recognize sine-wave speech. The same materials were presented as speech in noise, as well, to evaluate whether any group differences might simply reflect general perceptual deficits on the part of children with CIs. Vocabulary knowledge, phonemic awareness, and “top-down” language effects were all also assessed. Finally, treatment factors were examined as possible predictors of outcomes. Results showed that children with CIs were as accurate as children with NH at recognizing sine-wave speech, but poorer at recognizing speech in noise. Phonemic awareness was related to that recognition. Top-down effects were similar across groups. Having had a period of bimodal stimulation near the time of receiving a first CI facilitated these effects. Results suggest that children with CIs have access to the important time-varying structure of vocal-tract formants. PMID:25994709

  11. Fast and precise technique for magnet lattice correction via sine-wave excitation of fast correctors

    DOE PAGES

    Yang, X.; Smaluk, V.; Yu, L. H.; ...

    2017-05-02

    A novel technique has been developed to improve the precision and shorten the measurement time of the LOCO (linear optics from closed orbits) method. This technique, named AC LOCO, is based on sine-wave (ac) beam excitation via fast correctors. Such fast correctors are typically installed at synchrotron light sources for the fast orbit feedback. The beam oscillations are measured by beam position monitors. The narrow band used for the beam excitation and measurement not only allows us to suppress effectively the beam position noise but also opens the opportunity for simultaneously exciting multiple correctors at different frequencies (multifrequency mode). Wemore » demonstrated at NSLS-II that AC LOCO provides better lattice corrections and works much faster than the traditional LOCO method.« less

  12. On the solution of the generalized wave and generalized sine-Gordon equations

    NASA Technical Reports Server (NTRS)

    Ablowitz, M. J.; Beals, R.; Tenenblat, K.

    1986-01-01

    The generalized wave equation and generalized sine-Gordon equations are known to be natural multidimensional differential geometric generalizations of the classical two-dimensional versions. In this paper, a system of linear differential equations is associated with these equations, and it is shown how the direct and inverse problems can be solved for appropriately decaying data on suitable lines. An initial-boundary value problem is solved for these equations.

  13. Scenario based approach for multiple source Tsunami Hazard assessment for Sines, Portugal

    NASA Astrophysics Data System (ADS)

    Wronna, M.; Omira, R.; Baptista, M. A.

    2015-08-01

    In this paper, we present a scenario-based approach for tsunami hazard assessment for the city and harbour of Sines - Portugal, one of the test-sites of project ASTARTE. Sines holds one of the most important deep-water ports which contains oil-bearing, petrochemical, liquid bulk, coal and container terminals. The port and its industrial infrastructures are facing the ocean southwest towards the main seismogenic sources. This work considers two different seismic zones: the Southwest Iberian Margin and the Gloria Fault. Within these two regions, we selected a total of six scenarios to assess the tsunami impact at the test site. The tsunami simulations are computed using NSWING a Non-linear Shallow Water Model With Nested Grids. In this study, the static effect of tides is analysed for three different tidal stages MLLW (mean lower low water), MSL (mean sea level) and MHHW (mean higher high water). For each scenario, inundation is described by maximum values of wave height, flow depth, drawback, runup and inundation distance. Synthetic waveforms are computed at virtual tide gauges at specific locations outside and inside the harbour. The final results describe the impact at Sines test site considering the single scenarios at mean sea level, the aggregate scenario and the influence of the tide on the aggregate scenario. The results confirm the composite of Horseshoe and Marques Pombal fault as the worst case scenario. It governs the aggregate scenario with about 60 % and inundates an area of 3.5 km2.

  14. SINEs.

    PubMed

    Kramerov, Dmitri A; Vassetzky, Nikita S

    2011-01-01

    Short interspersed elements (SINEs) are mobile genetic elements that invade the genomes of many eukaryotes. Since their discovery about 30 years ago, many gaps in our understanding of the biology and function of SINEs have been filled. This review summarizes the past and recent advances in the studies of SINEs. The structure and origin of SINEs as well as the processes involved in their amplification, transcription, RNA processing, reverse transcription, and integration of a SINE copy into the genome are considered. Then we focus on the significance of SINEs for the host genomes. While these genomic parasites can be deleterious to the cell, the long-term being in the genome has made SINEs a valuable source of genetic variation providing regulatory elements for gene expression, alternative splice sites, polyadenylation signals, and even functional RNA genes. Copyright © 2011 John Wiley & Sons, Ltd.

  15. MetaSINEs: Broad Distribution of a Novel SINE Superfamily in Animals

    PubMed Central

    Nishihara, Hidenori; Plazzi, Federico; Passamonti, Marco; Okada, Norihiro

    2016-01-01

    SINEs (short interspersed elements) are transposable elements that typically originate independently in each taxonomic clade (order/family). However, some SINE families share a highly similar central sequence and are thus categorized as a SINE superfamily. Although only four SINE superfamilies (CORE-SINEs, V-SINEs, DeuSINEs, and Ceph-SINEs) have been reported so far, it is expected that new SINE superfamilies would be discovered by deep exploration of new SINEs in metazoan genomes. Here we describe 15 SINEs, among which 13 are novel, that have a similar 66-bp central region and therefore constitute a new SINE superfamily, MetaSINEs. MetaSINEs are distributed from fish to cnidarians, suggesting their common evolutionary origin at least 640 Ma. Because the 3′ tails of MetaSINEs are variable, these SINEs most likely survived by changing their partner long interspersed elements for retrotransposition during evolution. Furthermore, we examined the presence of members of other SINE superfamilies in bivalve genomes and characterized eight new SINEs belonging to the CORE-SINEs, V-SINEs, and DeuSINEs, in addition to the MetaSINEs. The broad distribution of bivalve SINEs suggests that at least three SINEs originated in the common ancestor of Bivalvia. Our comparative analysis of the central domains of the SINEs revealed that, in each superfamily, only a restricted region is shared among all of its members. Because the functions of the central domains of the SINE superfamilies remain unknown, such structural information of SINE superfamilies will be useful for future experimental and comparative analyses to reveal why they have been retained in metazoan genomes during evolution. PMID:26872770

  16. MetaSINEs: Broad Distribution of a Novel SINE Superfamily in Animals.

    PubMed

    Nishihara, Hidenori; Plazzi, Federico; Passamonti, Marco; Okada, Norihiro

    2016-02-12

    SINEs (short interspersed elements) are transposable elements that typically originate independently in each taxonomic clade (order/family). However, some SINE families share a highly similar central sequence and are thus categorized as a SINE superfamily. Although only four SINE superfamilies (CORE-SINEs, V-SINEs, DeuSINEs, and Ceph-SINEs) have been reported so far, it is expected that new SINE superfamilies would be discovered by deep exploration of new SINEs in metazoan genomes. Here we describe 15 SINEs, among which 13 are novel, that have a similar 66-bp central region and therefore constitute a new SINE superfamily, MetaSINEs. MetaSINEs are distributed from fish to cnidarians, suggesting their common evolutionary origin at least 640 Ma. Because the 3' tails of MetaSINEs are variable, these SINEs most likely survived by changing their partner long interspersed elements for retrotransposition during evolution. Furthermore, we examined the presence of members of other SINE superfamilies in bivalve genomes and characterized eight new SINEs belonging to the CORE-SINEs, V-SINEs, and DeuSINEs, in addition to the MetaSINEs. The broad distribution of bivalve SINEs suggests that at least three SINEs originated in the common ancestor of Bivalvia. Our comparative analysis of the central domains of the SINEs revealed that, in each superfamily, only a restricted region is shared among all of its members. Because the functions of the central domains of the SINE superfamilies remain unknown, such structural information of SINE superfamilies will be useful for future experimental and comparative analyses to reveal why they have been retained in metazoan genomes during evolution. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  17. Criteria for representing circular arc and sine wave spar webs by non-curved elements

    NASA Technical Reports Server (NTRS)

    Jenkins, J. M.

    1979-01-01

    The basic problem of how to simply represent a curved web of a spar in a finite element structural model was addressed. The ratio of flat web to curved web axial deformations and longitudinal rotations were calculated using NASTRAN models. Multiplying factors were developed from these calculations for various web thicknesses. These multiplying factors can be applied directly to the area and moment of inertia inputs of the finite element model. This allows the thermal stress relieving configurations of sine wave and circular arc webs to be simply accounted for in finite element structural models.

  18. Wide-band doubler and sine wave quadrature generator

    NASA Technical Reports Server (NTRS)

    Crow, R. B.

    1969-01-01

    Phase-locked loop with photoresistive control, which provides both sine and cosine outputs for subcarrier demodulation, serves as a telemetry demodulator signal conditioner with a second harmonic signal for synchronization with the locally generated code.

  19. PCR-based approach to SINE isolation: simple and complex SINEs.

    PubMed

    Borodulina, Olga R; Kramerov, Dmitri A

    2005-04-11

    Highly repeated copies of short interspersed elements (SINEs) occur in eukaryotic genomes. The distribution of each SINE family is usually restricted to some genera, families, or orders. SINEs have an RNA polymerase III internal promoter, which is composed of boxes A and B. Here we propose a method for isolation of novel SINE families based on genomic DNA PCR with oligonucleotide identical to box A as a primer. Cloning of the size-heterogeneous PCR-products and sequencing of their terminal regions allow determination of SINE structure. Using this approach, two novel SINE families, Rhin-1 and Das-1, from the genomes of great horseshoe bat (Rhinolophus ferrumequinum) and nine-banded armadillo (Dasypus novemcinctus), respectively, were isolated and studied. The distribution of Rhin-1 is restricted to two of six bat families tested. Copies of this SINE are characterized by frequent internal insertions and significant length (200-270 bp). Das-1 being only 90 bp in length is one of the shortest SINEs known. Most of Das-1 nucleotide sequences demonstrate significant similarity to alanine tRNA which appears to be an evolutionary progenitor of this SINE. Together with three other known SINEs (ID, Vic-1, and CYN), Das-1 constitutes a group of simple SINEs. Interestingly, three SINE families of this group are alanine tRNA-derived. Most probably, this tRNA gave rise to short and simple but successful SINEs several times during mammalian evolution.

  20. Obtaining changes in calibration-coil to seismometer output constants using sine waves

    USGS Publications Warehouse

    Ringler, Adam T.; Hutt, Charles R.; Gee, Lind S.; Sandoval, Leo D.; Wilson, David C.

    2013-01-01

    The midband sensitivity of a broadband seismometer is one of the most commonly used parameters from station metadata. Thus, it is critical for station operators to robustly estimate this quantity with a high degree of accuracy. We develop an in situ method for estimating changes in sensitivity using sine‐wave calibrations, assuming the calibration coil and its drive are stable over time and temperature. This approach has been used in the past for passive instruments (e.g., geophones) but has not been applied, to our knowledge, to derive sensitivities of modern force‐feedback broadband seismometers. We are able to detect changes in sensitivity to well within 1%, and our method is capable of detecting these sensitivity changes using any frequency of sine calibration within the passband of the instrument.

  1. Carnivore-specific SINEs (Can-SINEs): distribution, evolution, and genomic impact.

    PubMed

    Walters-Conte, Kathryn B; Johnson, Diana L E; Allard, Marc W; Pecon-Slattery, Jill

    2011-01-01

    Short interspersed nuclear elements (SINEs) are a type of class 1 transposable element (retrotransposon) with features that allow investigators to resolve evolutionary relationships between populations and species while providing insight into genome composition and function. Characterization of a Carnivora-specific SINE family, Can-SINEs, has, has aided comparative genomic studies by providing rare genomic changes, and neutral sequence variants often needed to resolve difficult evolutionary questions. In addition, Can-SINEs constitute a significant source of functional diversity with Carnivora. Publication of the whole-genome sequence of domestic dog, domestic cat, and giant panda serves as a valuable resource in comparative genomic inferences gleaned from Can-SINEs. In anticipation of forthcoming studies bolstered by new genomic data, this review describes the discovery and characterization of Can-SINE motifs as well as describes composition, distribution, and effect on genome function. As the contribution of noncoding sequences to genomic diversity becomes more apparent, SINEs and other transposable elements will play an increasingly large role in mammalian comparative genomics.

  2. Carnivore-Specific SINEs (Can-SINEs): Distribution, Evolution, and Genomic Impact

    PubMed Central

    Johnson, Diana L.E.; Allard, Marc W.; Pecon-Slattery, Jill

    2011-01-01

    Short interspersed nuclear elements (SINEs) are a type of class 1 transposable element (retrotransposon) with features that allow investigators to resolve evolutionary relationships between populations and species while providing insight into genome composition and function. Characterization of a Carnivora-specific SINE family, Can-SINEs, has, has aided comparative genomic studies by providing rare genomic changes, and neutral sequence variants often needed to resolve difficult evolutionary questions. In addition, Can-SINEs constitute a significant source of functional diversity with Carnivora. Publication of the whole-genome sequence of domestic dog, domestic cat, and giant panda serves as a valuable resource in comparative genomic inferences gleaned from Can-SINEs. In anticipation of forthcoming studies bolstered by new genomic data, this review describes the discovery and characterization of Can-SINE motifs as well as describes composition, distribution, and effect on genome function. As the contribution of noncoding sequences to genomic diversity becomes more apparent, SINEs and other transposable elements will play an increasingly large role in mammalian comparative genomics. PMID:21846743

  3. 125 GHz sine wave gating InGaAs/InP single-photon detector with a monolithically integrated readout circuit

    NASA Astrophysics Data System (ADS)

    Jiang, Wen-Hao; Liu, Jian-Hong; Liu, Yin; Jin, Ge; Zhang, Jun; Pan, Jian-Wei

    2017-12-01

    InGaAs/InP single-photon detectors (SPDs) are the key devices for applications requiring near-infrared single-photon detection. Gating mode is an effective approach to synchronous single-photon detection. Increasing gating frequency and reducing module size are important challenges for the design of such detector system. Here we present for the first time an InGaAs/InP SPD with 1.25 GHz sine wave gating using a monolithically integrated readout circuit (MIRC). The MIRC has a size of 15 mm * 15 mm and implements the miniaturization of avalanche extraction for high-frequency sine wave gating. In the MIRC, low-pass filters and a low-noise radio frequency amplifier are integrated based on the technique of low temperature co-fired ceramic, which can effectively reduce the parasitic capacitance and extract weak avalanche signals. We then characterize the InGaAs/InP SPD to verify the functionality and reliability of MIRC, and the SPD exhibits excellent performance with 27.5 % photon detection efficiency, 1.2 kcps dark count rate, and 9.1 % afterpulse probability at 223 K and 100 ns hold-off time. With this MIRC, one can further design miniaturized high-frequency SPD modules that are highly required for practical applications.

  4. Unilateral retinitis pigmentosa sine pigmento.

    PubMed

    Pearlman, J T; Saxton, J; Hoffman, G

    1976-05-01

    A patient presented with unilateral findings of night blindness shown by impaired rod function and dark adaptation, constricted visual fields with good central acuity, a barely recordable electro-retinographic b-wave, and a unilaterally impaired electro-oculogram. There were none of the pigmentary changes usually associated with retinitis pigmentosa. The unaffected right eye was normal in all respects. Therefore the case is most probably one of unilateral retinitis pigmentosa sine pigmento.

  5. Truncated Painlevé expansion: Tanh-traveling wave solutions and reduction of sine-Poisson equation to a quadrature for stationary and nonstationary three-dimensional collisionless cold plasma

    NASA Astrophysics Data System (ADS)

    Ibrahim, R. S.; El-Kalaawy, O. H.

    2006-10-01

    The relativistic nonlinear self-consistent equations for a collisionless cold plasma with stationary ions [R. S. Ibrahim, IMA J. Appl. Math. 68, 523 (2003)] are extended to 3 and 3+1 dimensions. The resulting system of equations is reduced to the sine-Poisson equation. The truncated Painlevé expansion and reduction of the partial differential equation to a quadrature problem (RQ method) are described and applied to obtain the traveling wave solutions of the sine-Poisson equation for stationary and nonstationary equations in 3 and 3+1 dimensions describing the charge-density equilibrium configuration model.

  6. Unilateral retinitis pigmentosa sine pigmento.

    PubMed Central

    Pearlman, J T; Saxton, J; Hoffman, G

    1976-01-01

    A patient presented with unilateral findings of night blindness shown by impaired rod function and dark adaptation, constricted visual fields with good central acuity, a barely recordable electro-retinographic b-wave, and a unilaterally impaired electro-oculogram. There were none of the pigmentary changes usually associated with retinitis pigmentosa. The unaffected right eye was normal in all respects. Therefore the case is most probably one of unilateral retinitis pigmentosa sine pigmento. Images PMID:952804

  7. The Evolution of SINEs and LINEs in the genus Chironomus (Diptera).

    PubMed

    Papusheva, Ekaterina; Gruhl, Mary C; Berezikov, Eugene; Groudieva, Tatiana; Scherbik, Svetlana V; Martin, Jon; Blinov, Alexander; Bergtrom, Gerald

    2004-03-01

    Genomic DNA amplification from 51 species of the family Chironomidae shows that most contain relatives of NLRCth1 LINE and CTRT1 SINE retrotransposons first found in Chironomus thummi. More than 300 cloned PCR products were sequenced. The amplified region of the reverse transcriptase gene in the LINEs is intact and highly conserved, suggesting active elements. The SINEs are less conserved, consistent with minimal/no selection after transposition. A mitochondrial gene phylogeny resolves the Chironomus genus into six lineages (Guryev et al. 2001). LINE and SINE phylogenies resolve five of these lineages, indicating their monophyletic origin and vertical inheritance. However, both the LINE and the SINE tree topologies differ from the species phylogeny, resolving the elements into "clusters I-IV" and "cluster V" families. The data suggest a descent of all LINE and SINE subfamilies from two major families. Based on the species phylogeny, a few LINEs and a larger number of SINEs are cladisitically misplaced. Most misbranch with LINEs or SINEs from species with the same families of elements. From sequence comparisons, cladistically misplaced LINEs and several misplaced SINEs arose by convergent base substitutions. More diverged SINEs result from early transposition and some are derived from multiple source SINEs in the same species. SINEs from two species (C. dorsalis, C. pallidivittatus), expected to belong to the clusters I-IV family, branch instead with cluster V family SINEs; apparently both families predate separation of cluster V from clusters I-IV species. Correlation of the distribution of active SINEs and LINEs, as well as similar 3' sequence motifs in CTRT1 and NLRCth1, suggests coevolving retrotransposon pairs in which CTRT1 transposition depends on enzymes active during NLRCth1 LINE mobility.

  8. SINE_scan: an efficient tool to discover short interspersed nuclear elements (SINEs) in large-scale genomic datasets.

    PubMed

    Mao, Hongliang; Wang, Hao

    2017-03-01

    Short Interspersed Nuclear Elements (SINEs) are transposable elements (TEs) that amplify through a copy-and-paste mode via RNA intermediates. The computational identification of new SINEs are challenging because of their weak structural signals and rapid diversification in sequences. Here we report SINE_Scan, a highly efficient program to predict SINE elements in genomic DNA sequences. SINE_Scan integrates hallmark of SINE transposition, copy number and structural signals to identify a SINE element. SINE_Scan outperforms the previously published de novo SINE discovery program. It shows high sensitivity and specificity in 19 plant and animal genome assemblies, of which sizes vary from 120 Mb to 3.5 Gb. It identifies numerous new families and substantially increases the estimation of the abundance of SINEs in these genomes. The code of SINE_Scan is freely available at http://github.com/maohlzj/SINE_Scan , implemented in PERL and supported on Linux. wangh8@fudan.edu.cn. Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press.

  9. SINE_scan: an efficient tool to discover short interspersed nuclear elements (SINEs) in large-scale genomic datasets

    PubMed Central

    Mao, Hongliang

    2017-01-01

    Abstract Motivation: Short Interspersed Nuclear Elements (SINEs) are transposable elements (TEs) that amplify through a copy-and-paste mode via RNA intermediates. The computational identification of new SINEs are challenging because of their weak structural signals and rapid diversification in sequences. Results: Here we report SINE_Scan, a highly efficient program to predict SINE elements in genomic DNA sequences. SINE_Scan integrates hallmark of SINE transposition, copy number and structural signals to identify a SINE element. SINE_Scan outperforms the previously published de novo SINE discovery program. It shows high sensitivity and specificity in 19 plant and animal genome assemblies, of which sizes vary from 120 Mb to 3.5 Gb. It identifies numerous new families and substantially increases the estimation of the abundance of SINEs in these genomes. Availability and Implementation: The code of SINE_Scan is freely available at http://github.com/maohlzj/SINE_Scan, implemented in PERL and supported on Linux. Contact: wangh8@fudan.edu.cn Supplementary information: Supplementary data are available at Bioinformatics online. PMID:28062442

  10. Spatially Extended Relativistic Particles Out of Traveling Front Solutions of Sine-Gordon Equation in (1+2) Dimensions

    PubMed Central

    Zarmi, Yair

    2016-01-01

    Slower-than-light multi-front solutions of the Sine-Gordon in (1+2) dimensions, constructed through the Hirota algorithm, are mapped onto spatially localized structures, which emulate free, spatially extended, massive relativistic particles. A localized structure is an image of the junctions at which the fronts intersect. It propagates together with the multi-front solution at the velocity of the latter. The profile of the localized structure obeys the linear wave equation in (1+2) dimensions, to which a term that represents interaction with a slower-than-light, Sine-Gordon-multi-front solution has been added. This result can be also formulated in terms of a (1+2)-dimensional Lagrangian system, in which the Sine-Gordon and wave equations are coupled. Expanding the Euler-Lagrange equations in powers of the coupling constant, the zero-order part of the solution reproduces the (1+2)-dimensional Sine-Gordon fronts. The first-order part is the spatially localized structure. PACS: 02.30.Ik, 03.65.Pm, 05.45.Yv, 02.30.Ik. PMID:26930077

  11. Scenario Based Approach for Multiple Source Tsunami Hazard Assessment for Sines, Portugal

    NASA Astrophysics Data System (ADS)

    Wronna, Martin; Omira, Rachid; Baptista, Maria Ana

    2015-04-01

    In this paper, we present a scenario-based approach for tsunami hazard assessment for the city and harbour of Sines, Portugal one the test-sites of project ASTARTE. Sines holds one of the most important deep-water ports which contains oil-bearing, petrochemical, liquid bulk, coal and container terminals. The port and its industrial infrastructures are facing the ocean to the southwest facing the main seismogenic sources. This work considers two different seismic zones: the Southwest Iberian Margin and the Gloria Fault. Within these two regions, a total of five scenarios were selected to assess tsunami impact at the test site. These scenarios correspond to the worst-case credible scenario approach based upon the largest events of the historical and paleo tsunami catalogues. The tsunami simulations from the source area towards the coast is carried out using NSWING a Non-linear Shallow Water Model With Nested Grids. The code solves the non-linear shallow water equations using the discretization and explicit leap-frog finite difference scheme, in a Cartesian or Spherical frame. The initial sea surface displacement is assumed to be equal to the sea bottom deformation that is computed by Okada equations. Both uniform and non-uniform slip conditions are used. The presented results correspond to the models using non-uniform slip conditions. In this study, the static effect of tides is analysed for three different tidal stages MLLW (mean lower low water) MSL (mean sea level) and MHHW (mean higher high water). For each scenario, inundation is described by maximum values of wave height, flow depth, drawdown, run-up and inundation distance. Synthetic waveforms are computed at virtual tide gages at specific locations outside and inside the harbour. The final results consist of Aggregate Scenario Maps presented for the different inundation parameters. This work is funded by ASTARTE - Assessment, Strategy And Risk Reduction for Tsunamis in Europe - FP7-ENV2013 6.4-3, Grant 603839

  12. Application of the sine-Poisson equation in solar magnetostatics

    NASA Technical Reports Server (NTRS)

    Webb, G. M.; Zank, G. P.

    1990-01-01

    Solutions of the sine-Poisson equations are used to construct a class of isothermal magnetostatic atmospheres, with one ignorable coordinate corresponding to a uniform gravitational field in a plane geometry. The distributed current in the model (j) is directed along the x-axis, where x is the horizontal ignorable coordinate; (j) varies as the sine of the magnetostatic potential and falls off exponentially with distance vertical to the base with an e-folding distance equal to the gravitational scale height. Solutions for the magnetostatic potential A corresponding to the one-soliton, two-soliton, and breather solutions of the sine-Gordon equation are studied. Depending on the values of the free parameters in the soliton solutions, horizontally periodic magnetostatic structures are obtained possessing either a single X-type neutral point, multiple neural X-points, or solutions without X-points.

  13. Transcriptome-wide effects of inverted SINEs on gene expression and their impact on RNA polymerase II activity.

    PubMed

    Tajaddod, Mansoureh; Tanzer, Andrea; Licht, Konstantin; Wolfinger, Michael T; Badelt, Stefan; Huber, Florian; Pusch, Oliver; Schopoff, Sandy; Janisiw, Michael; Hofacker, Ivo; Jantsch, Michael F

    2016-10-25

    Short interspersed elements (SINEs) represent the most abundant group of non-long-terminal repeat transposable elements in mammalian genomes. In primates, Alu elements are the most prominent and homogenous representatives of SINEs. Due to their frequent insertion within or close to coding regions, SINEs have been suggested to play a crucial role during genome evolution. Moreover, Alu elements within mRNAs have also been reported to control gene expression at different levels. Here, we undertake a genome-wide analysis of insertion patterns of human Alus within transcribed portions of the genome. Multiple, nearby insertions of SINEs within one transcript are more abundant in tandem orientation than in inverted orientation. Indeed, analysis of transcriptome-wide expression levels of 15 ENCODE cell lines suggests a cis-repressive effect of inverted Alu elements on gene expression. Using reporter assays, we show that the negative effect of inverted SINEs on gene expression is independent of known sensors of double-stranded RNAs. Instead, transcriptional elongation seems impaired, leading to reduced mRNA levels. Our study suggests that there is a bias against multiple SINE insertions that can promote intramolecular base pairing within a transcript. Moreover, at a genome-wide level, mRNAs harboring inverted SINEs are less expressed than mRNAs harboring single or tandemly arranged SINEs. Finally, we demonstrate a novel mechanism by which inverted SINEs can impact on gene expression by interfering with RNA polymerase II.

  14. EISCAT observations during MAC/SINE and MAC/Epsilon

    NASA Technical Reports Server (NTRS)

    Roettger, J.; Hoppe, U.-P.; Hall, C.

    1989-01-01

    The EISCAT incoherent scatter radar facility in Tromsoe, Norway was operated during the MAC/SINE campaign for 78 hours in the period 10 June to 17 July 1987, and during the MAC/Epsilon campaign for 90 hours in the period 15 October to 5 November 1987. The VHF (224 MHz) radar operations during MAC/SINE yielded most interesting observations of strong coherent echoes from the mesopause region. Characteristic data of these polar mesospheric summer echoes are presented. The UHF (933 MHz) radar operations during MAC/Epsilon were done with 18 deg off zenith beam and allows the deduction of meridonal and horizontal wind components as well as radial velocity spectra in addition to the usual electron density profiles in the D and lower E regions. Some results from the VHF and UHF radars indicating the presence of gravity waves are examined.

  15. Novel SINE families from salmons validate Parahucho (Salmonidae) as a distinct genus and give evidence that SINEs can incorporate LINE-related 3'-tails of other SINEs.

    PubMed

    Matveev, Vitaliy; Nishihara, Hidenori; Okada, Norihiro

    2007-08-01

    Short interspersed elements (SINEs) constitute a group of retroposons propagating in the genome via a mechanism of reverse transcription, in which they depend on the enzymatic machinery of long retroposons (LINEs). Over 70 SINE families have been described to date from the genomes of various eukaryotes. Here, we characterize two novel SINEs from salmons (Actinopterygii: Salmonoidei). The first family, termed SlmI, was shown to be widespread among all genera of the suborder. These SINEs have a tRNA(Leu)-related promoter region at their 5'-end, a unique central conserved domain with a subfamily-specific region, and an end with RSg-1-LINE-derived 3'-terminus preceding the A/T-rich tail. The same LINE-related segment is also shared by two other salmonid SINEs: HpaI and OS-SINE1. The structural peculiarities and overall sequence identity of the SlmI 3'-terminus suggest that it has been acquired from HpaI SINEs but not directly from the partner LINE. This region plays a crucial role in the process of retrotransposition of short interspersed elements, and the case of its SINE-to-SINE transmission is the first recorded to date. Possible scenarios and potential evolutionary implications of the observed interaction between short retroposons are discussed. Apart from the above, we found a copy of the SlmI SINE in the GenBank entry for the blood fluke, Schistosoma japonicum (Trematoda: Strigeiformes) -- a trematode causing one of the most important human helminth infections, with its genome known to host other groups of salmonoid retroposons. In the present article, we suggest our views with regard to possible ways in which such an intensive horizontal transfer of salmonoid retroposons to the schistosomal genome occurs. The second novel SINE family, termed SlmII, originates from one of the SlmI subfamilies, with which it shares the same tRNA-related region, central domain, and a part of RSg-1-derived segment, but has a different 3'-tail of unidentified origin. Its distribution

  16. Bov-B-mobilized SINEs in vertebrate genomes.

    PubMed

    Gogolevsky, Konstantin P; Vassetzky, Nikita S; Kramerov, Dmitri A

    2008-01-15

    Two new short retroposon families (SINEs) have been found in the genome of springhare Pedetes capensis (Rodentia). One of them, Ped-1, originated from 5S rRNA, while the other one, Ped-2, originated from tRNA-derived SINE ID. In contrast to most currently active mammalian SINEs mobilized by L1 long retrotransposon (LINE), Ped-1 and Ped-2 are mobilized by Bov-B, a LINE family of the widely distributed RTE clade. The 3' part of these SINEs originates from two sequences in the 5' and 3' regions of Bov-B. Such bipartite structure of the LINE-derived part has been revealed in all Bov-B-mobilized SINEs known to date (AfroSINE, Bov-tA, Mar-1, and Ped-1/2), which distinguishes them from other SINEs with only a 3' LINE-derived part. Structural analysis and the distribution of Bov-B LINEs and partner SINEs supports the horizontal transfer of Bov-B, while the SINEs emerged independently in lineages with this LINE.

  17. Formation of Large-Amplitude Wave Groups in an Experimental Model Basin

    DTIC Science & Technology

    2008-08-01

    varying parameters, including amplitude, frequency, and signal duration. Superposition of thes finite regular waves produced repeatable wave groups at a...19 Regular Waves 20 Irregular Waves 21 Senix Wave Gages 21 GLRP 23 Instrumentation Calibration and Uncertainty 26 Senix Ultrasonic Wave Gages... signal output from sine wave superposition, two sine waves combined: x] + x2 (top) and x3 + x4 (middle), all four waves (x, + x2 + x, + xA

  18. SINEBase: a database and tool for SINE analysis.

    PubMed

    Vassetzky, Nikita S; Kramerov, Dmitri A

    2013-01-01

    SINEBase (http://sines.eimb.ru) integrates the revisited body of knowledge about short interspersed elements (SINEs). A set of formal definitions concerning SINEs was introduced. All available sequence data were screened through these definitions and the genetic elements misidentified as SINEs were discarded. As a result, 175 SINE families have been recognized in animals, flowering plants and green algae. These families were classified by the modular structure of their nucleotide sequences and the frequencies of different patterns were evaluated. These data formed the basis for the database of SINEs. The SINEBase website can be used in two ways: first, to explore the database of SINE families, and second, to analyse candidate SINE sequences using specifically developed tools. This article presents an overview of the database and the process of SINE identification and analysis.

  19. SINEBase: a database and tool for SINE analysis

    PubMed Central

    Vassetzky, Nikita S.; Kramerov, Dmitri A.

    2013-01-01

    SINEBase (http://sines.eimb.ru) integrates the revisited body of knowledge about short interspersed elements (SINEs). A set of formal definitions concerning SINEs was introduced. All available sequence data were screened through these definitions and the genetic elements misidentified as SINEs were discarded. As a result, 175 SINE families have been recognized in animals, flowering plants and green algae. These families were classified by the modular structure of their nucleotide sequences and the frequencies of different patterns were evaluated. These data formed the basis for the database of SINEs. The SINEBase website can be used in two ways: first, to explore the database of SINE families, and second, to analyse candidate SINE sequences using specifically developed tools. This article presents an overview of the database and the process of SINE identification and analysis. PMID:23203982

  20. Bayesian reconstruction of gravitational wave bursts using chirplets

    NASA Astrophysics Data System (ADS)

    Millhouse, Margaret; Cornish, Neil; Littenberg, Tyson

    2017-01-01

    The BayesWave algorithm has been shown to accurately reconstruct unmodeled short duration gravitational wave bursts and to distinguish between astrophysical signals and transient noise events. BayesWave does this by using a variable number of sine-Gaussian (Morlet) wavelets to reconstruct data in multiple interferometers. While the Morlet wavelets can be summed together to produce any possible waveform, there could be other wavelet functions that improve the performance. Because we expect most astrophysical gravitational wave signals to evolve in frequency, modified Morlet wavelets with linear frequency evolution - called chirplets - may better reconstruct signals with fewer wavelets. We compare the performance of BayesWave using Morlet wavelets and chirplets on a variety of simulated signals.

  1. Newly discovered young CORE-SINEs in marsupial genomes.

    PubMed

    Munemasa, Maruo; Nikaido, Masato; Nishihara, Hidenori; Donnellan, Stephen; Austin, Christopher C; Okada, Norihiro

    2008-01-15

    Although recent mammalian genome projects have uncovered a large part of genomic component of various groups, several repetitive sequences still remain to be characterized and classified for particular groups. The short interspersed repetitive elements (SINEs) distributed among marsupial genomes are one example. We have identified and characterized two new SINEs from marsupial genomes that belong to the CORE-SINE family, characterized by a highly conserved "CORE" domain. PCR and genomic dot blot analyses revealed that the distribution of each SINE shows distinct patterns among the marsupial genomes, implying different timing of their retroposition during the evolution of marsupials. The members of Mar3 (Marsupialia 3) SINE are distributed throughout the genomes of all marsupials, whereas the Mac1 (Macropodoidea 1) SINE is distributed specifically in the genomes of kangaroos. Sequence alignment of the Mar3 SINEs revealed that they can be further divided into four subgroups, each of which has diagnostic nucleotides. The insertion patterns of each SINE at particular genomic loci, together with the distribution patterns of each SINE, suggest that the Mar3 SINEs have intensively amplified after the radiation of diprotodontians, whereas the Mac1 SINE has amplified only slightly after the divergence of hypsiprimnodons from other macropods. By compiling the information of CORE-SINEs characterized to date, we propose a comprehensive picture of how SINE evolution occurred in the genomes of marsupials.

  2. Sine-Gordon equation and its application to tectonic stress transfer

    NASA Astrophysics Data System (ADS)

    Bykov, Victor G.

    2014-07-01

    An overview is given on remarkable progress that has been made in theoretical studies of solitons and other nonlinear wave patterns, excited during the deformation of fault block (fragmented) geological media. The models that are compliant with the classical and perturbed sine-Gordon equations have only been chosen. In these mathematical models, the rotation angle of blocks (fragments) and their translatory displacement of the medium are used as dynamic variables. A brief description of the known models and their geophysical and geodynamic applications is given. These models reproduce the kinematic and dynamic features of the traveling deformation front (kink, soliton) generated in the fragmented media. It is demonstrated that the sine-Gordon equation is applicable to the description of series of the observed seismic data, modeling of strain waves, as well as the features related to fault dynamics and the subduction slab, including slow earthquakes, periodicity of episodic tremor and slow slip (ETS) events, and migration pattern of tremors. The study shows that simple heuristic models and analytical and numerical computations can explain triggering of seismicity by transient processes, such as stress changes associated with solitary strain waves in crustal faults. The need to develop the above-mentioned new (nonlinear) mathematical models of the deformed fault and fragmented media was caused by the reason that it is impossible to explain a lot of the observed effects, particularly, slow redistribution and migration of stresses in the lithosphere, within the framework of the linear elasticity theory.

  3. Short interspersed elements (SINEs) from insectivores. Two classes of mammalian SINEs distinguished by A-rich tail structure.

    PubMed

    Borodulina, O R; Kramerov, D A

    2001-10-01

    Four tRNA-related SINE families were isolated from the genome of the shrew Sorex araneus (SOR element), mole Mogera robusta (TAL element), and hedgehog Mesechinus dauuricus (ERI-1 and ERI-2 elements). Each of these SINEs families is specific for a single Insectivora family: SOR, for Soricidae (shrews); TAL, for Talpidae (moles and desmans); ERI-1 and ERI-2, for Erinaceidae (hedgehogs). There is a long polypyrimidine region (TC-motif) in TAL, ERI-1, and ERI-2 elements located immediately upstream of an A-rich tail with polyadenylation signals (AATAAA) and an RNA polymerase III terminator (T(4-6)) or TCT(3-4)). Ten out of 14 analyzed mammalian tRNA-related SINE families have an A-rich tail similar to that of TAL, ERI-1, and ERI-2 elements. These elements were assigned to class T+. The other four SINEs including SOR element have no polyadenylation signal and transcription terminator in their A-rich tail and were assigned to class T-. Class T+ SINEs occur only in mammals, and most of them have a long polypyrimidine region. Possible models of retroposition of class T+ and T- SINEs are discussed.

  4. Short interspersed elements (SINEs) of the Geomyoidea superfamily rodents.

    PubMed

    Gogolevsky, Konstantin P; Kramerov, Dmitri A

    2006-05-24

    A new short interspersed element (SINE) was isolated from the genome of desert kangaroo rat (Dipodomys deserti) using single-primer PCR. This SINE consists of two monomers: the left monomer (IDL) resembles rodent ID element and other tRNAAla(CGC)-derived SINEs, whereas the right one (Geo) shows no similarity with known SINE sequences. PCR and hybridization analyses demonstrated that IDL-Geo SINE is restricted to the rodent superfamily Geomyoidea (families Geomyidea and Heteromyidea). Isolation and analysis of IDL-Geo from California pocket mouse (Chaetodipus californicus) and Botta's pocket gopher (Thomomys bottae) revealed some species-specific features of this SINE family. The structure and evolution of known dimeric SINEs are discussed.

  5. Comparative evolution history of SINEs in Arabidopsis thaliana and Brassica oleracea: evidence for a high rate of SINE loss.

    PubMed

    Lenoir, A; Pélissier, T; Bousquet-Antonelli, C; Deragon, J M

    2005-01-01

    Brassica oleracea and Arabidopsis thaliana belong to the Brassicaceae(Cruciferae) family and diverged 16 to 19 million years ago. Although the genome size of B. oleracea (approximately 600 million base pairs) is more than four times that of A. thaliana (approximately 130 million base pairs), their gene content is believed to be very similar with more than 85% sequence identity in the coding region. Therefore, this important difference in genome size is likely to reflect a different rate of non-coding DNA accumulation. Transposable elements (TEs) constitute a major fraction of non-coding DNA in plant species. A different rate in TE accumulation between two closely related species can result in significant genome size variations in a short evolutionary period. Short interspersed elements (SINEs) are non-autonomous retroposons that have invaded the genome of most eukaryote species. Several SINE families are present in B. oleracea and A. thaliana and we found that two of them (called RathE1 and RathE2) are present in both species. In this study, the tempo of evolution of RathE1 and RathE2 SINE families in both species was compared. We observed that most B. oleracea RathE2 SINEs are "young" (close to the consensus sequence) and abundant while elements from this family are more degenerated and much less abundant in A. thaliana. However, the situation is different for the RathE1 SINE family for which the youngest elements are found in A. thaliana. Surprisingly, no SINE was found to occupy the same (orthologous) genomic locus in both species suggesting that either these SINE families were not amplified at a significant rate in the common ancestor of the two species or that older elements were lost and only the recent (lineage-specific) insertions remain. To test this latter hypothesis, loci containing a recently inserted SINE in the A. thaliana col-0 ecotype were selected and characterized in several other A. thaliana ecotypes. In addition to the expected SINE containing

  6. Design and Implementation of an Electronic Front-End Based on Square Wave Excitation for Ultrasonic Torsional Guided Wave Viscosity Sensor

    PubMed Central

    Rabani, Amir

    2016-01-01

    The market for process instruments generally requires low cost devices that are robust, small in size, portable, and usable in-plant. Ultrasonic torsional guided wave sensors have received much attention by researchers for measurement of viscosity and/or density of fluids in recent years. The supporting electronic systems for these sensors providing many different settings of sine-wave signals are bulky and expensive. In contrast, a system based on bursts of square waves instead of sine waves would have a considerable advantage in that respect and could be built using simple integrated circuits at a cost that is orders of magnitude lower than for a windowed sine wave device. This paper explores the possibility of using square wave bursts as the driving signal source for the ultrasonic torsional guided wave viscosity sensor. A simple design of a compact and fully automatic analogue square wave front-end for the sensor is also proposed. The successful operation of the system is demonstrated by using the sensor for measuring the viscosity in a representative fluid. This work provides the basis for design and manufacture of low cost compact standalone ultrasonic guided wave sensors and enlightens the possibility of using coded excitation techniques utilising square wave sequences in such applications. PMID:27754324

  7. Design and Implementation of an Electronic Front-End Based on Square Wave Excitation for Ultrasonic Torsional Guided Wave Viscosity Sensor.

    PubMed

    Rabani, Amir

    2016-10-12

    The market for process instruments generally requires low cost devices that are robust, small in size, portable, and usable in-plant. Ultrasonic torsional guided wave sensors have received much attention by researchers for measurement of viscosity and/or density of fluids in recent years. The supporting electronic systems for these sensors providing many different settings of sine-wave signals are bulky and expensive. In contrast, a system based on bursts of square waves instead of sine waves would have a considerable advantage in that respect and could be built using simple integrated circuits at a cost that is orders of magnitude lower than for a windowed sine wave device. This paper explores the possibility of using square wave bursts as the driving signal source for the ultrasonic torsional guided wave viscosity sensor. A simple design of a compact and fully automatic analogue square wave front-end for the sensor is also proposed. The successful operation of the system is demonstrated by using the sensor for measuring the viscosity in a representative fluid. This work provides the basis for design and manufacture of low cost compact standalone ultrasonic guided wave sensors and enlightens the possibility of using coded excitation techniques utilising square wave sequences in such applications.

  8. Towards mitigating the effect of sine-Gaussian noise transients on searches for gravitational waves from compact binary coalescences

    NASA Astrophysics Data System (ADS)

    Bose, Sukanta; Dhurandhar, Sanjeev; Gupta, Anuradha; Lundgren, Andrew

    2016-12-01

    Gravitational wave signals were recently detected directly by LIGO from the coalescences of two stellar mass black hole pairs. These detections have strengthened our long held belief that compact binary coalescences (CBCs) are the most promising gravitational wave detection prospects accessible to ground-based interferometric detectors. For detecting CBC signals, it is of vital importance to characterize and identify non-Gaussian and nonstationary noise in these detectors. In this work, we model two important classes of transient artifacts that contribute to this noise and adversely affect the detector sensitivity to CBC signals. One of them is the sine-Gaussian "glitch," characterized by a central frequency f0 and a quality factor Q and the other is the chirping sine-Gaussian glitch, which is characterized by f0, Q as well as a chirp parameter. We study the response that a bank of compact binary inspiral templates has to these two families of glitches when they are used to match filter data containing any of these glitches. Two important characteristics of this response are the distributions of the signal-to-noise ratio and the time lag (i.e., how long after the occurrence of a glitch the signal-to-noise ratio of a trigger arises from its matched filtering by a template peaks) of individual templates. We show how these distributions differ from those when the detector data has a real CBC signal instead of a glitch. We argue that these distinctions can be utilized to develop useful signal-artifact discriminators that add negligibly to the computational cost of a CBC search. Specifically, we show how the central frequency of a glitch can be used to set adaptive time windows around it so that any template trigger occurring in that window can be quarantined for further vetting of its supposed astrophysical nature. Second, we recommend focusing efforts on reducing the incidence of glitches with low central-frequency values because they create CBC triggers with the

  9. Functional noncoding sequences derived from SINEs in the mammalian genome.

    PubMed

    Nishihara, Hidenori; Smit, Arian F A; Okada, Norihiro

    2006-07-01

    Recent comparative analyses of mammalian sequences have revealed that a large number of nonprotein-coding genomic regions are under strong selective constraint. Here, we report that some of these loci have been derived from a newly defined family of ancient SINEs (short interspersed repetitive elements). This is a surprising result, as SINEs and other transposable elements are commonly thought to be genomic parasites. We named the ancient SINE family AmnSINE1, for Amniota SINE1, because we found it to be present in mammals as well as in birds, and some copies predate the mammalian-bird split 310 million years ago (Mya). AmnSINE1 has a chimeric structure of a 5S rRNA and a tRNA-derived SINE, and is related to five tRNA-derived SINE families that we characterized here in the coelacanth, dogfish shark, hagfish, and amphioxus genomes. All of the newly described SINE families have a common central domain that is also shared by zebrafish SINE3, and we collectively name them the DeuSINE (Deuterostomia SINE) superfamily. Notably, of the approximately 1000 still identifiable copies of AmnSINE1 in the human genome, 105 correspond to loci phylogenetically highly conserved among mammalian orthologs. The conservation is strongest over the central domain. Thus, AmnSINE1 appears to be the best example of a transposable element of which a significant fraction of the copies have acquired genomic functionality.

  10. Functional noncoding sequences derived from SINEs in the mammalian genome

    PubMed Central

    Nishihara, Hidenori; Smit, Arian F.A.; Okada, Norihiro

    2006-01-01

    Recent comparative analyses of mammalian sequences have revealed that a large number of nonprotein-coding genomic regions are under strong selective constraint. Here, we report that some of these loci have been derived from a newly defined family of ancient SINEs (short interspersed repetitive elements). This is a surprising result, as SINEs and other transposable elements are commonly thought to be genomic parasites. We named the ancient SINE family AmnSINE1, for Amniota SINE1, because we found it to be present in mammals as well as in birds, and some copies predate the mammalian-bird split 310 million years ago (Mya). AmnSINE1 has a chimeric structure of a 5S rRNA and a tRNA-derived SINE, and is related to five tRNA-derived SINE families that we characterized here in the coelacanth, dogfish shark, hagfish, and amphioxus genomes. All of the newly described SINE families have a common central domain that is also shared by zebrafish SINE3, and we collectively name them the DeuSINE (Deuterostomia SINE) superfamily. Notably, of the ∼1000 still identifiable copies of AmnSINE1 in the human genome, 105 correspond to loci phylogenetically highly conserved among mammalian orthologs. The conservation is strongest over the central domain. Thus, AmnSINE1 appears to be the best example of a transposable element of which a significant fraction of the copies have acquired genomic functionality. PMID:16717141

  11. Sine-Gordon Equation in (1+2) and (1+3) dimensions: Existence and Classification of Traveling-Wave Solutions.

    PubMed

    Zarmi, Yair

    2015-01-01

    The (1+1)-dimensional Sine-Gordon equation passes integrability tests commonly applied to nonlinear evolution equations. Its kink solutions (one-dimensional fronts) are obtained by a Hirota algorithm. In higher space-dimensions, the equation does not pass these tests. Although it has been derived over the years for quite a few physical systems that have nothing to do with Special Relativity, the Sine-Gordon equation emerges as a non-linear relativistic wave equation. This opens the way for exploiting the tools of the Theory of Special Relativity. Using no more than the relativistic kinematics of tachyonic momentum vectors, from which the solutions are constructed through the Hirota algorithm, the existence and classification of N-moving-front solutions of the (1+2)- and (1+3)-dimensional equations for all N ≥ 1 are presented. In (1+2) dimensions, each multi-front solution propagates rigidly at one velocity. The solutions are divided into two subsets: Solutions whose velocities are lower than a limiting speed, c = 1, or are greater than or equal to c. To connect with concepts of the Theory of Special Relativity, c will be called "the speed of light." In (1+3)-dimensions, multi-front solutions are characterized by spatial structure and by velocity composition. The spatial structure is either planar (rotated (1+2)-dimensional solutions), or genuinely three-dimensional--branes. Planar solutions, propagate rigidly at one velocity, which is lower than, equal to, or higher than c. Branes must contain clusters of fronts whose speed exceeds c = 1. Some branes are "hybrids": different clusters of fronts propagate at different velocities. Some velocities may be lower than c but some must be equal to, or exceed, c. Finally, the speed of light cannot be approached from within the subset of slower-than-light solutions in both (1+2) and (1+3) dimensions.

  12. Ground vibration test results of a JetStar airplane using impulsive sine excitation

    NASA Technical Reports Server (NTRS)

    Kehoe, Michael W.; Voracek, David F.

    1989-01-01

    Structural excitation is important for both ground vibration and flight flutter testing. The structural responses caused by this excitation are analyzed to determine frequency, damping, and mode shape information. Many excitation waveforms have been used throughout the years. The use of impulsive sine (sin omega t)/omega t as an excitation waveform for ground vibration testing and the advantages of using this waveform for flight flutter testing are discussed. The ground vibration test results of a modified JetStar airplane using impulsive sine as an excitation waveform are compared with the test results of the same airplane using multiple-input random excitation. The results indicated that the structure was sufficiently excited using the impulsive sine waveform. Comparisons of input force spectrums, mode shape plots, and frequency and damping values for the two methods of excitation are presented.

  13. Light redirecting system using sine-wave based panels for dense urban areas

    NASA Astrophysics Data System (ADS)

    Mohamed, Mohamed W. N.; Mashaly, Islam A.; Mohamed, Osama N.; El-Henawy, Sally I.; Galal, Ola; Taha, Iman; Nassar, Khaled; Safwat, Amr M. E.

    2014-09-01

    Cities and towns around the world are becoming more condensed due to the shrinking amount of buildable areas, which significantly reduces the amount of light that occupants have access to. This lack of natural lighting results in health, safety and quality of life degradation. This paper presents a new technique of transmitting sunlight downward into narrow alleys and streets, by using a daylighting guiding acrylic panel that is capable of changing the direction and distribution of the incident light. The core of the proposed daylight guidance system is made up of light transmission panels with high quality. The corrugations have sine wave shaped cross-section so that the panel functions as an optical diffuser perpendicular to the direction of sunlight propagation. The day lighting system consists of the corrugated panels and a lattice frame, which supports the panel. The proposed system is to be mounted on the building roof facing the sun so as to redirect the incident sunlight downward into the narrow alleys or streets. Since building sizes and orientations are different the frame is arranged such that substantially deep light penetration and high luminance level can be achieved. Simulation results show that the proposed panel improves the illuminance values by more than 200% and 400% in autumn and winter, respectively, provides fan-out angle that exceeds 80° for certain solar altitudes and the transmitted power percentage varies from 40% to 90% as the solar altitude varies from 10° to 80°. Experimental results are in a good agreement with the simulations.

  14. Conserved domains and SINE diversity during animal evolution.

    PubMed

    Luchetti, Andrea; Mantovani, Barbara

    2013-10-01

    Eukaryotic genomes harbour a number of mobile genetic elements (MGEs); moving from one genomic location to another, they are known to impact on the host genome. Short interspersed elements (SINEs) are well-represented, non-autonomous retroelements and they are likely the most diversified MGEs. In some instances, sequence domains conserved across unrelated SINEs have been identified; remarkably, one of these, called Nin, has been conserved since the Radiata-Bilateria splitting. Here we report on two new domains: Inv, derived from Nin, identified in insects and in deuterostomes, and Pln, restricted to polyneopteran insects. The identification of Inv and Pln sequences allowed us to retrieve new SINEs, two in insects and one in a hemichordate. The diverse structural combination of the different domains in different SINE families, during metazoan evolution, offers a clearer view of SINE diversity and their frequent de novo emergence through module exchange, possibly underlying the high evolutionary success of SINEs. © 2013 Elsevier Inc. All rights reserved.

  15. Origin and evolution of SINEs in eukaryotic genomes.

    PubMed

    Kramerov, D A; Vassetzky, N S

    2011-12-01

    Short interspersed elements (SINEs) are one of the two most prolific mobile genomic elements in most of the higher eukaryotes. Although their biology is still not thoroughly understood, unusual life cycle of these simple elements amplified as genomic parasites makes their evolution unique in many ways. In contrast to most genetic elements including other transposons, SINEs emerged de novo many times in evolution from available molecules (for example, tRNA). The involvement of reverse transcription in their amplification cycle, huge number of genomic copies and modular structure allow variation mechanisms in SINEs uncommon or rare in other genetic elements (module exchange between SINE families, dimerization, and so on.). Overall, SINE evolution includes their emergence, progressive optimization and counteraction to the cell's defense against mobile genetic elements.

  16. SINE sequences detect DNA fingerprints in salmonid fishes.

    PubMed

    Spruell, P; Thorgaard, G H

    1996-04-01

    DNA probes homologous to two previously described salmonid short interspersed nuclear elements (SINEs) detected DNA fingerprint patterns in 14 species of salmonid fishes. The probes showed more homology to some species than to others and little homology to three nonsalmonid fishes. The DNA fingerprint patterns derived from the SINE probes are individual-specific and inherited in a Mendelian manner. Probes derived from different regions of the same SINE detect only partially overlapping banding patterns, reflecting a more complex SINE structure than has been previously reported. Like the human Alu sequence, the SINEs found in salmonids could provide useful genetic markers and primer sites for PCR-based techniques. These elements may be more desirable for some applications than traditional DNA fingerprinting probes that detect tandemly repeated arrays.

  17. SINEs as driving forces in genome evolution.

    PubMed

    Schmitz, J

    2012-01-01

    SINEs are short interspersed elements derived from cellular RNAs that repetitively retropose via RNA intermediates and integrate more or less randomly back into the genome. SINEs propagate almost entirely vertically within their host cells and, once established in the germline, are passed on from generation to generation. As non-autonomous elements, their reverse transcription (from RNA to cDNA) and genomic integration depends on the activity of the enzymatic machinery of autonomous retrotransposons, such as long interspersed elements (LINEs). SINEs are widely distributed in eukaryotes, but are especially effectively propagated in mammalian species. For example, more than a million Alu-SINE copies populate the human genome (approximately 13% of genomic space), and few master copies of them are still active. In the organisms where they occur, SINEs are a challenge to genomic integrity, but in the long term also can serve as beneficial building blocks for evolution, contributing to phenotypic heterogeneity and modifying gene regulatory networks. They substantially expand the genomic space and introduce structural variation to the genome. SINEs have the potential to mutate genes, to alter gene expression, and to generate new parts of genes. A balanced distribution and controlled activity of such properties is crucial to maintaining the organism's dynamic and thriving evolution. Copyright © 2012 S. Karger AG, Basel.

  18. Selective repression of SINE transcription by RNA polymerase III.

    PubMed

    Varshney, Dhaval; Vavrova-Anderson, Jana; Oler, Andrew J; Cairns, Bradley R; White, Robert J

    2015-01-01

    A million copies of the Alu short interspersed nuclear element (SINE) are scattered throughout the human genome, providing ∼11% of our total DNA. SINEs spread by retrotransposition, using a transcript generated by RNA polymerase (pol) III from an internal promoter. Levels of these pol III-dependent Alu transcripts are far lower than might be expected from the abundance of the template. This was believed to reflect transcriptional suppression through DNA methylation, denying pol III access to most SINEs through chromatin-mediated effects. Contrary to expectations, our recent study found no evidence that methylation of SINE DNA reduces its occupancy or expression by pol III. However, histone H3 associated with SINEs is prominently methylated on lysine 9, a mark that correlates with transcriptional silencing. The SUV39 methyltransferases that deposit this mark can be found at many SINEs. Furthermore, a selective inhibitor of SUV39 stimulates pol III recruitment to these loci, as well as SINE expression. These data suggest that methylation of histone H3 rather than DNA may mediate repression of SINE transcription by pol III, at least under the conditions we studied.

  19. Guinea Pig ID-Like Families of SINEs

    PubMed Central

    Kass, David H.; Schaetz, Brian A.; Beitler, Lindsey; Bonney, Kevin M.; Jamison, Nicole; Wiesner, Cathy

    2009-01-01

    Previous studies have indicated a paucity of SINEs within the genomes of the guinea pig and nutria, representatives of the Hystricognathi suborder of rodents. More recent work has shown that the guinea pig genome contains a large number of B1 elements, expanding to various levels among different rodents. In this work we utilized A–B PCR and screened GenBank with sequences from isolated clones to identify potentially uncharacterized SINEs within the guinea pig genome, and identified numerous sequences with a high degree of similarity (>92%) specific to the guinea pig. The presence of A-tails and flanking direct repeats associated with these sequences supported the identification of a full-length SINE, with a consensus sequence notably distinct from other rodent SINEs. Although most similar to the ID SINE, it clearly was not derived from the known ID master gene (BC1), hence we refer to this element as guinea pig ID-like (GPIDL). Using the consensus to screen the guinea pig genomic database (Assembly CavPor2) with Ensembl BlastView, we estimated at least 100,000 copies, which contrasts markedly to just over 100 copies of ID elements. Additionally we provided evidence of recent integrations of GPIDL as two of seven analyzed conserved GPIDL-containing loci demonstrated presence/absence variants in Cavia porcellus and C. aperea. Using intra-IDL PCR and sequence analyses we also provide evidence that GPIDL is derived from a hystricognath-specific SINE family. These results demonstrate that this SINE family continues to contribute to the dynamics of genomes of hystricognath rodents. PMID:19232383

  20. Guinea pig ID-like families of SINEs.

    PubMed

    Kass, David H; Schaetz, Brian A; Beitler, Lindsey; Bonney, Kevin M; Jamison, Nicole; Wiesner, Cathy

    2009-05-01

    Previous studies have indicated a paucity of SINEs within the genomes of the guinea pig and nutria, representatives of the Hystricognathi suborder of rodents. More recent work has shown that the guinea pig genome contains a large number of B1 elements, expanding to various levels among different rodents. In this work we utilized A-B PCR and screened GenBank with sequences from isolated clones to identify potentially uncharacterized SINEs within the guinea pig genome, and identified numerous sequences with a high degree of similarity (>92%) specific to the guinea pig. The presence of A-tails and flanking direct repeats associated with these sequences supported the identification of a full-length SINE, with a consensus sequence notably distinct from other rodent SINEs. Although most similar to the ID SINE, it clearly was not derived from the known ID master gene (BC1), hence we refer to this element as guinea pig ID-like (GPIDL). Using the consensus to screen the guinea pig genomic database (Assembly CavPor2) with Ensembl BlastView, we estimated at least 100,000 copies, which contrasts markedly to just over 100 copies of ID elements. Additionally we provided evidence of recent integrations of GPIDL as two of seven analyzed conserved GPIDL-containing loci demonstrated presence/absence variants in Cavia porcellus and C. aperea. Using intra-IDL PCR and sequence analyses we also provide evidence that GPIDL is derived from a hystricognath-specific SINE family. These results demonstrate that this SINE family continues to contribute to the dynamics of genomes of hystricognath rodents.

  1. Origin and evolution of SINEs in eukaryotic genomes

    PubMed Central

    Kramerov, D A; Vassetzky, N S

    2011-01-01

    Short interspersed elements (SINEs) are one of the two most prolific mobile genomic elements in most of the higher eukaryotes. Although their biology is still not thoroughly understood, unusual life cycle of these simple elements amplified as genomic parasites makes their evolution unique in many ways. In contrast to most genetic elements including other transposons, SINEs emerged de novo many times in evolution from available molecules (for example, tRNA). The involvement of reverse transcription in their amplification cycle, huge number of genomic copies and modular structure allow variation mechanisms in SINEs uncommon or rare in other genetic elements (module exchange between SINE families, dimerization, and so on.). Overall, SINE evolution includes their emergence, progressive optimization and counteraction to the cell's defense against mobile genetic elements. PMID:21673742

  2. Overview of multi-input frequency domain modal testing methods with an emphasis on sine testing

    NASA Technical Reports Server (NTRS)

    Rost, Robert W.; Brown, David L.

    1988-01-01

    An overview of the current state of the art multiple-input, multiple-output modal testing technology is discussed. A very brief review of the current time domain methods is given. A detailed review of frequency and spatial domain methods is presented with an emphasis on sine testing.

  3. SINEs, evolution and genome structure in the opossum.

    PubMed

    Gu, Wanjun; Ray, David A; Walker, Jerilyn A; Barnes, Erin W; Gentles, Andrew J; Samollow, Paul B; Jurka, Jerzy; Batzer, Mark A; Pollock, David D

    2007-07-01

    Short INterspersed Elements (SINEs) are non-autonomous retrotransposons, usually between 100 and 500 base pairs (bp) in length, which are ubiquitous components of eukaryotic genomes. Their activity, distribution, and evolution can be highly informative on genomic structure and evolutionary processes. To determine recent activity, we amplified more than one hundred SINE1 loci in a panel of 43 M. domestica individuals derived from five diverse geographic locations. The SINE1 family has expanded recently enough that many loci were polymorphic, and the SINE1 insertion-based genetic distances among populations reflected geographic distance. Genome-wide comparisons of SINE1 densities and GC content revealed that high SINE1 density is associated with high GC content in a few long and many short spans. Young SINE1s, whether fixed or polymorphic, showed an unbiased GC content preference for insertion, indicating that the GC preference accumulates over long time periods, possibly in periodic bursts. SINE1 evolution is thus broadly similar to human Alu evolution, although it has an independent origin. High GC content adjacent to SINE1s is strongly correlated with bias towards higher AT to GC substitutions and lower GC to AT substitutions. This is consistent with biased gene conversion, and also indicates that like chickens, but unlike eutherian mammals, GC content heterogeneity (isochore structure) is reinforced by substitution processes in the M. domestica genome. Nevertheless, both high and low GC content regions are apparently headed towards lower GC content equilibria, possibly due to a relative shift to lower recombination rates in the recent Monodelphis ancestral lineage. Like eutherians, metatherian (marsupial) mammals have evolved high CpG substitution rates, but this is apparently a convergence in process rather than a shared ancestral state.

  4. Analysis of swept-sine runs during modal identification

    NASA Astrophysics Data System (ADS)

    Gloth, G.; Sinapius, M.

    2004-11-01

    Experimental modal analysis of large aerospace structures in Europe combine nowadays the benefits of the very reliable but time-consuming phase resonance method and the application of phase separation techniques evaluating frequency response functions (FRF). FRFs of a test structure can be determined by a variety of means. Applied excitation signal waveforms include harmonic signals like stepped-sine excitation, periodic signals like multi-sine excitation, transient signals like impulse and swept-sine excitation, and stochastic signals like random. The current article focuses on slow swept-sine excitation which is a good trade-off between magnitude of excitation level needed for large aircraft and testing time. However, recent ground vibration tests (GVTs) brought up that reliable modal data from swept-sine test runs depend on a proper data processing. The article elucidates the strategy of modal analysis based on swept-sine excitation. The standards for the application of slowly swept sinusoids defined by the international organisation for standardisation in ISO 7626 part 2 are critically reviewed. The theoretical background of swept-sine testing is expounded with particular emphasis to the transition through structural resonances. The effect of different standard procedures of data processing like tracking filter, fast Fourier transform (FFT), and data reduction via averaging are investigated with respect to their influence on the FRFs and modal parameters. Particular emphasis is given to FRF distortions evoked by unsuitable data processing. All data processing methods are investigated on a numerical example. Their practical usefulness is demonstrated on test data taken from a recent GVT on a large aircraft. The revision of ISO 7626 part 2 is suggested regarding the application of slow swept-sine excitation. Recommendations about the proper FRF estimation from slow swept-sine excitation are given in order to enable the optimisation on these applications for

  5. Evaluation of quasi-square wave inverter as a power source for induction motors

    NASA Technical Reports Server (NTRS)

    Guynes, B. V.; Haggard, R. L.; Lanier, J. R., Jr.

    1977-01-01

    The relative merits of quasi-square wave inverter-motor technology versus a sine wave inverter-motor system were investigated. The empirical results of several tests on various sizes of wye-wound induction motors are presented with mathematical analysis to support the conclusions of the study. It was concluded that, within the limitations presented, the quasi-square wave inverter-motor system is superior to the more complex sine wave system for most induction motor applications in space.

  6. Isolation and characterization of active LINE and SINEs from the eel.

    PubMed

    Kajikawa, Masaki; Ichiyanagi, Kenji; Tanaka, Nozomu; Okada, Norihiro

    2005-03-01

    Long interspersed elements (LINEs) and short interspersed elements (SINEs) are retrotransposons. These elements can mobilize by the "copy-and-paste" mechanism, in which their own RNA is reverse-transcribed into complementary DNA (cDNA). LINEs and SINEs not only are components of eukaryotic genomes but also drivers of genomic evolution. Thus, studies of the amplification mechanism of LINEs and SINEs are important for understanding eukaryotic genome evolution. Here we report the characterization of one LINE family (UnaL2) and two SINE families (UnaSINE1 and UnaSINE2) from the eel (Anguilla japonica) genome. UnaL2 is approximately 3.6 kilobases (kb) and encodes only one open reading frame (ORF). UnaL2 belongs to the stringent type--thought to be a major group of LINEs--and can mobilize in HeLa cells. We also show that UnaL2 and the two UnaSINEs have similar 3' tails, and that both UnaSINE1 and UnaSINE2 can be mobilized by UnaL2 in HeLa cells. These elements are thus useful for delineating the amplification mechanism of stringent type LINEs as well as that of SINEs.

  7. Inverse PCR-based method for isolating novel SINEs from genome.

    PubMed

    Han, Yawei; Chen, Liping; Guan, Lihong; He, Shunping

    2014-04-01

    Short interspersed elements (SINEs) are moderately repetitive DNA sequences in eukaryotic genomes. Although eukaryotic genomes contain numerous SINEs copy, it is very difficult and laborious to isolate and identify them by the reported methods. In this study, the inverse PCR was successfully applied to isolate SINEs from Opsariichthys bidens genome in Eastern Asian Cyprinid. A group of SINEs derived from tRNA(Ala) molecular had been identified, which were named Opsar according to Opsariichthys. SINEs characteristics were exhibited in Opsar, which contained a tRNA(Ala)-derived region at the 5' end, a tRNA-unrelated region, and AT-rich region at the 3' end. The tRNA-derived region of Opsar shared 76 % sequence similarity with tRNA(Ala) gene. This result indicated that Opsar could derive from the inactive or pseudogene of tRNA(Ala). The reliability of method was tested by obtaining C-SINE, Ct-SINE, and M-SINEs from Ctenopharyngodon idellus, Megalobrama amblycephala, and Cyprinus carpio genomes. This method is simpler than the previously reported, which successfully omitted many steps, such as preparation of probes, construction of genomic libraries, and hybridization.

  8. The dynamic proliferation of CanSINEs mirrors the complex evolution of Feliforms

    PubMed Central

    2014-01-01

    Background Repetitive short interspersed elements (SINEs) are retrotransposons ubiquitous in mammalian genomes and are highly informative markers to identify species and phylogenetic associations. Of these, SINEs unique to the order Carnivora (CanSINEs) yield novel insights on genome evolution in domestic dogs and cats, but less is known about their role in related carnivores. In particular, genome-wide assessment of CanSINE evolution has yet to be completed across the Feliformia (cat-like) suborder of Carnivora. Within Feliformia, the cat family Felidae is composed of 37 species and numerous subspecies organized into eight monophyletic lineages that likely arose 10 million years ago. Using the Felidae family as a reference phylogeny, along with representative taxa from other families of Feliformia, the origin, proliferation and evolution of CanSINEs within the suborder were assessed. Results We identified 93 novel intergenic CanSINE loci in Feliformia. Sequence analyses separated Feliform CanSINEs into two subfamilies, each characterized by distinct RNA polymerase binding motifs and phylogenetic associations. Subfamily I CanSINEs arose early within Feliformia but are no longer under active proliferation. Subfamily II loci are more recent, exclusive to Felidae and show evidence for adaptation to extant RNA polymerase activity. Further, presence/absence distributions of CanSINE loci are largely congruent with taxonomic expectations within Feliformia and the less resolved nodes in the Felidae reference phylogeny present equally ambiguous CanSINE data. SINEs are thought to be nearly impervious to excision from the genome. However, we observed a nearly complete excision of a CanSINEs locus in puma (Puma concolor). In addition, we found that CanSINE proliferation in Felidae frequently targeted existing CanSINE loci for insertion sites, resulting in tandem arrays. Conclusions We demonstrate the existence of at least two SINE families within the Feliformia suborder, one

  9. Recombinant SINEs are formed at high frequency during induced retrotransposition in vivo.

    PubMed

    Yadav, Vijay Pal; Mandal, Prabhat Kumar; Bhattacharya, Alok; Bhattacharya, Sudha

    2012-05-22

    Non-long terminal repeat Retrotransposons are referred to as long interspersed nuclear elements (LINEs) and their non-autonomous partners are short interspersed nuclear elements (SINEs). It is believed that an active SINE copy, upon retrotransposition, generates near identical copies of itself, which subsequently accumulate mutations resulting in sequence polymorphism. Here we show that when a retrotransposition-competent cell line of the parasitic protist Entamoeba histolytica, transfected with a marked SINE copy, is induced to retrotranspose, >20% of the newly retrotransposed copies are neither identical to the marked SINE nor to the mobilized resident SINEs. Rather they are recombinants of resident SINEs and the marked SINE. They are a consequence of retrotransposition and not DNA recombination, as they are absent in cells not expressing the retrotransposition functions. This high-frequency recombination provides a new explanation for the existence of mosaic SINEs, which may impact on genetic analysis of SINE lineages, and measurement of phylogenetic distances.

  10. Novel SINEs families in Medicago truncatula and Lotus japonicus: bioinformatic analysis.

    PubMed

    Gadzalski, Marek; Sakowicz, Tomasz

    2011-07-01

    Although short interspersed elements (SINEs) were discovered nearly 30 years ago, the studies of these genomic repeats were mostly limited to animal genomes. Very little is known about SINEs in legumes--one of the most important plant families. Here we report identification, genomic distribution and molecular features of six novel SINE elements in Lotus japonicus (named LJ_SINE-1, -2, -3) and Medicago truncatula (MT_SINE-1, -2, -3), model species of legume. They possess all the structural features commonly found in short interspersed elements including RNA polymerase III promoter, polyA tail and flanking repeats. SINEs described here are present in low to moderate copy numbers from 150 to 3000. Bioinformatic analyses were used to searched public databases, we have shown that three of new SINE elements from M. truncatula seem to be characteristic of Medicago and Trifolium genera. Two SINE families have been found in L. japonicus and one is present in both M. truncatula and L. japonicus. In addition, we are discussing potential activities of the described elements. Copyright © 2011 Elsevier B.V. All rights reserved.

  11. Energy in a String Wave

    ERIC Educational Resources Information Center

    Ng, Chiu-king

    2010-01-01

    When one end of a taut horizontal elastic string is shaken repeatedly up and down, a transverse wave (assume sine waveform) will be produced and travel along it. College students know this type of wave motion well. They know when the wave passes by, each element of the string will perform an oscillating up-down motion, which in mechanics is termed…

  12. Electro-optic modulator based gate transient suppression for sine-wave gated InGaAs/InP single photon avalanche photodiode

    NASA Astrophysics Data System (ADS)

    Zhang, Yixin; Zhang, Xuping; Shi, Yuanlei; Ying, Zhoufeng; Wang, Shun

    2014-06-01

    Capacitive gate transient noise has been problematic for the high-speed single photon avalanche photodiode (SPAD), especially when the operating frequency extends to the gigahertz level. We proposed an electro-optic modulator based gate transient noise suppression method for sine-wave gated InGaAs/InP SPAD. With the modulator, gate transient is up-converted to its higher-order harmonics that can be easily removed by low pass filtering. The proposed method enables online tuning of the operating rate without modification of the hardware setup. At 250 K, detection efficiency of 14.7% was obtained with 4.8×10-6 per gate dark count and 3.6% after-pulse probabilities for 1550-nm optical signal under 1-GHz gating frequency. Experimental results have shown that the performance of the detector can be maintained within a designated frequency range from 0.97 to 1.03 GHz, which is quite suitable for practical high-speed SPAD applications operated around the gigahertz level.

  13. Gravity localization in sine-Gordon braneworlds

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Cruz, W.T., E-mail: wilamicruz@gmail.com; Maluf, R.V., E-mail: r.v.maluf@fisica.ufc.br; Sousa, L.J.S., E-mail: luisjose@fisica.ufc.br

    2016-01-15

    In this work we study two types of five-dimensional braneworld models given by sine-Gordon potentials. In both scenarios, the thick brane is generated by a real scalar field coupled to gravity. We focus our investigation on the localization of graviton field and the behaviour of the massive spectrum. In particular, we analyse the localization of massive modes by means of a relative probability method in a Quantum Mechanics context. Initially, considering a scalar field sine-Gordon potential, we find a localized state to the graviton at zero mode. However, when we consider a double sine-Gordon potential, the brane structure is changedmore » allowing the existence of massive resonant states. The new results show how the existence of an internal structure can aid in the emergence of massive resonant modes on the brane.« less

  14. Short interspersed elements (SINEs) in plants: origin, classification, and use as phylogenetic markers.

    PubMed

    Deragon, Jean-Marc; Zhang, Xiaoyu

    2006-12-01

    Short interspersed elements (SINEs) are a class of dispersed mobile sequences that use RNA as an intermediate in an amplification process called retroposition. The presence-absence of a SINE at a given locus has been used as a meaningful classification criterion to evaluate phylogenetic relations among species. We review here recent developments in the characterisation of plant SINEs and their use as molecular makers to retrace phylogenetic relations among wild and cultivated Oryza and Brassica species. In Brassicaceae, further use of SINE markers is limited by our partial knowledge of endogenous SINE families (their origin and evolution histories) and by the absence of a clear classification. To solve this problem, phylogenetic relations among all known Brassicaceae SINEs were analyzed and a new classification, grouping SINEs in 15 different families, is proposed. The relative age and size of each Brassicaceae SINE family was evaluated and new phylogenetically supported subfamilies were described. We also present evidence suggesting that new potentially active SINEs recently emerged in Brassica oleracea from the shuffling of preexisting SINE portions. Finally, the comparative evolution history of SINE families present in Arabidopsis thaliana and Brassica oleracea revealed that SINEs were in general more active in the Brassica lineage. The importance of these new data for the use of Brassicaceae SINEs as molecular markers in future applications is discussed.

  15. V-SINEs: A New Superfamily of Vertebrate SINEs That Are Widespread in Vertebrate Genomes and Retain a Strongly Conserved Segment within Each Repetitive Unit

    PubMed Central

    Ogiwara, Ikuo; Miya, Masaki; Ohshima, Kazuhiko; Okada, Norihiro

    2002-01-01

    We have identified a new superfamily of vertebrate short interspersed repetitive elements (SINEs), designated V-SINEs, that are widespread in fishes and frogs. Each V-SINE includes a central conserved domain preceded by a 5′-end tRNA-related region and followed by a potentially recombinogenic (TG)n tract, with a 3′ tail derived from the 3′ untranslated region (UTR) of the corresponding partner long interspersed repetitive element (LINE) that encodes a functional reverse transcriptase. The central domain is strongly conserved and is even found in SINEs in the lamprey genome, suggesting that V-SINEs might be ∼550 Myr old or older in view of the timing of divergence of the lamprey lineage from the bony fish lineage. The central conserved domain might have been subject to some form of positive selection. Although the contemporary 3′ tails of V-SINEs differ from one another, it is possible that the original 3′ tail might have been replaced, via recombination, by the 3′ tails of more active partner LINEs, thereby retaining retropositional activity and the ability to survive for long periods on the evolutionary time scale. It seems plausible that V-SINEs may have some function(s) that have been maintained by the coevolution of SINEs and LINEs during the evolution of vertebrates. [The sequences reported in this paper have been deposited in the DDBJ/GenBank database under accession nos. AB072981–AB073004. Supplemental figures are available online at http://www.genome.org.] PMID:11827951

  16. Measuring Differential Delays With Sine-Squared Pulses

    NASA Technical Reports Server (NTRS)

    Hurst, Robert N.

    1994-01-01

    Technique for measuring differential delays among red, green, and blue components of video signal transmitted on different parallel channels exploits sine-squared pulses that are parts of standard test signals transmitted during vertical blanking interval of frame period. Technique does not entail expense of test-signal generator. Also applicable to nonvideo signals including sine-squared pulses.

  17. Universal precision sine bar attachment

    NASA Technical Reports Server (NTRS)

    Mann, Franklin D. (Inventor)

    1989-01-01

    This invention relates to an attachment for a sine bar which can be used to perform measurements during lathe operations or other types of machining operations. The attachment can be used for setting precision angles on vises, dividing heads, rotary tables and angle plates. It can also be used in the inspection of machined parts, when close tolerances are required, and in the layout of precision hardware. The novelty of the invention is believed to reside in a specific versatile sine bar attachment for measuring a variety of angles on a number of different types of equipment.

  18. Electro-mechanical sine/cosine generator

    NASA Technical Reports Server (NTRS)

    Flagge, B. (Inventor)

    1972-01-01

    An electromechanical device for generating both sine and cosine functions is described. A motor rotates a cylinder about an axis parallel to and a slight distance from the central axis of the cylinder. Two noncontacting displacement sensing devices are placed ninety degrees apart, equal distances from the axis of rotation of the cylinder and short distances above the surface of cylinder. Each of these sensing devices produces an electrical signal proportional to the distance that it is away from the cylinder. Consequently, as the cylinder is rotated the outputs from the two sensing devices are the sine and cosine functions.

  19. Possible involvement of SINEs in mammalian-specific brain formation

    PubMed Central

    Sasaki, Takeshi; Nishihara, Hidenori; Hirakawa, Mika; Fujimura, Koji; Tanaka, Mikiko; Kokubo, Nobuhiro; Kimura-Yoshida, Chiharu; Matsuo, Isao; Sumiyama, Kenta; Saitou, Naruya; Shimogori, Tomomi; Okada, Norihiro

    2008-01-01

    Retroposons, such as short interspersed elements (SINEs) and long interspersed elements (LINEs), are the major constituents of higher vertebrate genomes. Although there are many examples of retroposons' acquiring function, none has been implicated in the morphological innovations specific to a certain taxonomic group. We previously characterized a SINE family, AmnSINE1, members of which constitute a part of conserved noncoding elements (CNEs) in mammalian genomes. We proposed that this family acquired genomic functionality or was exapted after retropositioning in a mammalian ancestor. Here we identified 53 new AmnSINE1 loci and refined 124 total loci, two of which were further analyzed. Using a mouse enhancer assay, we demonstrate that one SINE locus, AS071, 178 kbp from the gene FGF8 (fibroblast growth factor 8), is an enhancer that recapitulates FGF8 expression in two regions of the developing forebrain, namely the diencephalon and the hypothalamus. Our gain-of-function analysis revealed that FGF8 expression in the diencephalon controls patterning of thalamic nuclei, which act as a relay center of the neocortex, suggesting a role for FGF8 in mammalian-specific forebrain patterning. Furthermore, we demonstrated that the locus, AS021, 392 kbp from the gene SATB2, controls gene expression in the lateral telencephalon, which is thought to be a signaling center during development. These results suggest important roles for SINEs in the development of the mammalian neuronal network, a part of which was initiated with the exaptation of AmnSINE1 in a common mammalian ancestor. PMID:18334644

  20. Possible involvement of SINEs in mammalian-specific brain formation.

    PubMed

    Sasaki, Takeshi; Nishihara, Hidenori; Hirakawa, Mika; Fujimura, Koji; Tanaka, Mikiko; Kokubo, Nobuhiro; Kimura-Yoshida, Chiharu; Matsuo, Isao; Sumiyama, Kenta; Saitou, Naruya; Shimogori, Tomomi; Okada, Norihiro

    2008-03-18

    Retroposons, such as short interspersed elements (SINEs) and long interspersed elements (LINEs), are the major constituents of higher vertebrate genomes. Although there are many examples of retroposons' acquiring function, none has been implicated in the morphological innovations specific to a certain taxonomic group. We previously characterized a SINE family, AmnSINE1, members of which constitute a part of conserved noncoding elements (CNEs) in mammalian genomes. We proposed that this family acquired genomic functionality or was exapted after retropositioning in a mammalian ancestor. Here we identified 53 new AmnSINE1 loci and refined 124 total loci, two of which were further analyzed. Using a mouse enhancer assay, we demonstrate that one SINE locus, AS071, 178 kbp from the gene FGF8 (fibroblast growth factor 8), is an enhancer that recapitulates FGF8 expression in two regions of the developing forebrain, namely the diencephalon and the hypothalamus. Our gain-of-function analysis revealed that FGF8 expression in the diencephalon controls patterning of thalamic nuclei, which act as a relay center of the neocortex, suggesting a role for FGF8 in mammalian-specific forebrain patterning. Furthermore, we demonstrated that the locus, AS021, 392 kbp from the gene SATB2, controls gene expression in the lateral telencephalon, which is thought to be a signaling center during development. These results suggest important roles for SINEs in the development of the mammalian neuronal network, a part of which was initiated with the exaptation of AmnSINE1 in a common mammalian ancestor.

  1. Soliton evolution and radiation loss for the sine-Gordon equation.

    PubMed

    Smyth, N F; Worthy, A L

    1999-08-01

    An approximate method for describing the evolution of solitonlike initial conditions to solitons for the sine-Gordon equation is developed. This method is based on using a solitonlike pulse with variable parameters in an averaged Lagrangian for the sine-Gordon equation. This averaged Lagrangian is then used to determine ordinary differential equations governing the evolution of the pulse parameters. The pulse evolves to a steady soliton by shedding dispersive radiation. The effect of this radiation is determined by examining the linearized sine-Gordon equation and loss terms are added to the variational equations derived from the averaged Lagrangian by using the momentum and energy conservation equations for the sine-Gordon equation. Solutions of the resulting approximate equations, which include loss, are found to be in good agreement with full numerical solutions of the sine-Gordon equation.

  2. Mobile Element Evolution Playing Jigsaw—SINEs in Gastropod and Bivalve Mollusks

    PubMed Central

    Matetovici, Irina; Sajgo, Szilard; Ianc, Bianca; Ochis, Cornelia; Bulzu, Paul; Popescu, Octavian; Damert, Annette

    2016-01-01

    SINEs (Short INterspersed Elements) are widely distributed among eukaryotes. Some SINE families are organized in superfamilies characterized by a shared central domain. These central domains are conserved across species, classes, and even phyla. Here we report the identification of two novel such superfamilies in the genomes of gastropod and bivalve mollusks. The central conserved domain of the first superfamily is present in SINEs in Caenogastropoda and Vetigastropoda as well as in all four subclasses of Bivalvia. We designated the domain MESC (Romanian for MElc—snail and SCoica—mussel) because it appears to be restricted to snails and mussels. The second superfamily is restricted to Caenogastropoda. Its central conserved domain—Snail—is related to the Nin-DC domain. Furthermore, we provide evidence that a 40-bp subdomain of the SINE V-domain is conserved in SINEs in mollusks and arthropods. It is predicted to form a stable stem-loop structure that is preserved in the context of the overall SINE RNA secondary structure in invertebrates. Our analysis also recovered short retrotransposons with a Long INterspersed Element (LINE)-derived 5′ end. These share the body and/or the tail with transfer RNA (tRNA)-derived SINEs within and across species. Finally, we identified CORE SINEs in gastropods and bivalves—extending the distribution range of this superfamily. PMID:26739168

  3. 5S rRNA-derived and tRNA-derived SINEs in fruit bats.

    PubMed

    Gogolevsky, Konstantin P; Vassetzky, Nikita S; Kramerov, Dmitri A

    2009-05-01

    Most short retroposons (SINEs) descend from cellular tRNA of 7SL RNA. Here, four new SINEs were found in megabats (Megachiroptera) but neither in microbats nor in other mammals. Two of them, MEG-RS and MEG-RL, descend from another cellular RNA, 5S rRNA; one (MEG-T2) is a tRNA-derived SINE; and MEG-TR is a hybrid tRNA/5S rRNA SINE. Insertion locus analysis suggests that these SINEs were active in the recent fruit bat evolution. Analysis of MEG-RS and MEG-RL in comparison with other few 5S rRNA-derived SINEs demonstrates that the internal RNA polymerase III promoter is their most invariant region, while the secondary structure is more variable. The mechanisms underlying the modular structure of these and other SINEs as well as their variation are discussed. The scenario of evolution of MEG SINEs is proposed.

  4. Numerical analysis of soliton solutions of the modified Korteweg-de Vries-sine-Gordon equation

    NASA Astrophysics Data System (ADS)

    Popov, S. P.

    2015-03-01

    Multisoliton solutions of the modified Korteweg-de Vries-sine-Gordon equation (mKdV-SG) are found numerically by applying the quasi-spectral Fourier method and the fourth-order Runge-Kutta method. The accuracy and features of the approach are determined as applied to problems with initial data in the form of various combinations of perturbed soliton distributions. Three-soliton solutions are obtained, and the generation of kinks, breathers, wobblers, perturbed kinks, and nonlinear oscillatory waves is studied.

  5. SINE Retrotransposition: Evaluation of Alu Activity and Recovery of De Novo Inserts.

    PubMed

    Ade, Catherine; Roy-Engel, Astrid M

    2016-01-01

    Mobile element activity is of great interest due to its impact on genomes. However, the types of mobile elements that inhabit any given genome are remarkably varied. Among the different varieties of mobile elements, the Short Interspersed Elements (SINEs) populate many genomes, including many mammalian species. Although SINEs are parasites of Long Interspersed Elements (LINEs), SINEs have been highly successful in both the primate and rodent genomes. When comparing copy numbers in mammals, SINEs have been vastly more successful than other nonautonomous elements, such as the retropseudogenes and SVA. Interestingly, in the human genome the copy number of Alu (a primate SINE) outnumbers LINE-1 (L1) copies 2 to 1. Estimates suggest that the retrotransposition rate for Alu is tenfold higher than LINE-1 with about 1 insert in every twenty births. Furthermore, Alu-induced mutagenesis is responsible for the majority of the documented instances of human retroelement insertion-induced disease. However, little is known on what contributes to these observed differences between SINEs and LINEs. The development of an assay to monitor SINE retrotransposition in culture has become an important tool for the elucidation of some of these differences. In this chapter, we present details of the SINE retrotransposition assay and the recovery of de novo inserts. We also focus on the nuances that are unique to the SINE assay.

  6. Evidence for convergent evolution of SINE-directed Staufen-mediated mRNA decay.

    PubMed

    Lucas, Bronwyn A; Lavi, Eitan; Shiue, Lily; Cho, Hana; Katzman, Sol; Miyoshi, Keita; Siomi, Mikiko C; Carmel, Liran; Ares, Manuel; Maquat, Lynne E

    2018-01-30

    Primate-specific Alu short interspersed elements (SINEs) as well as rodent-specific B and ID (B/ID) SINEs can promote Staufen-mediated decay (SMD) when present in mRNA 3'-untranslated regions (3'-UTRs). The transposable nature of SINEs, their presence in long noncoding RNAs, their interactions with Staufen, and their rapid divergence in different evolutionary lineages suggest they could have generated substantial modification of posttranscriptional gene-control networks during mammalian evolution. Some of the variation in SMD regulation produced by SINE insertion might have had a similar regulatory effect in separate mammalian lineages, leading to parallel evolution of the Staufen network by independent expansion of lineage-specific SINEs. To explore this possibility, we searched for orthologous gene pairs, each carrying a species-specific 3'-UTR SINE and each regulated by SMD, by measuring changes in mRNA abundance after individual depletion of two SMD factors, Staufen1 (STAU1) and UPF1, in both human and mouse myoblasts. We identified and confirmed orthologous gene pairs with 3'-UTR SINEs that independently function in SMD control of myoblast metabolism. Expanding to other species, we demonstrated that SINE-directed SMD likely emerged in both primate and rodent lineages >20-25 million years ago. Our work reveals a mechanism for the convergent evolution of posttranscriptional gene regulatory networks in mammals by species-specific SINE transposition and SMD.

  7. Mobile Element Evolution Playing Jigsaw - SINEs in Gastropod and Bivalve Mollusks.

    PubMed

    Matetovici, Irina; Sajgo, Szilard; Ianc, Bianca; Ochis, Cornelia; Bulzu, Paul; Popescu, Octavian; Damert, Annette

    2016-01-06

    SINEs (Short INterspersed Elements) are widely distributed among eukaryotes. Some SINE families are organized in superfamilies characterized by a shared central domain. These central domains are conserved across species, classes, and even phyla. Here we report the identification of two novel such superfamilies in the genomes of gastropod and bivalve mollusks. The central conserved domain of the first superfamily is present in SINEs in Caenogastropoda and Vetigastropoda as well as in all four subclasses of Bivalvia. We designated the domain MESC (Romanian for MElc-snail and SCoica-mussel) because it appears to be restricted to snails and mussels. The second superfamily is restricted to Caenogastropoda. Its central conserved domain-Snail-is related to the Nin-DC domain. Furthermore, we provide evidence that a 40-bp subdomain of the SINE V-domain is conserved in SINEs in mollusks and arthropods. It is predicted to form a stable stem-loop structure that is preserved in the context of the overall SINE RNA secondary structure in invertebrates. Our analysis also recovered short retrotransposons with a Long INterspersed Element (LINE)-derived 5' end. These share the body and/or the tail with transfer RNA (tRNA)-derived SINEs within and across species. Finally, we identified CORE SINEs in gastropods and bivalves-extending the distribution range of this superfamily. © The Author(s) 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  8. Sauria SINEs: Novel short interspersed retroposable elements that are widespread in reptile genomes.

    PubMed

    Piskurek, Oliver; Austin, Christopher C; Okada, Norihiro

    2006-05-01

    SINEs are short interspersed retrotransposable elements that invade new genomic sites. Their retrotransposition depends on reverse transcriptase and endonuclease activities encoded by partner LINEs (long interspersed elements). Recent genomic research has demonstrated that retroposons account for at least 40% of the human genome. Hitherto, more than 30 families of SINEs have been characterized in mammalian genomes, comprising approximately 4600 extant species; the distribution and extent of SINEs in reptilian genomes, however, are poorly documented. With more than 7400 species of lizards and snakes, Squamata constitutes the largest and most diverse group of living reptiles. We have discovered and characterized a novel SINE family, Sauria SINEs, whose members are widely distributed among genomes of lizards, snakes, and tuataras. Sauria SINEs comprise a 5' tRNA-related region, a tRNA-unrelated region, and a 3' tail region (containing short tandem repeats) derived from LINEs. We distinguished eight Sauria SINE subfamilies in genomes of four major squamate lineages and investigated their evolutionary relationships. Our data illustrate the overall efficacy of Sauria SINEs as novel retrotransposable markers for elucidation of squamate evolutionary history. We show that all Sauria SINEs share an identical 3' sequence with Bov-B LINEs and propose that they utilize the enzymatic machinery of Bov-B LINEs for their own retrotransposition. This finding, along with the ubiquity of Bov-B LINEs previously demonstrated in squamate genomes, suggests that these LINEs have been an active partner of Sauria SINEs since this SINE family was generated more than 200 million years ago.

  9. Evolutionary history of 7SL RNA-derived SINEs in Supraprimates.

    PubMed

    Kriegs, Jan Ole; Churakov, Gennady; Jurka, Jerzy; Brosius, Jürgen; Schmitz, Jürgen

    2007-04-01

    The evolutionary relationships of 7SL RNA-derived SINEs such as the primate Alu or the rodent B1 elements have hitherto been obscure. We established an unambiguous phylogenetic tree for Supraprimates, and derived intraordinal relationships of the 7SL RNA-derived SINEs. As well as new elements in Tupaia and primates, we also found that the purported ancestral fossil Alu monomer was restricted to Primates, and provide here the first description of a potential chimeric promoter box region in SINEs.

  10. Square or sine: finding a waveform with high success rate of eliciting SSVEP.

    PubMed

    Teng, Fei; Chen, Yixin; Choong, Aik Min; Gustafson, Scott; Reichley, Christopher; Lawhead, Pamela; Waddell, Dwight

    2011-01-01

    Steady state visual evoked potential (SSVEP) is the brain's natural electrical potential response for visual stimuli at specific frequencies. Using a visual stimulus flashing at some given frequency will entrain the SSVEP at the same frequency, thereby allowing determination of the subject's visual focus. The faster an SSVEP is identified, the higher information transmission rate the system achieves. Thus, an effective stimulus, defined as one with high success rate of eliciting SSVEP and high signal-noise ratio, is desired. Also, researchers observed that harmonic frequencies often appear in the SSVEP at a reduced magnitude. Are the harmonics in the SSVEP elicited by the fundamental stimulating frequency or by the artifacts of the stimuli? In this paper, we compare the SSVEP responses of three periodic stimuli: square wave (with different duty cycles), triangle wave, and sine wave to find an effective stimulus. We also demonstrate the connection between the strength of the harmonics in SSVEP and the type of stimulus.

  11. Evolutionary modes of emergence of short interspersed nuclear element (SINE) families in grasses.

    PubMed

    Kögler, Anja; Schmidt, Thomas; Wenke, Torsten

    2017-11-01

    Short interspersed nuclear elements (SINEs) are non-autonomous transposable elements which are propagated by retrotransposition and constitute an inherent part of the genome of most eukaryotic species. Knowledge of heterogeneous and highly abundant SINEs is crucial for de novo (or improvement of) annotation of whole genome sequences. We scanned Poaceae genome sequences of six important cereals (Oryza sativa, Triticum aestivum, Hordeum vulgare, Panicum virgatum, Sorghum bicolor, Zea mays) and Brachypodium distachyon to examine the diversity and evolution of SINE populations. We comparatively analyzed the structural features, distribution, evolutionary relation and abundance of 32 SINE families and subfamilies within grasses, comprising 11 052 individual copies. The investigation of activity profiles within the Poaceae provides insights into their species-specific diversification and amplification. We found that Poaceae SINEs (PoaS) fall into two length categories: simple SINEs of up to 180 bp and dimeric SINEs larger than 240 bp. Detailed analysis at the nucleotide level revealed that multimerization of related and unrelated SINE copies is an important evolutionary mechanism of SINE formation. We conclude that PoaS families diversify by massive reshuffling between SINE families, likely caused by insertion of truncated copies, and provide a model for this evolutionary scenario. Twenty-eight of 32 PoaS families and subfamilies show significant conservation, in particular either in the 5' or 3' regions, across Poaceae species and share large sequence stretches with one or more other PoaS families. © 2017 The Authors The Plant Journal © 2017 John Wiley & Sons Ltd.

  12. GEOPHYSICS, ASTRONOMY AND ASTROPHYSICS: Numerical method of studying nonlinear interactions between long waves and multiple short waves

    NASA Astrophysics Data System (ADS)

    Xie, Tao; Kuang, Hai-Lan; William, Perrie; Zou, Guang-Hui; Nan, Cheng-Feng; He, Chao; Shen, Tao; Chen, Wei

    2009-07-01

    Although the nonlinear interactions between a single short gravity wave and a long wave can be solved analytically, the solution is less tractable in more general cases involving multiple short waves. In this work we present a numerical method of studying nonlinear interactions between a long wave and multiple short harmonic waves in infinitely deep water. Specifically, this method is applied to the calculation of the temporal and spatial evolutions of the surface elevations in which a given long wave interacts with several short harmonic waves. Another important application of our method is to quantitatively analyse the nonlinear interactions between an arbitrary short wave train and another short wave train. From simulation results, we obtain that the mechanism for the nonlinear interactions between one short wave train and another short wave train (expressed as wave train 2) leads to the energy focusing of the other short wave train (expressed as wave train 3). This mechanism occurs on wave components with a narrow frequency bandwidth, whose frequencies are near that of wave train 3.

  13. Modified sine bar device measures small angles with high accuracy

    NASA Technical Reports Server (NTRS)

    Thekaekara, M.

    1968-01-01

    Modified sine bar device measures small angles with enough accuracy to calibrate precision optical autocollimators. The sine bar is a massive bar of steel supported by two cylindrical rods at one end and one at the other.

  14. Sine-Bar Attachment For Machine Tools

    NASA Technical Reports Server (NTRS)

    Mann, Franklin D.

    1988-01-01

    Sine-bar attachment for collets, spindles, and chucks helps machinists set up quickly for precise angular cuts that require greater precision than provided by graduations of machine tools. Machinist uses attachment to index head, carriage of milling machine or lathe relative to table or turning axis of tool. Attachment accurate to 1 minute or arc depending on length of sine bar and precision of gauge blocks in setup. Attachment installs quickly and easily on almost any type of lathe or mill. Requires no special clamps or fixtures, and eliminates many trial-and-error measurements. More stable than improvised setups and not jarred out of position readily.

  15. Sines and Cosines. Part 3 of 3

    NASA Technical Reports Server (NTRS)

    Apostol, Tom M. (Editor)

    1994-01-01

    In this 'Project Mathematics' series video, the addition formulas of sines and cosines are explained and their real life applications are demonstrated. Both film footage and computer animation is used. Several mathematical concepts are discussed and include: Ptolemy's theorem concerned with quadrilaterals; the difference between a central angle and an inscribed angle; sines and chord lengths; special angles; subtraction formulas; and a application to simple harmonic motion. A brief history of the city Alexandria, its mathematicians, and their contribution to the field of mathematics is shown.

  16. Pain relief by transcutaneous electric nerve stimulation with bidirectional modulated sine waves in patients with chronic back pain: a randomized, double-blind, sham-controlled study.

    PubMed

    Shimoji, Koki; Takahashi, Norio; Nishio, Yasuyuki; Koyanagi, Mika; Aida, Sumihisa

    2007-01-01

    Objectives.  Newly developed bidirectional modulated sine waves (BMW) might provide some derived benefit to patients with low back pain. Pain relief by transcutaneous electric nerve stimulation (TENS) with BMWs was tested. Materials and Methods.  Analgesic effects of BMWs and conventional bidirectional pulsed waves on chronic back pain in 28 patients were compared, and effects of repeated TENS using BMWs on chronic back pain were investigated in 21 patients by means of a randomized double-blind, sham-controlled, parallel-group method. Pain intensity was assessed using numerical rating scale (NRS). Results.  There was significant immediate reduction in NRS in patients receiving BMWs, and 60 min after treatment compared to sham TENS. Weekly repeated treatments using massage and TENS with BMWs for 5 weeks resulted in a decrease of NRS, but there were no significant differences between the TENS plus massage and sham TENS plus massage groups. Conclusions.  This study shows that TENS with BMWs significantly inhibits chronic back pain, and treatment effects are attained within a day. The results also suggest that there were no statistically significant long-term effects of TENS with BMW in the repeated treatment.

  17. RNA-Seq Analysis to Measure the Expression of SINE Retroelements.

    PubMed

    Román, Ángel Carlos; Morales-Hernández, Antonio; Fernández-Salguero, Pedro M

    2016-01-01

    The intrinsic features of retroelements, like their repetitive nature and disseminated presence in their host genomes, demand the use of advanced methodologies for their bioinformatic and functional study. The short length of SINE (short interspersed elements) retrotransposons makes such analyses even more complex. Next-generation sequencing (NGS) technologies are currently one of the most widely used tools to characterize the whole repertoire of gene expression in a specific tissue. In this chapter, we will review the molecular and computational methods needed to perform NGS analyses on SINE elements. We will also describe new methods of potential interest for researchers studying repetitive elements. We intend to outline the general ideas behind the computational analyses of NGS data obtained from SINE elements, and to stimulate other scientists to expand our current knowledge on SINE biology using RNA-seq and other NGS tools.

  18. Distribution, Diversity, and Long-Term Retention of Grass Short Interspersed Nuclear Elements (SINEs).

    PubMed

    Mao, Hongliang; Wang, Hao

    2017-08-01

    Instances of highly conserved plant short interspersed nuclear element (SINE) families and their enrichment near genes have been well documented, but little is known about the general patterns of such conservation and enrichment and underlying mechanisms. Here, we perform a comprehensive investigation of the structure, distribution, and evolution of SINEs in the grass family by analyzing 14 grass and 5 other flowering plant genomes using comparative genomics methods. We identify 61 SINE families composed of 29,572 copies, in which 46 families are first described. We find that comparing with other grass TEs, grass SINEs show much higher level of conservation in terms of genomic retention: The origin of at least 26% families can be traced to early grass diversification and these families are among most abundant SINE families in 86% species. We find that these families show much higher level of enrichment near protein coding genes than families of relatively recent origin (51%:28%), and that 40% of all grass SINEs are near gene and the percentage is higher than other types of grass TEs. The pattern of enrichment suggests that differential removal of SINE copies in gene-poor regions plays an important role in shaping the genomic distribution of these elements. We also identify a sequence motif located at 3' SINE end which is shared in 17 families. In short, this study provides insights into structure and evolution of SINEs in the grass family. © The Author 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  19. Short interspersed elements (SINEs) are a major source of canine genomic diversity.

    PubMed

    Wang, Wei; Kirkness, Ewen F

    2005-12-01

    SINEs are retrotransposons that have enjoyed remarkable reproductive success during the course of mammalian evolution, and have played a major role in shaping mammalian genomes. Previously, an analysis of survey-sequence data from an individual dog (a poodle) indicated that canine genomes harbor a high frequency of alleles that differ only by the absence or presence of a SINEC_Cf repeat. Comparison of this survey-sequence data with a draft genome sequence of a distinct dog (a boxer) has confirmed this prediction, and revealed the chromosomal coordinates for >10,000 loci that are bimorphic for SINEC_Cf insertions. Analysis of SINE insertion sites from the genomes of nine additional dogs indicates that 3%-5% are absent from either the poodle or boxer genome sequences--suggesting that an additional 10,000 bimorphic loci could be readily identified in the general dog population. We describe a methodology that can be used to identify these loci, and could be adapted to exploit these bimorphic loci for genotyping purposes. Approximately half of all annotated canine genes contain SINEC_Cf repeats, and these elements are occasionally transcribed. When transcribed in the antisense orientation, they provide splice acceptor sites that can result in incorporation of novel exons. The high frequency of bimorphic SINE insertions in the dog population is predicted to provide numerous examples of allele-specific transcription patterns that will be valuable for the study of differential gene expression among multiple dog breeds.

  20. Characterization of Three Novel SINE Families with Unusual Features in Helicoverpa armigera

    PubMed Central

    Wang, Jianjun; Wang, Aina; Han, Zhaojun; Zhang, Zan; Li, Fei; Li, Xianchun

    2012-01-01

    Although more than 120 families of short interspersed nuclear elements (SINEs) have been isolated from the eukaryotic genomes, little is known about SINEs in insects. Here, we characterize three novel SINEs from the cotton bollworm, Helicoverpa armigera. Two of them, HaSE1 and HaSE2, share similar 5′ -structure including a tRNA-related region immediately followed by conserved central domain. The 3′ -tail of HaSE1 is significantly similar to that of one LINE retrotransposon element, HaRTE1.1, in H. armigera genome. The 3′ -region of HaSE2 showed high identity with one mariner-like element in H. armigera. The third family, termed HaSE3, is a 5S rRNA-derived SINE and shares both body part and 3′-tail with HaSE1, thus may represent the first example of a chimera generated by recombination between 5S rRNA and tRNA-derived SINE in insect species. Further database searches revealed the presence of these SINEs in several other related insect species, but not in the silkworm, Bombyx mori, indicating a relatively narrow distribution of these SINEs in Lepidopterans. Apart from above, we found a copy of HaSE2 in the GenBank EST entry for the cotton aphid, Aphis gossypii, suggesting the occurrence of horizontal transfer. PMID:22319625

  1. Epigenetic regulation of transcription and possible functions of mammalian short interspersed elements, SINEs.

    PubMed

    Ichiyanagi, Kenji

    2013-01-01

    Short interspersed elements (SINEs) are a class of retrotransposons, which amplify their copy numbers in their host genomes by retrotransposition. More than a million copies of SINEs are present in a mammalian genome, constituting over 10% of the total genomic sequence. In contrast to the other two classes of retrotransposons, long interspersed elements (LINEs) and long terminal repeat (LTR) elements, SINEs are transcribed by RNA polymerase III. However, like LINEs and LTR elements, the SINE transcription is likely regulated by epigenetic mechanisms such as DNA methylation, at least for human Alu and mouse B1. Whereas SINEs and other transposable elements have long been thought as selfish or junk DNA, recent studies have revealed that they play functional roles at their genomic locations, for example, as distal enhancers, chromatin boundaries and binding sites of many transcription factors. These activities imply that SINE retrotransposition has shaped the regulatory network and chromatin landscape of their hosts. Whereas it is thought that the epigenetic mechanisms were originated as a host defense system against proliferation of parasitic elements, this review discusses a possibility that the same mechanisms are also used to regulate the SINE-derived functions.

  2. Genome-wide mapping of infection-induced SINE RNAs reveals a role in selective mRNA export.

    PubMed

    Karijolich, John; Zhao, Yang; Alla, Ravi; Glaunsinger, Britt

    2017-06-02

    Short interspersed nuclear elements (SINEs) are retrotransposons evolutionarily derived from endogenous RNA Polymerase III RNAs. Though SINE elements have undergone exaptation into gene regulatory elements, how transcribed SINE RNA impacts transcriptional and post-transcriptional regulation is largely unknown. This is partly due to a lack of information regarding which of the loci have transcriptional potential. Here, we present an approach (short interspersed nuclear element sequencing, SINE-seq), which selectively profiles RNA Polymerase III-derived SINE RNA, thereby identifying transcriptionally active SINE loci. Applying SINE-seq to monitor murine B2 SINE expression during a gammaherpesvirus infection revealed transcription from 28 270 SINE loci, with ∼50% of active SINE elements residing within annotated RNA Polymerase II loci. Furthermore, B2 RNA can form intermolecular RNA-RNA interactions with complementary mRNAs, leading to nuclear retention of the targeted mRNA via a mechanism involving p54nrb. These findings illuminate a pathway for the selective regulation of mRNA export during stress via retrotransposon activation. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

  3. Genome-wide mapping of infection-induced SINE RNAs reveals a role in selective mRNA export

    PubMed Central

    Zhao, Yang; Alla, Ravi

    2017-01-01

    Abstract Short interspersed nuclear elements (SINEs) are retrotransposons evolutionarily derived from endogenous RNA Polymerase III RNAs. Though SINE elements have undergone exaptation into gene regulatory elements, how transcribed SINE RNA impacts transcriptional and post-transcriptional regulation is largely unknown. This is partly due to a lack of information regarding which of the loci have transcriptional potential. Here, we present an approach (short interspersed nuclear element sequencing, SINE-seq), which selectively profiles RNA Polymerase III-derived SINE RNA, thereby identifying transcriptionally active SINE loci. Applying SINE-seq to monitor murine B2 SINE expression during a gammaherpesvirus infection revealed transcription from 28 270 SINE loci, with ∼50% of active SINE elements residing within annotated RNA Polymerase II loci. Furthermore, B2 RNA can form intermolecular RNA–RNA interactions with complementary mRNAs, leading to nuclear retention of the targeted mRNA via a mechanism involving p54nrb. These findings illuminate a pathway for the selective regulation of mRNA export during stress via retrotransposon activation. PMID:28334904

  4. CORE-SINEs: eukaryotic short interspersed retroposing elements with common sequence motifs.

    PubMed

    Gilbert, N; Labuda, D

    1999-03-16

    A 65-bp "core" sequence is dispersed in hundreds of thousands copies in the human genome. This sequence was found to constitute the central segment of a group of short interspersed elements (SINEs), referred to as mammalian-wide interspersed repeats, that proliferated before the radiation of placental mammals. Here, we propose that the core identifies an ancient tRNA-like SINE element, which survived in different lineages such as mammals, reptiles, birds, and fish, as well as mollusks, presumably for >550 million years. This element gave rise to a number of sequence families (CORE-SINEs), including mammalian-wide interspersed repeats, whose distinct 3' ends are shared with different families of long interspersed elements (LINEs). The evolutionary success of the generic CORE-SINE element can be related to the recruitment of the internal promoter from highly transcribed host RNA as well as to its capacity to adapt to changing retropositional opportunities by sequence exchange with actively amplifying LINEs. It reinforces the notion that the very existence of SINEs depends on the cohabitation with both LINEs and the host genome.

  5. CORE-SINEs: Eukaryotic short interspersed retroposing elements with common sequence motifs

    PubMed Central

    Gilbert, Nicolas; Labuda, Damian

    1999-01-01

    A 65-bp “core” sequence is dispersed in hundreds of thousands copies in the human genome. This sequence was found to constitute the central segment of a group of short interspersed elements (SINEs), referred to as mammalian-wide interspersed repeats, that proliferated before the radiation of placental mammals. Here, we propose that the core identifies an ancient tRNA-like SINE element, which survived in different lineages such as mammals, reptiles, birds, and fish, as well as mollusks, presumably for >550 million years. This element gave rise to a number of sequence families (CORE-SINEs), including mammalian-wide interspersed repeats, whose distinct 3′ ends are shared with different families of long interspersed elements (LINEs). The evolutionary success of the generic CORE-SINE element can be related to the recruitment of the internal promoter from highly transcribed host RNA as well as to its capacity to adapt to changing retropositional opportunities by sequence exchange with actively amplifying LINEs. It reinforces the notion that the very existence of SINEs depends on the cohabitation with both LINEs and the host genome. PMID:10077603

  6. A New Class of SINEs with snRNA Gene-Derived Heads

    PubMed Central

    Kojima, Kenji K.

    2015-01-01

    Eukaryotic genomes are colonized by various transposons including short interspersed elements (SINEs). The 5′ region (head) of the majority of SINEs is derived from one of the three types of RNA genes—7SL RNA, transfer RNA (tRNA), or 5S ribosomal RNA (rRNA)—and the internal promoter inside the head promotes the transcription of the entire SINEs. Here I report a new group of SINEs whose heads originate from either the U1 or U2 small nuclear RNA gene. These SINEs, named SINEU, are distributed among crocodilians and classified into three families. The structures of the SINEU-1 subfamilies indicate the recurrent addition of a U1- or U2-derived sequence onto the 5′ end of SINEU-1 elements. SINEU-1 and SINEU-3 are ancient and shared among alligators, crocodiles, and gharials, while SINEU-2 is absent in the alligator genome. SINEU-2 is the only SINE family that was active after the split of crocodiles and gharials. All SINEU families, especially SINEU-3, are preferentially inserted into a family of Mariner DNA transposon, Mariner-N4_AMi. A group of Tx1 non-long terminal repeat retrotransposons designated Tx1-Mar also show target preference for Mariner-N4_AMi, indicating that SINEU was mobilized by Tx1-Mar. PMID:26019167

  7. A new compound control method for sine-on-random mixed vibration test

    NASA Astrophysics Data System (ADS)

    Zhang, Buyun; Wang, Ruochen; Zeng, Falin

    2017-09-01

    Vibration environmental test (VET) is one of the important and effective methods to provide supports for the strength design, reliability and durability test of mechanical products. A new separation control strategy was proposed to apply in multiple-input multiple-output (MIMO) sine on random (SOR) mixed mode vibration test, which is the advanced and intensive test type of VET. As the key problem of the strategy, correlation integral method was applied to separate the mixed signals which included random and sinusoidal components. The feedback control formula of MIMO linear random vibration system was systematically deduced in frequency domain, and Jacobi control algorithm was proposed in view of the elements, such as self-spectrum, coherence, and phase of power spectral density (PSD) matrix. Based on the excessive correction of excitation in sine vibration test, compression factor was introduced to reduce the excitation correction, avoiding the destruction to vibration table or other devices. The two methods were synthesized to be applied in MIMO SOR vibration test system. In the final, verification test system with the vibration of a cantilever beam as the control object was established to verify the reliability and effectiveness of the methods proposed in the paper. The test results show that the exceeding values can be controlled in the tolerance range of references accurately, and the method can supply theory and application supports for mechanical engineering.

  8. Sine Rotation Vector Method for Attitude Estimation of an Underwater Robot

    PubMed Central

    Ko, Nak Yong; Jeong, Seokki; Bae, Youngchul

    2016-01-01

    This paper describes a method for estimating the attitude of an underwater robot. The method employs a new concept of sine rotation vector and uses both an attitude heading and reference system (AHRS) and a Doppler velocity log (DVL) for the purpose of measurement. First, the acceleration and magnetic-field measurements are transformed into sine rotation vectors and combined. The combined sine rotation vector is then transformed into the differences between the Euler angles of the measured attitude and the predicted attitude; the differences are used to correct the predicted attitude. The method was evaluated according to field-test data and simulation data and compared to existing methods that calculate angular differences directly without a preceding sine rotation vector transformation. The comparison verifies that the proposed method improves the attitude estimation performance. PMID:27490549

  9. A Perspective on Multiple Waves of Influenza Pandemics

    PubMed Central

    Mummert, Anna; Weiss, Howard; Long, Li-Ping; Amigó, José M.; Wan, Xiu-Feng

    2013-01-01

    Background A striking characteristic of the past four influenza pandemic outbreaks in the United States has been the multiple waves of infections. However, the mechanisms responsible for the multiple waves of influenza or other acute infectious diseases are uncertain. Understanding these mechanisms could provide knowledge for health authorities to develop and implement prevention and control strategies. Materials and Methods We exhibit five distinct mechanisms, each of which can generate two waves of infections for an acute infectious disease. The first two mechanisms capture changes in virus transmissibility and behavioral changes. The third mechanism involves population heterogeneity (e.g., demography, geography), where each wave spreads through one sub-population. The fourth mechanism is virus mutation which causes delayed susceptibility of individuals. The fifth mechanism is waning immunity. Each mechanism is incorporated into separate mathematical models, and outbreaks are then simulated. We use the models to examine the effects of the initial number of infected individuals (e.g., border control at the beginning of the outbreak) and the timing of and amount of available vaccinations. Results Four models, individually or in any combination, reproduce the two waves of the 2009 H1N1 pandemic in the United States, both qualitatively and quantitatively. One model reproduces the two waves only qualitatively. All models indicate that significantly reducing or delaying the initial numbers of infected individuals would have little impact on the attack rate. Instead, this reduction or delay results in a single wave as opposed to two waves. Furthermore, four of these models also indicate that a vaccination program started earlier than October 2009 (when the H1N1 vaccine was initially distributed) could have eliminated the second wave of infection, while more vaccine available starting in October would not have eliminated the second wave. PMID:23637746

  10. A perspective on multiple waves of influenza pandemics.

    PubMed

    Mummert, Anna; Weiss, Howard; Long, Li-Ping; Amigó, José M; Wan, Xiu-Feng

    2013-01-01

    A striking characteristic of the past four influenza pandemic outbreaks in the United States has been the multiple waves of infections. However, the mechanisms responsible for the multiple waves of influenza or other acute infectious diseases are uncertain. Understanding these mechanisms could provide knowledge for health authorities to develop and implement prevention and control strategies. We exhibit five distinct mechanisms, each of which can generate two waves of infections for an acute infectious disease. The first two mechanisms capture changes in virus transmissibility and behavioral changes. The third mechanism involves population heterogeneity (e.g., demography, geography), where each wave spreads through one sub-population. The fourth mechanism is virus mutation which causes delayed susceptibility of individuals. The fifth mechanism is waning immunity. Each mechanism is incorporated into separate mathematical models, and outbreaks are then simulated. We use the models to examine the effects of the initial number of infected individuals (e.g., border control at the beginning of the outbreak) and the timing of and amount of available vaccinations. Four models, individually or in any combination, reproduce the two waves of the 2009 H1N1 pandemic in the United States, both qualitatively and quantitatively. One model reproduces the two waves only qualitatively. All models indicate that significantly reducing or delaying the initial numbers of infected individuals would have little impact on the attack rate. Instead, this reduction or delay results in a single wave as opposed to two waves. Furthermore, four of these models also indicate that a vaccination program started earlier than October 2009 (when the H1N1 vaccine was initially distributed) could have eliminated the second wave of infection, while more vaccine available starting in October would not have eliminated the second wave.

  11. RUDI, a short interspersed element of the V-SINE superfamily widespread in molluscan genomes.

    PubMed

    Luchetti, Andrea; Šatović, Eva; Mantovani, Barbara; Plohl, Miroslav

    2016-06-01

    Short interspersed elements (SINEs) are non-autonomous retrotransposons that are widespread in eukaryotic genomes. They exhibit a chimeric sequence structure consisting of a small RNA-related head, an anonymous body and an AT-rich tail. Although their turnover and de novo emergence is rapid, some SINE elements found in distantly related species retain similarity in certain core segments (or highly conserved domains, HCD). We have characterized a new SINE element named RUDI in the bivalve molluscs Ruditapes decussatus and R. philippinarum and found this element to be widely distributed in the genomes of a number of mollusc species. An unexpected structural feature of RUDI is the HCD domain type V, which was first found in non-amniote vertebrate SINEs and in the SINE from one cnidarian species. In addition to the V domain, the overall sequence conservation pattern of RUDI elements resembles that found in ancient AmnSINE (~310 Myr old) and Au SINE (~320 Myr old) families, suggesting that RUDI might be among the most ancient SINE families. Sequence conservation suggests a monophyletic origin of RUDI. Nucleotide variability and phylogenetic analyses suggest long-term vertical inheritance combined with at least one horizontal transfer event as the most parsimonious explanation for the observed taxonomic distribution.

  12. Rocket measurements of electron density irregularities during MAC/SINE

    NASA Technical Reports Server (NTRS)

    Ulwick, J. C.

    1989-01-01

    Four Super Arcas rockets were launched at the Andoya Rocket Range, Norway, as part of the MAC/SINE campaign to measure electron density irregularities with high spatial resolution in the cold summer polar mesosphere. They were launched as part of two salvos: the turbulent/gravity wave salvo (3 rockets) and the EISCAT/SOUSY radar salvo (one rocket). In both salvos meteorological rockets, measuring temperature and winds, were also launched and the SOUSY radar, located near the launch site, measured mesospheric turbulence. Electron density irregularities and strong gradients were measured by the rocket probes in the region of most intense backscatter observed by the radar. The electron density profiles (8 to 4 on ascent and 4 on descent) show very different characteristics in the peak scattering region and show marked spatial and temporal variability. These data are intercompared and discussed.

  13. Multiple attenuation to reflection seismic data using Radon filter and Wave Equation Multiple Rejection (WEMR) method

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Erlangga, Mokhammad Puput

    Separation between signal and noise, incoherent or coherent, is important in seismic data processing. Although we have processed the seismic data, the coherent noise is still mixing with the primary signal. Multiple reflections are a kind of coherent noise. In this research, we processed seismic data to attenuate multiple reflections in the both synthetic and real seismic data of Mentawai. There are several methods to attenuate multiple reflection, one of them is Radon filter method that discriminates between primary reflection and multiple reflection in the τ-p domain based on move out difference between primary reflection and multiple reflection. However, inmore » case where the move out difference is too small, the Radon filter method is not enough to attenuate the multiple reflections. The Radon filter also produces the artifacts on the gathers data. Except the Radon filter method, we also use the Wave Equation Multiple Elimination (WEMR) method to attenuate the long period multiple reflection. The WEMR method can attenuate the long period multiple reflection based on wave equation inversion. Refer to the inversion of wave equation and the magnitude of the seismic wave amplitude that observed on the free surface, we get the water bottom reflectivity which is used to eliminate the multiple reflections. The WEMR method does not depend on the move out difference to attenuate the long period multiple reflection. Therefore, the WEMR method can be applied to the seismic data which has small move out difference as the Mentawai seismic data. The small move out difference on the Mentawai seismic data is caused by the restrictiveness of far offset, which is only 705 meter. We compared the real free multiple stacking data after processing with Radon filter and WEMR process. The conclusion is the WEMR method can more attenuate the long period multiple reflection than the Radon filter method on the real (Mentawai) seismic data.« less

  14. Reconstructing surface wave profiles from reflected acoustic pulses using multiple receivers.

    PubMed

    Walstead, Sean P; Deane, Grant B

    2014-08-01

    Surface wave shapes are determined by analyzing underwater reflected acoustic signals collected at multiple receivers. The transmitted signals are of nominal frequency 300 kHz and are reflected off surface gravity waves that are paddle-generated in a wave tank. An inverse processing algorithm reconstructs 50 surface wave shapes over a length span of 2.10 m. The inverse scheme uses a broadband forward scattering model based on Kirchhoff's diffraction formula to determine wave shapes. The surface reconstruction algorithm is self-starting in that source and receiver geometry and initial estimates of wave shape are determined from the same acoustic signals used in the inverse processing. A high speed camera provides ground-truth measurements of the surface wave field for comparison with the acoustically derived surface waves. Within Fresnel zone regions the statistical confidence of the inversely optimized surface profile exceeds that of the camera profile. Reconstructed surfaces are accurate to a resolution of about a quarter-wavelength of the acoustic pulse only within Fresnel zones associated with each source and receiver pair. Multiple isolated Fresnel zones from multiple receivers extend the spatial extent of accurate surface reconstruction while overlapping Fresnel zones increase confidence in the optimized profiles there.

  15. A New Class of SINEs with snRNA Gene-Derived Heads.

    PubMed

    Kojima, Kenji K

    2015-05-27

    Eukaryotic genomes are colonized by various transposons including short interspersed elements (SINEs). The 5' region (head) of the majority of SINEs is derived from one of the three types of RNA genes--7SL RNA, transfer RNA (tRNA), or 5S ribosomal RNA (rRNA)--and the internal promoter inside the head promotes the transcription of the entire SINEs. Here I report a new group of SINEs whose heads originate from either the U1 or U2 small nuclear RNA gene. These SINEs, named SINEU, are distributed among crocodilians and classified into three families. The structures of the SINEU-1 subfamilies indicate the recurrent addition of a U1- or U2-derived sequence onto the 5' end of SINEU-1 elements. SINEU-1 and SINEU-3 are ancient and shared among alligators, crocodiles, and gharials, while SINEU-2 is absent in the alligator genome. SINEU-2 is the only SINE family that was active after the split of crocodiles and gharials. All SINEU families, especially SINEU-3, are preferentially inserted into a family of Mariner DNA transposon, Mariner-N4_AMi. A group of Tx1 non-long terminal repeat retrotransposons designated Tx1-Mar also show target preference for Mariner-N4_AMi, indicating that SINEU was mobilized by Tx1-Mar. © The Author(s) 2015. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  16. Identification of a Recently Active Mammalian SINE Derived from Ribosomal RNA

    PubMed Central

    Longo, Mark S.; Brown, Judy D.; Zhang, Chu; O’Neill, Michael J.; O’Neill, Rachel J.

    2015-01-01

    Complex eukaryotic genomes are riddled with repeated sequences whose derivation does not coincide with phylogenetic history and thus is often unknown. Among such sequences, the capacity for transcriptional activity coupled with the adaptive use of reverse transcription can lead to a diverse group of genomic elements across taxa, otherwise known as selfish elements or mobile elements. Short interspersed nuclear elements (SINEs) are nonautonomous mobile elements found in eukaryotic genomes, typically derived from cellular RNAs such as tRNAs, 7SL or 5S rRNA. Here, we identify and characterize a previously unknown SINE derived from the 3′-end of the large ribosomal subunit (LSU or 28S rDNA) and transcribed via RNA polymerase III. This new element, SINE28, is represented in low-copy numbers in the human reference genome assembly, wherein we have identified 27 discrete loci. Phylogenetic analysis indicates these elements have been transpositionally active within primate lineages as recently as 6 MYA while modern humans still carry transcriptionally active copies. Moreover, we have identified SINE28s in all currently available assembled mammalian genome sequences. Phylogenetic comparisons indicate that these elements are frequently rederived from the highly conserved LSU rRNA sequences in a lineage-specific manner. We propose that this element has not been previously recognized as a SINE given its high identity to the canonical LSU, and that SINE28 likely represents one of possibly many unidentified, active transposable elements within mammalian genomes. PMID:25637222

  17. Detection of sub-threshold periodic signal by multiplicative and additive cross-correlated sine-Wiener noises in the FitzHugh-Nagumo neuron

    NASA Astrophysics Data System (ADS)

    Yao, Yuangen; Ma, Chengzhang; Wang, Canjun; Yi, Ming; Gui, Rong

    2018-02-01

    We study the effects of multiplicative and additive cross-correlated sine-Wiener (CCSW) noises on the performance of sub-threshold periodic signal detection in the FitzHugh-Nagumo (FHN) neuron by calculating Fourier coefficients Q for measuring synchronization between sub-threshold input signal and the response of system. CCSW noises-induced transitions of electrical activity in the FHN neuron model can be observed. Moreover, the performance of sub-threshold periodic signal detection is achieved at moderate noise strength, cross-correlation time and cross-correlation strength of CCSW noises, which indicate the occurrence of CCSW noises-induced stochastic resonance. Furthermore, the performance of sub-threshold signal detection is strongly sensitive to cross-correlation time of CCSW noises. Therefore, the performance can be effectively controlled by regulating cross-correlation time of CCSW noises. These results provide a possible mechanism for amplifying or detecting the sub-threshold signal in the nervous system.

  18. Perish, then publish: Thomas Harriot and the sine law of refraction.

    PubMed

    Fishman, R S

    2000-03-01

    A talented young scientist, Thomas Harriot, wrote the first English account of the New World, "A Briefe and True Report of the New Found Land of Virginia," distinguished by its serious effort to describe and understand the American Indian. Harriot went on to make innovations in mathematics and was one of the first astronomers to use the telescope. His largely unappreciated contribution to the history of ophthalmology was the first formulation of the sine law of refraction of light, found in his unpublished papers long after his death in 1621. Willebrord Snell discovered the sine law in Holland in 1621 but also died without formally publishing it. Rene Descartes first published the sine law in 1637. The sine law of refraction became not only the prime law of all lens systems but ushered in a new world of physical laws.

  19. Large-amplitude nonlinear normal modes of the discrete sine lattices.

    PubMed

    Smirnov, Valeri V; Manevitch, Leonid I

    2017-02-01

    We present an analytical description of the large-amplitude stationary oscillations of the finite discrete system of harmonically coupled pendulums without any restrictions on their amplitudes (excluding a vicinity of π). Although this model has numerous applications in different fields of physics, it was studied earlier in the infinite limit only. The discrete chain with a finite length can be considered as a well analytical analog of the coarse-grain models of flexible polymers in the molecular dynamics simulations. The developed approach allows to find the dispersion relations for arbitrary amplitudes of the nonlinear normal modes. We emphasize that the long-wavelength approximation, which is described by well-known sine-Gordon equation, leads to an inadequate zone structure for the amplitudes of about π/2 even if the chain is long enough. An extremely complex zone structure at the large amplitudes corresponds to multiple resonances between nonlinear normal modes even with strongly different wave numbers. Due to the complexity of the dispersion relations the modes with shorter wavelengths may have smaller frequencies. The stability of the nonlinear normal modes under condition of the resonant interaction are discussed. It is shown that this interaction of the modes in the vicinity of the long wavelength edge of the spectrum leads to the localization of the oscillations. The thresholds of instability and localization are determined explicitly. The numerical simulation of the dynamics of a finite-length chain is in a good agreement with obtained analytical predictions.

  20. Holographic s-wave and p-wave Josephson junction with backreaction

    NASA Astrophysics Data System (ADS)

    Wang, Yong-Qiang; Liu, Shuai

    2016-11-01

    In this paper, we study the holographic models of s-wave and p-wave Josephoson junction away from probe limit in (3+1)-dimensional spacetime, respectively. With the backreaction of the matter, we obtained the anisotropic black hole solution with the condensation of matter fields. We observe that the critical temperature of Josephoson junction decreases with increasing backreaction. In addition to this, the tunneling current and condenstion of Josephoson junction become smaller as backreaction grows larger, but the relationship between current and phase difference still holds for sine function. Moreover, condenstion of Josephoson junction deceases with increasing width of junction exponentially.

  1. Polyadenylation of RNA transcribed from mammalian SINEs by RNA polymerase III: Complex requirements for nucleotide sequences.

    PubMed

    Borodulina, Olga R; Golubchikova, Julia S; Ustyantsev, Ilia G; Kramerov, Dmitri A

    2016-02-01

    It is generally accepted that only transcripts synthesized by RNA polymerase II (e.g., mRNA) were subject to AAUAAA-dependent polyadenylation. However, we previously showed that RNA transcribed by RNA polymerase III (pol III) from mouse B2 SINE could be polyadenylated in an AAUAAA-dependent manner. Many species of mammalian SINEs end with the pol III transcriptional terminator (TTTTT) and contain hexamers AATAAA in their A-rich tail. Such SINEs were united into Class T(+), whereas SINEs lacking the terminator and AATAAA sequences were classified as T(-). Here we studied the structural features of SINE pol III transcripts that are necessary for their polyadenylation. Eight and six SINE families from classes T(+) and T(-), respectively, were analyzed. The replacement of AATAAA with AACAAA in T(+) SINEs abolished the RNA polyadenylation. Interestingly, insertion of the polyadenylation signal (AATAAA) and pol III transcription terminator in T(-) SINEs did not result in polyadenylation. The detailed analysis of three T(+) SINEs (B2, DIP, and VES) revealed areas important for the polyadenylation of their pol III transcripts: the polyadenylation signal and terminator in A-rich tail, β region positioned immediately downstream of the box B of pol III promoter, and τ region located upstream of the tail. In DIP and VES (but not in B2), the τ region is a polypyrimidine motif which is also characteristic of many other T(+) SINEs. Most likely, SINEs of different mammals acquired these structural features independently as a result of parallel evolution. Copyright © 2015 Elsevier B.V. All rights reserved.

  2. LINEs Contribute to the Origins of Middle Bodies of SINEs besides 3′ Tails

    PubMed Central

    2018-01-01

    Abstract Short interspersed elements (SINEs), which are nonautonomous transposable elements, require the transposition machinery of long interspersed elements (LINEs) to mobilize. SINEs are composed of two or more independently originating parts. The 5′ region is called the “head” and is derived mainly from small RNAs, and the 3′ region (“tail”) originates from the 3′ region of LINEs and is responsible for being recognized by counterpart LINE proteins. The origin of the middle “body” of SINEs is enigmatic, although significant sequence similarities among SINEs from very diverse species have been observed. Here, a systematic analysis of the similarities among SINEs and LINEs deposited on Repbase, a comprehensive database of eukaryotic repeat sequences was performed. Three primary findings are described: 1) The 5′ regions of only two clades of LINEs, RTE and Vingi, were revealed to have contributed to the middle parts of SINEs; 2) The linkage of the 5′ and 3′ parts of LINEs can be lost due to occasional tail exchange of SINEs; and 3) The previously proposed Ceph-domain was revealed to be a fusion of a CORE-domain and a 5′ part of RTE clade of LINE. Based on these findings, a hypothesis that the 5′ parts of bipartite nonautonomous LINEs, which possess only the 5′ and 3′ regions of the original LINEs, can contribute to the undefined middle part of SINEs is proposed. PMID:29325122

  3. Internal tide transformation across a continental slope off Cape Sines, Portugal

    NASA Astrophysics Data System (ADS)

    Small, Justin

    2002-04-01

    During the INTIFANTE 99 experiment in July 1999, observations were made of a prominent internal undular bore off Cape Sines, Portugal. The feature was always present and dominant in a collection of synthetic aperture radar (SAR) images of the area covering the period before, during and after the trial. During the trial, rapid dissemination of SAR data to the survey ship enabled assessment of the progression of the feature, and the consequent planning of a survey of the bore coincident with a new SAR image. Large amplitude internal waves of 50 m amplitude in 250 m water depth, and 40 m in 100 m depth, were observed. The images show that the position of the feature is linked to the phase of the tide, suggesting an internal tide origin. The individual packets of internal waves contain up to seven waves with wavelengths in the range of 500-1500 m, and successive packets are separated by internal tide distances of typically 16-20 km, suggesting phase speeds of 0.35-0.45 m s -1. The internal waves were coherent over crest lengths of between 15 and 70 km, the longer wavefronts being due to the merging of packets. This paper uses the SAR data to detail the transformation of the wave packet as it passes across the continental slope and approaches the coast. The generation sites for the feature are discussed and reasons for its unusually large amplitude are hypothesised. It is concluded that generation at critical slopes of the bathymetry and non-linear interactions are the likely explanations for the large amplitudes.

  4. Wave drift damping acting on multiple circular cylinders (model tests)

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Kinoshita, Takeshi; Sunahara, Shunji; Bao, W.

    1995-12-31

    The wave drift damping for the slow drift motion of a four-column platform is experimentally investigated. The estimation of damping force of the slow drift motion of moored floating structures in ocean waves, is one of the most important topics. Bao et al. calculated an interaction of multiple circular cylinders based on the potential flow theory, and showed that the wave drift damping is significantly influenced by the interaction between cylinders. This calculation method assumes that the slow drift motion is approximately replaced by steady current, that is, structures on slow drift motion are supposed to be equivalent to onesmore » in both regular waves and slow current. To validate semi-analytical solutions of Bao et al., experiments were carried out. At first, added resistance due to waves acting on a structure composed of multiple (four) vertical circular cylinders fixed to a slowly moving carriage, was measured in regular waves. Next, the added resistance of the structure moored by linear spring to the slowly moving carriage were measured in regular waves. Furthermore, to validate the assumption that the slow drift motion is replaced by steady current, free decay tests in still water and in regular waves were compared with the simulation of the slow drift motion using the wave drift damping coefficient obtained by the added resistance tests.« less

  5. Multiple scattering induced negative refraction of matter waves

    PubMed Central

    Pinsker, Florian

    2016-01-01

    Starting from fundamental multiple scattering theory it is shown that negative refraction indices are feasible for matter waves passing a well-defined ensemble of scatterers. A simple approach to this topic is presented and explicit examples for systems of scatterers in 1D and 3D are stated that imply negative refraction for a generic incoming quantum wave packet. Essential features of the effective scattering field, densities and frequency spectrum of scatterers are considered. Additionally it is shown that negative refraction indices allow perfect transmission of the wave passing the ensemble of scatterers. Finally the concept of the superlens is discussed, since it is based on negative refraction and can be extended to matter waves utilizing the observations presented in this paper which thus paves the way to ‘untouchable’ quantum systems in analogy to cloaking devices for electromagnetic waves. PMID:26857266

  6. RNA-Mediated Gene Duplication and Retroposons: Retrogenes, LINEs, SINEs, and Sequence Specificity

    PubMed Central

    2013-01-01

    A substantial number of “retrogenes” that are derived from the mRNA of various intron-containing genes have been reported. A class of mammalian retroposons, long interspersed element-1 (LINE1, L1), has been shown to be involved in the reverse transcription of retrogenes (or processed pseudogenes) and non-autonomous short interspersed elements (SINEs). The 3′-end sequences of various SINEs originated from a corresponding LINE. As the 3′-untranslated regions of several LINEs are essential for retroposition, these LINEs presumably require “stringent” recognition of the 3′-end sequence of the RNA template. However, the 3′-ends of mammalian L1s do not exhibit any similarity to SINEs, except for the presence of 3′-poly(A) repeats. Since the 3′-poly(A) repeats of L1 and Alu SINE are critical for their retroposition, L1 probably recognizes the poly(A) repeats, thereby mobilizing not only Alu SINE but also cytosolic mRNA. Many flowering plants only harbor L1-clade LINEs and a significant number of SINEs with poly(A) repeats, but no homology to the LINEs. Moreover, processed pseudogenes have also been found in flowering plants. I propose that the ancestral L1-clade LINE in the common ancestor of green plants may have recognized a specific RNA template, with stringent recognition then becoming relaxed during the course of plant evolution. PMID:23984183

  7. SINE transcription by RNA polymerase III is suppressed by histone methylation but not by DNA methylation

    PubMed Central

    Varshney, Dhaval; Vavrova-Anderson, Jana; Oler, Andrew J.; Cowling, Victoria H.; Cairns, Bradley R.; White, Robert J.

    2015-01-01

    Short interspersed nuclear elements (SINEs), such as Alu, spread by retrotransposition, which requires their transcripts to be copied into DNA and then inserted into new chromosomal sites. This can lead to genetic damage through insertional mutagenesis and chromosomal rearrangements between non-allelic SINEs at distinct loci. SINE DNA is heavily methylated and this was thought to suppress its accessibility and transcription, thereby protecting against retrotransposition. Here we provide several lines of evidence that methylated SINE DNA is occupied by RNA polymerase III, including the use of high-throughput bisulphite sequencing of ChIP DNA. We find that loss of DNA methylation has little effect on accessibility of SINEs to transcription machinery or their expression in vivo. In contrast, a histone methyltransferase inhibitor selectively promotes SINE expression and occupancy by RNA polymerase III. The data suggest that methylation of histones rather than DNA plays a dominant role in suppressing SINE transcription. PMID:25798578

  8. Multiple Signal Classification for Gravitational Wave Burst Search

    NASA Astrophysics Data System (ADS)

    Cao, Junwei; He, Zhengqi

    2013-01-01

    This work is mainly focused on the application of the multiple signal classification (MUSIC) algorithm for gravitational wave burst search. This algorithm extracts important gravitational wave characteristics from signals coming from detectors with arbitrary position, orientation and noise covariance. In this paper, the MUSIC algorithm is described in detail along with the necessary adjustments required for gravitational wave burst search. The algorithm's performance is measured using simulated signals and noise. MUSIC is compared with the Q-transform for signal triggering and with Bayesian analysis for direction of arrival (DOA) estimation, using the Ω-pipeline. Experimental results show that MUSIC has a lower resolution but is faster. MUSIC is a promising tool for real-time gravitational wave search for multi-messenger astronomy.

  9. Gyrator transform of generalized sine-Gaussian beams and conversion an edge-dislocation into a vortex

    NASA Astrophysics Data System (ADS)

    Zhu, Kaicheng; Tang, Huiqin; Tang, Ying; Xia, Hui

    2014-12-01

    We proposed a scheme that converts a sine-Gaussian beam with an edge dislocation into a dark hollow beam with a vortex. Based on the gyrator transform (GT) relation, the closed-form field distribution of generalized sine-Gaussian beams passing through a GT system is derived; the intensity distribution and the corresponding phase distribution associated with the transforming generalized sine-Gaussian beams are analyzed. According to the numerical method, the distributions are graphically demonstrated and found that, for appropriate beam parameters and the GT angle, dark hollow vortex beams with topological charge 1 can be achieved using sine-Gaussian beams carrying an edge dislocation. Moreover, the orbital angular momentum content of a GT sine-Gaussian beam is analyzed. It is proved that the GT retains the odd- or even-order spiral harmonics structures of generalized sine-Gaussian beams in the transform process. In particular, it is wholly possible to convert an edge dislocation embedded in sine-Gaussian beams into a vortex with GT. The study also reveals that to obtain a dark hollow beam making use of GT of cos-Gaussian beams is impossible.

  10. Multiple scroll wave chimera states

    NASA Astrophysics Data System (ADS)

    Maistrenko, Volodymyr; Sudakov, Oleksandr; Osiv, Oleksiy; Maistrenko, Yuri

    2017-06-01

    We report the appearance of three-dimensional (3D) multiheaded chimera states that display cascades of self-organized spatiotemporal patterns of coexisting coherence and incoherence. We demonstrate that the number of incoherent chimera domains can grow additively under appropriate variations of the system parameters generating thereby head-adding cascades of the scroll wave chimeras. The phenomenon is derived for the Kuramoto model of N 3 identical phase oscillators placed in the unit 3D cube with periodic boundary conditions, parameters being the coupling radius r and phase lag α. To obtain the multiheaded chimeras, we perform the so-called `cloning procedure' as follows: choose a sample single-headed 3D chimera state, make appropriate scale transformation, and put some number of copies of them into the unit cube. After that, start numerical simulations with slightly perturbed initial conditions and continue them for a sufficiently long time to confirm or reject the state existence and stability. In this way it is found, that multiple scroll wave chimeras including those with incoherent rolls, Hopf links and trefoil knots admit this sort of multiheaded regeneration. On the other hand, multiple 3D chimeras without spiral rotations, like coherent and incoherent balls, tubes, crosses, and layers appear to be unstable and are destroyed rather fast even for arbitrarily small initial perturbations.

  11. Core-SINE blocks comprise a large fraction of monotreme genomes; implications for vertebrate chromosome evolution.

    PubMed

    Kirby, Patrick J; Greaves, Ian K; Koina, Edda; Waters, Paul D; Marshall Graves, Jennifer A

    2007-01-01

    The genomes of the egg-laying platypus and echidna are of particular interest because monotremes are the most basal mammal group. The chromosomal distribution of an ancient family of short interspersed repeats (SINEs), the core-SINEs, was investigated to better understand monotreme genome organization and evolution. Previous studies have identified the core-SINE as the predominant SINE in the platypus genome, and in this study we quantified, characterized and localized subfamilies. Dot blot analysis suggested that a very large fraction (32% of the platypus and 16% of the echidna genome) is composed of Mon core-SINEs. Core-SINE-specific primers were used to amplify PCR products from platypus and echidna genomic DNA. Sequence analysis suggests a common consensus sequence Mon 1-B, shared by platypus and echidna, as well as platypus-specific Mon 1-C and echidna specific Mon 1-D consensus sequences. FISH mapping of the Mon core-SINE products to platypus metaphase spreads demonstrates that the Mon-1C subfamily is responsible for the striking Mon core-SINE accumulation in the distal regions of the six large autosomal pairs and the largest X chromosome. This unusual distribution highlights the dichotomy between the seven large chromosome pairs and the 19 smaller pairs in the monotreme karyotype, which has some similarity to the macro- and micro-chromosomes of birds and reptiles, and suggests that accumulation of repetitive sequences may have enlarged small chromosomes in an ancestral vertebrate. In the forthcoming sequence of the platypus genome there are still large gaps, and the extensive Mon core-SINE accumulation on the distal regions of the six large autosomal pairs may provide one explanation for this missing sequence.

  12. Short interspersed transposable elements (SINEs) are excluded from imprinted regions in the human genome.

    PubMed

    Greally, John M

    2002-01-08

    To test whether regions undergoing genomic imprinting have unique genomic characteristics, imprinted and nonimprinted human loci were compared for nucleotide and retroelement composition. Maternally and paternally expressed subgroups of imprinted genes were found to differ in terms of guanine and cytosine, CpG, and retroelement content, indicating a segregation into distinct genomic compartments. Imprinted regions have been normally permissive to L1 long interspersed transposable element retroposition during mammalian evolution but universally and significantly lack short interspersed transposable elements (SINEs). The primate-specific Alu SINEs, as well as the more ancient mammalian-wide interspersed repeat SINEs, are found at significantly low densities in imprinted regions. The latter paleogenomic signature indicates that the sequence characteristics of currently imprinted regions existed before the mammalian radiation. Transitions from imprinted to nonimprinted genomic regions in cis are characterized by a sharp inflection in SINE content, demonstrating that this genomic characteristic can help predict the presence and extent of regions undergoing imprinting. During primate evolution, SINE accumulation in imprinted regions occurred at a decreased rate compared with control loci. The constraint on SINE accumulation in imprinted regions may be mediated by an active selection process. This selection could be because of SINEs attracting and spreading methylation, as has been found at other loci. Methylation-induced silencing could lead to deleterious consequences at imprinted loci, where inactivation of one allele is already established, and expression is often essential for embryonic growth and survival.

  13. Short interspersed transposable elements (SINEs) are excluded from imprinted regions in the human genome

    PubMed Central

    Greally, John M.

    2002-01-01

    To test whether regions undergoing genomic imprinting have unique genomic characteristics, imprinted and nonimprinted human loci were compared for nucleotide and retroelement composition. Maternally and paternally expressed subgroups of imprinted genes were found to differ in terms of guanine and cytosine, CpG, and retroelement content, indicating a segregation into distinct genomic compartments. Imprinted regions have been normally permissive to L1 long interspersed transposable element retroposition during mammalian evolution but universally and significantly lack short interspersed transposable elements (SINEs). The primate-specific Alu SINEs, as well as the more ancient mammalian-wide interspersed repeat SINEs, are found at significantly low densities in imprinted regions. The latter paleogenomic signature indicates that the sequence characteristics of currently imprinted regions existed before the mammalian radiation. Transitions from imprinted to nonimprinted genomic regions in cis are characterized by a sharp inflection in SINE content, demonstrating that this genomic characteristic can help predict the presence and extent of regions undergoing imprinting. During primate evolution, SINE accumulation in imprinted regions occurred at a decreased rate compared with control loci. The constraint on SINE accumulation in imprinted regions may be mediated by an active selection process. This selection could be because of SINEs attracting and spreading methylation, as has been found at other loci. Methylation-induced silencing could lead to deleterious consequences at imprinted loci, where inactivation of one allele is already established, and expression is often essential for embryonic growth and survival. PMID:11756672

  14. Short Interspersed Nuclear Element (SINE) Sequences in the Genome of the Human Pathogenic Fungus Aspergillus fumigatus Af293.

    PubMed

    Kanhayuwa, Lakkhana; Coutts, Robert H A

    2016-01-01

    Novel families of short interspersed nuclear element (SINE) sequences in the human pathogenic fungus Aspergillus fumigatus, clinical isolate Af293, were identified and categorised into tRNA-related and 5S rRNA-related SINEs. Eight predicted tRNA-related SINE families originating from different tRNAs, and nominated as AfuSINE2 sequences, contained target site duplications of short direct repeat sequences (4-14 bp) flanking the elements, an extended tRNA-unrelated region and typical features of RNA polymerase III promoter sequences. The elements ranged in size from 140-493 bp and were present in low copy number in the genome and five out of eight were actively transcribed. One putative tRNAArg-derived sequence, AfuSINE2-1a possessed a unique feature of repeated trinucleotide ACT residues at its 3'-terminus. This element was similar in sequence to the I-4_AO element found in A. oryzae and an I-1_AF long nuclear interspersed element-like sequence identified in A. fumigatus Af293. Families of 5S rRNA-related SINE sequences, nominated as AfuSINE3, were also identified and their 5'-5S rRNA-related regions show 50-65% and 60-75% similarity to respectively A. fumigatus 5S rRNAs and SINE3-1_AO found in A. oryzae. A. fumigatus Af293 contains five copies of AfuSINE3 sequences ranging in size from 259-343 bp and two out of five AfuSINE3 sequences were actively transcribed. Investigations on AfuSINE distribution in the fungal genome revealed that the elements are enriched in pericentromeric and subtelomeric regions and inserted within gene-rich regions. We also demonstrated that some, but not all, AfuSINE sequences are targeted by host RNA silencing mechanisms. Finally, we demonstrated that infection of the fungus with mycoviruses had no apparent effects on SINE activity.

  15. Occurrence of Can-SINEs and intron sequence evolution supports robust phylogeny of pinniped carnivores and their terrestrial relatives.

    PubMed

    Schröder, Christiane; Bleidorn, Christoph; Hartmann, Stefanie; Tiedemann, Ralph

    2009-12-15

    Investigating the dog genome we found 178965 introns with a moderate length of 200-1000 bp. A screening of these sequences against 23 different repeat libraries to find insertions of short interspersed elements (SINEs) detected 45276 SINEs. Virtually all of these SINEs (98%) belong to the tRNA-derived Can-SINE family. Can-SINEs arose about 55 million years ago before Carnivora split into two basal groups, the Caniformia (dog-like carnivores) and the Feliformia (cat-like carnivores). Genome comparisons of dog and cat recovered 506 putatively informative SINE loci for caniformian phylogeny. In this study we show how to use such genome information of model organisms to research the phylogeny of related non-model species of interest. Investigating a dataset including representatives of all major caniformian lineages, we analysed 24 randomly chosen loci for 22 taxa. All loci were amplifiable and revealed 17 parsimony-informative SINE insertions. The screening for informative SINE insertions yields a large amount of sequence information, in particular of introns, which contain reliable phylogenetic information as well. A phylogenetic analysis of intron- and SINE sequence data provided a statistically robust phylogeny which is congruent with the absence/presence pattern of our SINE markers. This phylogeny strongly supports a sistergroup relationship of Musteloidea and Pinnipedia. Within Pinnipedia, we see strong support from bootstrapping and the presence of a SINE insertion for a sistergroup relationship of the walrus with the Otariidae.

  16. The LINEs and SINEs of Entamoeba histolytica: comparative analysis and genomic distribution.

    PubMed

    Bakre, Abhijeet A; Rawal, Kamal; Ramaswamy, Ram; Bhattacharya, Alok; Bhattacharya, Sudha

    2005-07-01

    Autonomous non-long terminal repeat retrotransposons are commonly referred to as long interspersed elements (LINEs). Short non-autonomous elements that borrow the LINE machinery are called SINES. The Entamoeba histolytica genome contains three classes of LINEs and SINEs. Together the EhLINEs/SINEs account for about 6% of the genome. The recognizable functional domains in all three EhLINEs included reverse transcriptase and endonuclease. A novel feature was the presence of two types of members-some with a single long ORF (less frequent) and some with two ORFs (more frequent) in both EhLINE1 and 2. The two ORFs were generated by conserved changes leading to stop codon. Computational analysis of the immediate flanking sequences for each element showed that they inserted in AT-rich sequences, with a preponderance of Ts in the upstream site. The elements were very frequently located close to protein-coding genes and other EhLINEs/SINEs. The possible influence of these elements on expression of neighboring genes needs to be determined.

  17. Dynamics of generalized sine-Gordon soliton in inhomogeneous media

    NASA Astrophysics Data System (ADS)

    Gharaati, A.; Khordad, R.

    2011-03-01

    In this paper we introduce a few novel generalized sine-Gordon equations and study the dynamics of its solitons in inhomogeneous media. We consider length, mass, gravitational acceleration and spring stiffness of a coupled pendulums chain as a function of position x. Then in the continuum limit we derive semi-analytical and numerical soliton solutions of the modified sine-Gordon equation in the inhomogeneous media. The obtained results confirm that the behavior of solitons in these media is similar to that of a classical point particle moved in an external potential.

  18. Development and application of SINE multilocus and quantitative genetic markers to study oilseed rape (Brassica napus L.) crops.

    PubMed

    Allnutt, T R; Roper, K; Henry, C

    2008-01-23

    A genetic marker system based on the S1 Short Interspersed Elements (SINEs) in the important commercial crop, oilseed rape ( Brassica napus L.) has been developed. SINEs provided a successful multilocus, dominant marker system that was capable of clearly delineating winter- and spring-type crop varieties. Sixteen of 20 varieties tested showed unique profiles from the 17 polymorphic SINE markers generated. The 3' or 5' flank region of nine SINE markers were cloned, and DNA was sequenced. In addition, one putative pre-transposition SINE allele was cloned and sequenced. Two SINE flanking sequences were used to design real-time PCR assays. These quantitative SINE assays were applied to study the genetic structure of eight fields of oilseed rape crops. Studied fields were more genetically diverse than expected for the chosen loci (mean H T = 0.23). The spatial distribution of SINE marker frequencies was highly structured in some fields, suggesting locations of volunteer impurities within the crop. In one case, the assay identified a mislabeling of the crop variety. SINE markers were a useful tool for crop genetics, phylogenetics, variety identification, and purity analysis. The use and further application of quantitative, real-time PCR markers are discussed.

  19. Long-life electromechanical sine-cosine generator

    NASA Technical Reports Server (NTRS)

    Flagge, B.

    1971-01-01

    Sine-cosine generator with no sliding parts is capable of withstanding a 20 Hz oscillation for more than 14 hours. Tests show that generator is electrically equal to potentiometer and that it has excellent dynamic characteristics. Generator shows promise of higher-speed applications than was previously possible.

  20. The optimal digital filters of sine and cosine transforms for geophysical transient electromagnetic method

    NASA Astrophysics Data System (ADS)

    Zhao, Yun-wei; Zhu, Zi-qiang; Lu, Guang-yin; Han, Bo

    2018-03-01

    The sine and cosine transforms implemented with digital filters have been used in the Transient electromagnetic methods for a few decades. Kong (2007) proposed a method of obtaining filter coefficients, which are computed in the sample domain by Hankel transform pair. However, the curve shape of Hankel transform pair changes with a parameter, which usually is set to be 1 or 3 in the process of obtaining the digital filter coefficients of sine and cosine transforms. First, this study investigates the influence of the parameter on the digital filter algorithm of sine and cosine transforms based on the digital filter algorithm of Hankel transform and the relationship between the sine, cosine function and the ±1/2 order Bessel function of the first kind. The results show that the selection of the parameter highly influences the precision of digital filter algorithm. Second, upon the optimal selection of the parameter, it is found that an optimal sampling interval s also exists to achieve the best precision of digital filter algorithm. Finally, this study proposes four groups of sine and cosine transform digital filter coefficients with different length, which may help to develop the digital filter algorithm of sine and cosine transforms, and promote its application.

  1. Analyses of carnivore microsatellites and their intimate association with tRNA-derived SINEs.

    PubMed

    López-Giráldez, Francesc; Andrés, Olga; Domingo-Roura, Xavier; Bosch, Montserrat

    2006-10-23

    The popularity of microsatellites has greatly increased in the last decade on account of their many applications. However, little is currently understood about the factors that influence their genesis and distribution among and within species genomes. In this work, we analyzed carnivore microsatellite clones from GenBank to study their association with interspersed repeats and elucidate the role of the latter in microsatellite genesis and distribution. We constructed a comprehensive carnivore microsatellite database comprising 1236 clones from GenBank. Thirty-three species of 11 out of 12 carnivore families were represented, although two distantly related species, the domestic dog and cat, were clearly overrepresented. Of these clones, 330 contained tRNALys-derived SINEs and 357 contained other interspersed repeats. Our rough estimates of tRNA SINE copies per haploid genome were much higher than published ones. Our results also revealed a distinct juxtaposition of AG and A-rich repeats and tRNALys-derived SINEs suggesting their coevolution. Both microsatellites arose repeatedly in two regions of the interspersed repeat. Moreover, microsatellites associated with tRNALys-derived SINEs showed the highest complexity and less potential instability. Our results suggest that tRNALys-derived SINEs are a significant source for microsatellite generation in carnivores, especially for AG and A-rich repeat motifs. These observations indicate two modes of microsatellite generation: the expansion and variation of pre-existing tandem repeats and the conversion of sequences with high cryptic simplicity into a repeat array; mechanisms which are not specific to tRNALys-derived SINEs. Microsatellite and interspersed repeat coevolution could also explain different distribution of repeat types among and within species genomes.Finally, due to their higher complexity and lower potential informative content of microsatellites associated with tRNALys-derived SINEs, we recommend avoiding

  2. Analyses of carnivore microsatellites and their intimate association with tRNA-derived SINEs

    PubMed Central

    López-Giráldez, Francesc; Andrés, Olga; Domingo-Roura, Xavier; Bosch, Montserrat

    2006-01-01

    Background The popularity of microsatellites has greatly increased in the last decade on account of their many applications. However, little is currently understood about the factors that influence their genesis and distribution among and within species genomes. In this work, we analyzed carnivore microsatellite clones from GenBank to study their association with interspersed repeats and elucidate the role of the latter in microsatellite genesis and distribution. Results We constructed a comprehensive carnivore microsatellite database comprising 1236 clones from GenBank. Thirty-three species of 11 out of 12 carnivore families were represented, although two distantly related species, the domestic dog and cat, were clearly overrepresented. Of these clones, 330 contained tRNALys-derived SINEs and 357 contained other interspersed repeats. Our rough estimates of tRNA SINE copies per haploid genome were much higher than published ones. Our results also revealed a distinct juxtaposition of AG and A-rich repeats and tRNALys-derived SINEs suggesting their coevolution. Both microsatellites arose repeatedly in two regions of the insterspersed repeat. Moreover, microsatellites associated with tRNALys-derived SINEs showed the highest complexity and less potential instability. Conclusion Our results suggest that tRNALys-derived SINEs are a significant source for microsatellite generation in carnivores, especially for AG and A-rich repeat motifs. These observations indicate two modes of microsatellite generation: the expansion and variation of pre-existing tandem repeats and the conversion of sequences with high cryptic simplicity into a repeat array; mechanisms which are not specific to tRNALys-derived SINEs. Microsatellite and interspersed repeat coevolution could also explain different distribution of repeat types among and within species genomes. Finally, due to their higher complexity and lower potential informative content of microsatellites associated with t

  3. Talua SINE biology in the genome of the Reticulitermes subterranean termites (Isoptera, Rhinotermitidae).

    PubMed

    Luchetti, Andrea; Mantovani, Barbara

    2009-12-01

    Studies on transposable elements in termites are of interest because their genome is in a permanent condition of inbreeding. In this situation, an increase in transposon copy number should be mainly due to a Muller's ratchet effect, with selection against deleterious insertions playing a major role. Short INterspersed Elements (SINEs) are non-autonomous retrotransposons, known to be stable components of eukaryotic genomes. The SINE Talua, first isolated from Reticulitermes lucifugus (Rhinotermitidae), is the only mobile element described so far in termites. In the present survey, Talua has been found widespread in the Isoptera order. In comparison with other non-termite SINEs, Talua diversity and distribution in the Reticulitermes genome demonstrate that Talua is an ancient component of termite genome and that it is significantly associated with other repeats. In particular, the element is found to be involved with microsatellite motifs either as their generator or because inserted in their nearby. Further, two new SINEs and a putative retrotranscriptase-like sequence were found linked to Talua. Talua's genomic distribution is discussed in the light of the available models on transposable element dynamics within inbred genomes, also taking into account SINE role as drivers of genetic diversity in counteracting inbreeding depression.

  4. Mössbauer spectra linearity improvement by sine velocity waveform followed by linearization process

    NASA Astrophysics Data System (ADS)

    Kohout, Pavel; Frank, Tomas; Pechousek, Jiri; Kouril, Lukas

    2018-05-01

    This note reports the development of a new method for linearizing the Mössbauer spectra recorded with a sine drive velocity signal. Mössbauer spectra linearity is a critical parameter to determine Mössbauer spectrometer accuracy. Measuring spectra with a sine velocity axis and consecutive linearization increases the linearity of spectra in a wider frequency range of a drive signal, as generally harmonic movement is natural for velocity transducers. The obtained data demonstrate that linearized sine spectra have lower nonlinearity and line width parameters in comparison with those measured using a traditional triangle velocity signal.

  5. [Non-LTR retrotransposons: LINEs and SINEs in plant genome].

    PubMed

    Cheng, Xu-Dong; Ling, Hong-Qing

    2006-06-01

    Retrotransposons are one of the drivers of genome evolution. They include LTR (long terminal repeat) retrotransposons, which widespread in Eukaryotagenomes, show structural similarity to retroviruses. Non-LTR retrotransposons were first discovered in animal genomes and then identified as ubiquitous components of nuclear genomes in many species across the plant kingdom. They constitute a large fraction of the repetitive DNA. Non-LTR retrotransposons are divided into LINEs (long interspersed nuclear elements) and SINEs (short interspersed nuclear elements). Transposition of non-LTR retrotransposons is rarely observed in plants indicating that most of them are inactive and/or under regulation of the host genome. Transposition is poorly understood, but experimental evidence from other genetic systems shows that LINEs are able to transpose autonomously while non-autonomous SINEs depend on the reverse transcription machinery of other retrotransposons. Phylogenic analysis shows LINEs are probably the most ancient class of retrotransposons in plant genomes, while the origin of SINEs is unknown. This review sums up the above data and wants to show readers a clear picture of non-LTR retrotransposons.

  6. Primordial standing waves

    NASA Astrophysics Data System (ADS)

    Gubitosi, Giulia; Magueijo, João

    2018-03-01

    We consider the possibility that the primordial fluctuations (scalar and tensor) might have been standing waves at their moment of creation, whether or not they had a quantum origin. We lay down the general conditions for spatial translational invariance, and isolate the pieces of the most general such theory that comply with, or break translational symmetry. We find that, in order to characterize statistically translationally invariant standing waves, it is essential to consider the correlator ⟨c0(k )c0(k')⟩ in addition to the better known ⟨c0(k )c0†(k')⟩ [where c0(k ) are the complex amplitudes of traveling waves]. We then examine how the standard process of "squeezing" (responsible for converting traveling waves into standing waves while the fluctuations are outside the horizon) reacts to being fed primordial standing waves. For translationally invariant systems only one type of standing wave, with the correct temporal phase (the "sine wave"), survives squeezing. Primordial standing waves might therefore be invisible at late times—or not—depending on their phase. Theories with modified dispersion relations behave differently in this respect, since only standing waves with the opposite temporal phase survive at late times.

  7. Use of Sine Shaped High-Frequency Rhythmic Visual Stimuli Patterns for SSVEP Response Analysis and Fatigue Rate Evaluation in Normal Subjects

    PubMed Central

    Keihani, Ahmadreza; Shirzhiyan, Zahra; Farahi, Morteza; Shamsi, Elham; Mahnam, Amin; Makkiabadi, Bahador; Haidari, Mohsen R.; Jafari, Amir H.

    2018-01-01

    Background: Recent EEG-SSVEP signal based BCI studies have used high frequency square pulse visual stimuli to reduce subjective fatigue. However, the effect of total harmonic distortion (THD) has not been considered. Compared to CRT and LCD monitors, LED screen displays high-frequency wave with better refresh rate. In this study, we present high frequency sine wave simple and rhythmic patterns with low THD rate by LED to analyze SSVEP responses and evaluate subjective fatigue in normal subjects. Materials and Methods: We used patterns of 3-sequence high-frequency sine waves (25, 30, and 35 Hz) to design our visual stimuli. Nine stimuli patterns, 3 simple (repetition of each of above 3 frequencies e.g., P25-25-25) and 6 rhythmic (all of the frequencies in 6 different sequences e.g., P25-30-35) were chosen. A hardware setup with low THD rate (<0.1%) was designed to present these patterns on LED. Twenty two normal subjects (aged 23–30 (25 ± 2.1) yrs) were enrolled. Visual analog scale (VAS) was used for subjective fatigue evaluation after presentation of each stimulus pattern. PSD, CCA, and LASSO methods were employed to analyze SSVEP responses. The data including SSVEP features and fatigue rate for different visual stimuli patterns were statistically evaluated. Results: All 9 visual stimuli patterns elicited SSVEP responses. Overall, obtained accuracy rates were 88.35% for PSD and > 90% for CCA and LASSO (for TWs > 1 s). High frequency rhythmic patterns group with low THD rate showed higher accuracy rate (99.24%) than simple patterns group (98.48%). Repeated measure ANOVA showed significant difference between rhythmic pattern features (P < 0.0005). Overall, there was no significant difference between the VAS of rhythmic [3.85 ± 2.13] compared to the simple patterns group [3.96 ± 2.21], (P = 0.63). Rhythmic group had lower within group VAS variation (min = P25-30-35 [2.90 ± 2.45], max = P35-25-30 [4.81 ± 2.65]) as well as least individual pattern VAS (P25

  8. Use of Sine Shaped High-Frequency Rhythmic Visual Stimuli Patterns for SSVEP Response Analysis and Fatigue Rate Evaluation in Normal Subjects.

    PubMed

    Keihani, Ahmadreza; Shirzhiyan, Zahra; Farahi, Morteza; Shamsi, Elham; Mahnam, Amin; Makkiabadi, Bahador; Haidari, Mohsen R; Jafari, Amir H

    2018-01-01

    Background: Recent EEG-SSVEP signal based BCI studies have used high frequency square pulse visual stimuli to reduce subjective fatigue. However, the effect of total harmonic distortion (THD) has not been considered. Compared to CRT and LCD monitors, LED screen displays high-frequency wave with better refresh rate. In this study, we present high frequency sine wave simple and rhythmic patterns with low THD rate by LED to analyze SSVEP responses and evaluate subjective fatigue in normal subjects. Materials and Methods: We used patterns of 3-sequence high-frequency sine waves (25, 30, and 35 Hz) to design our visual stimuli. Nine stimuli patterns, 3 simple (repetition of each of above 3 frequencies e.g., P25-25-25) and 6 rhythmic (all of the frequencies in 6 different sequences e.g., P25-30-35) were chosen. A hardware setup with low THD rate (<0.1%) was designed to present these patterns on LED. Twenty two normal subjects (aged 23-30 (25 ± 2.1) yrs) were enrolled. Visual analog scale (VAS) was used for subjective fatigue evaluation after presentation of each stimulus pattern. PSD, CCA, and LASSO methods were employed to analyze SSVEP responses. The data including SSVEP features and fatigue rate for different visual stimuli patterns were statistically evaluated. Results: All 9 visual stimuli patterns elicited SSVEP responses. Overall, obtained accuracy rates were 88.35% for PSD and > 90% for CCA and LASSO (for TWs > 1 s). High frequency rhythmic patterns group with low THD rate showed higher accuracy rate (99.24%) than simple patterns group (98.48%). Repeated measure ANOVA showed significant difference between rhythmic pattern features ( P < 0.0005). Overall, there was no significant difference between the VAS of rhythmic [3.85 ± 2.13] compared to the simple patterns group [3.96 ± 2.21], ( P = 0.63). Rhythmic group had lower within group VAS variation (min = P25-30-35 [2.90 ± 2.45], max = P35-25-30 [4.81 ± 2.65]) as well as least individual pattern VAS (P25

  9. Using SINEs to probe ancient explosive speciation: "hidden" radiation of African cichlids?

    PubMed

    Terai, Yohey; Takahashi, Kazuhiko; Nishida, Mutsumi; Sato, Tetsu; Okada, Norihiro

    2003-06-01

    Cichlid fishes of the east African Great Lakes represent a paradigm of adaptive radiation. We conducted a phylogenetic analysis of cichlids including pan-African and west African species by using insertion patterns of short interspersed elements (SINEs) at orthologous loci. The monophyly of the east African cichlids was consistently supported by seven independent insertions of SINE sequences that are uniquely shared by these species. In addition, data from four other loci indicated that the genera Tilapia (pan-African) and Steatocranus (west African) are the closest relatives to east African cichlids. However, relationships among Tilapia, Steatocranus, and the east African clade were ambiguous because of incongruencies among topologies suggested by insertion patterns of SINEs at six other loci. One plausible explanation for this phenomenon is incomplete lineage sorting of alleles containing or missing a SINE insertion at these loci during ancestral speciation. Such incomplete sorting may have taken place earlier than 14 MYA, followed by random and stochastic fixation of the alleles in subsequent lineages. These observations prompted us to consider the possibility that cichlid speciation occurred at an accelerated rate during this period when the African Great Lakes did not exist. The SINE method could be useful for detecting ancient exclusive speciation events that tend to remain hidden during conventional sequence analyses because of accumulated point mutations.

  10. Short Interspersed Nuclear Element (SINE) Sequences in the Genome of the Human Pathogenic Fungus Aspergillus fumigatus Af293

    PubMed Central

    Kanhayuwa, Lakkhana; Coutts, Robert H. A.

    2016-01-01

    Novel families of short interspersed nuclear element (SINE) sequences in the human pathogenic fungus Aspergillus fumigatus, clinical isolate Af293, were identified and categorised into tRNA-related and 5S rRNA-related SINEs. Eight predicted tRNA-related SINE families originating from different tRNAs, and nominated as AfuSINE2 sequences, contained target site duplications of short direct repeat sequences (4–14 bp) flanking the elements, an extended tRNA-unrelated region and typical features of RNA polymerase III promoter sequences. The elements ranged in size from 140–493 bp and were present in low copy number in the genome and five out of eight were actively transcribed. One putative tRNAArg-derived sequence, AfuSINE2-1a possessed a unique feature of repeated trinucleotide ACT residues at its 3’-terminus. This element was similar in sequence to the I-4_AO element found in A. oryzae and an I-1_AF long nuclear interspersed element-like sequence identified in A. fumigatus Af293. Families of 5S rRNA-related SINE sequences, nominated as AfuSINE3, were also identified and their 5'-5S rRNA-related regions show 50–65% and 60–75% similarity to respectively A. fumigatus 5S rRNAs and SINE3-1_AO found in A. oryzae. A. fumigatus Af293 contains five copies of AfuSINE3 sequences ranging in size from 259–343 bp and two out of five AfuSINE3 sequences were actively transcribed. Investigations on AfuSINE distribution in the fungal genome revealed that the elements are enriched in pericentromeric and subtelomeric regions and inserted within gene-rich regions. We also demonstrated that some, but not all, AfuSINE sequences are targeted by host RNA silencing mechanisms. Finally, we demonstrated that infection of the fungus with mycoviruses had no apparent effects on SINE activity. PMID:27736869

  11. Polypteridae (Actinopterygii: Cladistia) and DANA-SINEs insertions.

    PubMed

    Morescalchi, Maria Alessandra; Barucca, Marco; Stingo, Vincenzo; Capriglione, Teresa

    2010-06-01

    SINE sequences are interspersed throughout virtually all eukaryotic genomes and greatly outnumber the other repetitive elements. These sequences are of increasing interest for phylogenetic studies because of their diagnostic power for establishing common ancestry among taxa, once properly characterized. We identified and characterized a peculiar family of composite tRNA-derived short interspersed SINEs, DANA-SINEs, associated with mutational activities in Danio rerio, in a group of species belonging to one of the most basal bony fish families, the Polypteridae, in order to investigate their own inner specific phylogenetic relationships. DANA sequences were identified, sequenced and then localized, by means of fluorescent in situ hybridization (FISH), in six Polypteridae species (Polypterus delhezi, P. ornatipinnis, P. palmas, P. buettikoferi P. senegalus and Erpetoichthys calabaricus) After cloning, the sequences obtained were aligned for phylogenetic analysis, comparing them with three Dipnoan lungfish species (Protopterus annectens, P. aethiopicus, Lepidosiren paradoxa), and Lethenteron reissneri (Petromyzontidae)was used as outgroup. The obtained overlapping MP, ML and NJ tree clustered together the species belonging to the two taxonomically different Osteichthyans groups: the Polypteridae, by one side, and the Protopteridae by the other, with the monotypic genus Erpetoichthys more distantly related to the Polypterus genus comprising three distinct groups: P. palmas and P. buettikoferi, P. delhezi and P. ornatipinnis and P. senegalus. In situ hybridization with DANA probes marked along the whole chromosome arms in the metaphases of all the Polypteridae species examined. Copyright © 2010 Elsevier B.V. All rights reserved.

  12. Phylogenetic relationships among East African haplochromine fish as revealed by short interspersed elements (SINEs).

    PubMed

    Terai, Yohey; Takezaki, Naoko; Mayer, Werner E; Tichy, Herbert; Takahata, Naoyuki; Klein, Jan; Okada, Norihiro

    2004-01-01

    Genomic DNA libraries were prepared from two endemic species of Lake Victoria haplochromine (cichlid) fish and used to isolate and characterize a set of short interspersed elements (SINEs). The distribution and sequences of the SINEs were used to infer phylogenetic relationships among East African haplochromines. The SINE-based classification divides the fish into four groups, which, in order of their divergence from a stem lineage, are the endemic Lake Tanganyika flock (group 1); fish of the nonendemic, monotypic, widely distributed genus Astatoreochromis (group 2); the endemic Lake Malawi flock (group 3); and group 4, which contains fish from widely dispersed East African localities including Lakes Victoria, Edward, George, Albert, and Rukwa, as well as many rivers. The group 4 haplochromines are characterized by a subset of polymorphic SINEs, each of which is present in some individuals and absent in others of the same population at a given locality, the same morphologically defined species, and the same mtDNA-defined haplogroup. SINE-defined group 4 contains six of the seven previously described mtDNA haplogroups. One of the polymorphic SINEs appears to be fixed in the endemic Lake Victoria flock; four others display the presence-or-absence polymorphism within the species of this flock. These findings have implications for the origin of Lake Victoria cichlids and for their founding population sizes.

  13. Conjunctival amelanotic malignant melanoma arising in primary acquired melanosis sine pigmento.

    PubMed

    Jay, V; Font, R L

    1998-01-01

    The authors describe an amelanotic malignant melanoma of the conjunctiva in association with primary acquired melanosis (PAM) sine pigmento, and highlight the clinical and pathologic features of this rare entity. Histopathologic and immunohistochemical studies were performed on a conjunctival tumor in a 54-year-old white woman. Case report. Histopathologic examination revealed an invasive amelanotic melanoma of the conjunctiva, with anterior orbital extension arising from intraepithelial dysplastic melanocytes that lacked melanin pigment (PAM sine pigmento). Both the malignant melanoma cells and the intraepithelial dysplastic melanocytes in the areas of PAM exhibited S-100 and HMB-45 positivity. The patient underwent an orbital exenteration that disclosed tumor within the anterior orbit inferiorly. Amelanotic invasive malignant melanoma can arise in association with PAM sine pigmento, as seen in our patient who had orbital invasion necessitating exenteration. This aggressive form of conjunctival melanoma is often associated with a poor prognosis and risk of metastatic disease. Absence of conjunctival pigmentation in PAM sine pigmento prevents early clinical detection of this variant of PAM. This lack of pigmentation also makes clinical diagnosis virtually impossible, and diagnosis can only be established histopathologically. Awareness of this nonpigmented variety of PAM is crucial for early recognition and appropriate management of the associated melanoma.

  14. Study of wave form compensation at CSNS/RCS magnets

    NASA Astrophysics Data System (ADS)

    Xu, S. Y.; Fu, S. N.; Wang, S.; Kang, W.; Qi, X.; Li, L.; Deng, C. D.; Zhou, J. X.

    2018-07-01

    A method of wave form compensation for magnets of the Rapid Cycling Synchrotron (RCS), which is based on transfer function between magnetic field and exciting current, was investigated on the magnets of RCS of Chinese Spallation Neutron Source (CSNS). By performing wave form compensation, the magnetic field ramping function for RCS magnets can be accurately controlled to the given wave form, which is not limited to sine function. The method of wave form compensation introduced in this paper can be used to reduce the magnetic field tracking errors, and can also be used to accurately control the betatron tune for RCS.

  15. Modified hyperbolic sine model for titanium dioxide-based memristive thin films

    NASA Astrophysics Data System (ADS)

    Abu Bakar, Raudah; Syahirah Kamarozaman, Nur; Fazlida Hanim Abdullah, Wan; Herman, Sukreen Hana

    2018-03-01

    Since the emergence of memristor as the newest fundamental circuit elements, studies on memristor modeling have been evolved. To date, the developed models were based on the linear model, linear ionic drift model using different window functions, tunnelling barrier model and hyperbolic-sine function based model. Although using hyperbolic-sine function model could predict the memristor electrical properties, the model was not well fitted to the experimental data. In order to improve the performance of the hyperbolic-sine function model, the state variable equation was modified. On the one hand, the addition of window function cannot provide an improved fitting. By multiplying the Yakopcic’s state variable model to Chang’s model on the other hand resulted in the closer agreement with the TiO2 thin film experimental data. The percentage error was approximately 2.15%.

  16. On the Monge-Ampere equivalent of the sine-Gordon equation

    NASA Astrophysics Data System (ADS)

    Ferapontov, E. V.; Nutku, Y.

    1994-12-01

    Surfaces of constant negative curvature in Euclidean space can be described by either the sine-Gordon equation for the angle between asymptotic directions, or a Monge-Ampere equation for the graph of the surface. We present the explicit form of the correspondence between these two integrable non-linear partial differential equations using their well-known properties in differential geometry. We find that the cotangent of the angle between asymptotic directions is directly related to the mean curvature of the surface. This is a Backlund-type transformation between the sine-Gordon and Monge-Ampere equations.

  17. A generalized sine condition and performance comparison of Wolter type II and Wolter-Schwarzschild extreme ultraviolet telescopes

    NASA Technical Reports Server (NTRS)

    Saha, T. T.

    1984-01-01

    An equation similar to the Abbe sine condition is derived for a Wolter type II telescope. This equation and the sine condition are then combined to produce a so called generalized sine condition. Using the law of reflection, Fermat's principle, the generalized sine condition, and simple geometry the surface equations for a Wolter type II telescope and an equivalent Wolter-Schwarzschild telescope are calculated. The performances of the telescopes are compared in terms of rms blur circle radius at the Gaussian focal plane and at best focus.

  18. Single actuator wave-like robot (SAW): design, modeling, and experiments.

    PubMed

    Zarrouk, David; Mann, Moshe; Degani, Nir; Yehuda, Tal; Jarbi, Nissan; Hess, Amotz

    2016-07-01

    In this paper, we present a single actuator wave-like robot, a novel bioinspired robot which can move forward or backward by producing a continuously advancing wave. The robot has a unique minimalistic mechanical design and produces an advancing sine wave, with a large amplitude, using only a single motor but with no internal straight spine. Over horizontal surfaces, the robot does not slide relative to the surface and its direction of locomotion is determined by the direction of rotation of the motor. We developed a kinematic model of the robot that accounts for the two-dimensional mechanics of motion and yields the speed of the links relative to the motor. Based on the optimization of the kinematic model, and accounting for the mechanical constraints, we have designed and built multiple versions of the robot with different sizes and experimentally tested them (see movie). The experimental results were within a few percentages of the expectations. The larger version attained a top speed of 57 cm s(-1) over a horizontal surface and is capable of climbing vertically when placed between two walls. By optimizing the parameters, we succeeded in making the robot travel by 13% faster than its own wave speed.

  19. Benjamin Banneker and the Law of Sines

    ERIC Educational Resources Information Center

    Mahoney, John F.

    2005-01-01

    Benjamin Banneker, a self-taught mathematician, surveyor and astronomer published annual almanacs containing his astronomical observations and predictions. Banneker who also used logarithms to apply the Law of Sines believed that the method used to solve a mathematical problem depends on the tools available.

  20. Expansion of CORE-SINEs in the genome of the Tasmanian devil

    PubMed Central

    2012-01-01

    Background The genome of the carnivorous marsupial, the Tasmanian devil (Sarcophilus harrisii, Order: Dasyuromorphia), was sequenced in the hopes of finding a cure for or gaining a better understanding of the contagious devil facial tumor disease that is threatening the species’ survival. To better understand the Tasmanian devil genome, we screened it for transposable elements and investigated the dynamics of short interspersed element (SINE) retroposons. Results The temporal history of Tasmanian devil SINEs, elucidated using a transposition in transposition analysis, indicates that WSINE1, a CORE-SINE present in around 200,000 copies, is the most recently active element. Moreover, we discovered a new subtype of WSINE1 (WSINE1b) that comprises at least 90% of all Tasmanian devil WSINE1s. The frequencies of WSINE1 subtypes differ in the genomes of two of the other Australian marsupial orders. A co-segregation analysis indicated that at least 66 subfamilies of WSINE1 evolved during the evolution of Dasyuromorphia. Using a substitution rate derived from WSINE1 insertions, the ages of the subfamilies were estimated and correlated with a newly established phylogeny of Dasyuromorphia. Phylogenetic analyses and divergence time estimates of mitochondrial genome data indicate a rapid radiation of the Tasmanian devil and the closest relative the quolls (Dasyurus) around 14 million years ago. Conclusions The radiation and abundance of CORE-SINEs in marsupial genomes indicates that they may be a major player in the evolution of marsupials. It is evident that the early phases of evolution of the carnivorous marsupial order Dasyuromorphia was characterized by a burst of SINE activity. A correlation between a speciation event and a major burst of retroposon activity is for the first time shown in a marsupial genome. PMID:22559330

  1. Expansion of CORE-SINEs in the genome of the Tasmanian devil.

    PubMed

    Nilsson, Maria A; Janke, Axel; Murchison, Elizabeth P; Ning, Zemin; Hallström, Björn M

    2012-05-06

    The genome of the carnivorous marsupial, the Tasmanian devil (Sarcophilus harrisii, Order: Dasyuromorphia), was sequenced in the hopes of finding a cure for or gaining a better understanding of the contagious devil facial tumor disease that is threatening the species' survival. To better understand the Tasmanian devil genome, we screened it for transposable elements and investigated the dynamics of short interspersed element (SINE) retroposons. The temporal history of Tasmanian devil SINEs, elucidated using a transposition in transposition analysis, indicates that WSINE1, a CORE-SINE present in around 200,000 copies, is the most recently active element. Moreover, we discovered a new subtype of WSINE1 (WSINE1b) that comprises at least 90% of all Tasmanian devil WSINE1s. The frequencies of WSINE1 subtypes differ in the genomes of two of the other Australian marsupial orders. A co-segregation analysis indicated that at least 66 subfamilies of WSINE1 evolved during the evolution of Dasyuromorphia. Using a substitution rate derived from WSINE1 insertions, the ages of the subfamilies were estimated and correlated with a newly established phylogeny of Dasyuromorphia. Phylogenetic analyses and divergence time estimates of mitochondrial genome data indicate a rapid radiation of the Tasmanian devil and the closest relative the quolls (Dasyurus) around 14 million years ago. The radiation and abundance of CORE-SINEs in marsupial genomes indicates that they may be a major player in the evolution of marsupials. It is evident that the early phases of evolution of the carnivorous marsupial order Dasyuromorphia was characterized by a burst of SINE activity. A correlation between a speciation event and a major burst of retroposon activity is for the first time shown in a marsupial genome.

  2. Digging into the Elusive Localised Solutions of (2+1) Dimensional sine-Gordon Equation

    NASA Astrophysics Data System (ADS)

    Radha, R.; Senthil Kumar, C.

    2018-05-01

    In this paper, we revisit the (2+1) dimensional sine-Gordon equation analysed earlier [R. Radha and M. Lakshmanan, J. Phys. A Math. Gen. 29, 1551 (1996)] employing the Truncated Painlevé Approach. We then generate the solutions in terms of lower dimensional arbitrary functions of space and time. By suitably harnessing the arbitrary functions present in the closed form of the solution, we have constructed dromion solutions and studied their collisional dynamics. We have also constructed dromion pairs and shown that the dynamics of the dromion pairs can be turned ON or OFF desirably. In addition, we have also shown that the orientation of the dromion pairs can be changed. Apart from the above classes of solutions, we have also generated compactons, rogue waves and lumps and studied their dynamics.

  3. A novel abundant family of retroposed elements (DAS-SINEs) in the nine-banded armadillo (Dasypus novemcinctus).

    PubMed

    Churakov, Gennady; Smit, Arian F A; Brosius, Jürgen; Schmitz, Jürgen

    2005-04-01

    About half of the mammalian genome is composed of retroposons. Long interspersed elements (LINEs) and short interspersed elements (SINEs) are the most abundant repetitive elements and account for about 21% and 13% of the human genome, respectively. SINEs have been detected in all major mammalian lineages, except for the South American order Xenarthra, also termed Edentata (armadillos, anteaters, and sloths). Investigating this order, we discovered a novel high-copy-number family of tRNA derived SINEs in the nine-banded armadillo Dasypus novemcinctus, a species that successfully crossed the Central American land bridge to North America in the Pliocene. A specific computer algorithm was developed, and we detected and extracted 687 specific SINEs from databases. Termed DAS-SINEs, we further divided them into six distinct subfamilies. We extracted tRNA(Ala)-derived monomers, two types of dimers, and three subfamilies of chimeric fusion products of a tRNA(Ala) domain and an approximately 180-nt sequence of thus far unidentified origin. Comparisons of secondary structures of the DAS-SINEs' tRNA domains suggest selective pressure to maintain a tRNA-like D-arm structure in the respective founder RNAs, as shown by compensatory mutations. By analysis of subfamily-specific genetic variability, comparison of the proportion of direct repeats, and analysis of self-integrations as well as key events of dimerization and deletions or insertions, we were able to delineate the evolutionary history of the DAS-SINE subfamilies.

  4. Optical sensing of analytes in aqueous solutions with a multiple surface-plasmon-polariton-wave platform

    PubMed Central

    Swiontek, Stephen E.; Pulsifer, Drew P.; Lakhtakia, Akhlesh

    2013-01-01

    The commonly used optical sensor based on surface plasmon-polariton wave phenomenon can sense just one chemical, because only one SPP wave can be guided by the interface of a metal and a dielectric material contained in the sensor. Multiple analytes could be detected and/or the sensing reliability for a single analyte could be enhanced, if multiple SPP-wave modes could be excited on a single metal/dielectric interface. For that to happen, the partnering dielectric material must be periodically non-homogeneous. Using a chiral sculptured thin film (CSTF) as that material in a SPP-wave platform, we show that the angular locations of multiple SPP-wave modes shift when the void regions of the CSTF are infiltrated with a fluid. The sensitivities realized in the proof-of-concept experiments are comparable to state-of-research values. PMID:23474988

  5. 1.25  GHz sine wave gating InGaAs/InP single-photon detector with a monolithically integrated readout circuit.

    PubMed

    Jiang, Wen-Hao; Liu, Jian-Hong; Liu, Yin; Jin, Ge; Zhang, Jun; Pan, Jian-Wei

    2017-12-15

    InGaAs/InP single-photon detectors (SPDs) are the key devices for applications requiring near-infrared single-photon detection. The gating mode is an effective approach to synchronous single-photon detection. Increasing gating frequency and reducing the module size are important challenges for the design of such a detector system. Here we present for the first time, to the best of our knowledge, an InGaAs/InP SPD with 1.25 GHz sine wave gating (SWG) using a monolithically integrated readout circuit (MIRC). The MIRC has a size of 15  mm×15  mm and implements the miniaturization of avalanche extraction for high-frequency SWG. In the MIRC, low-pass filters and a low-noise radio frequency amplifier are integrated based on the technique of low temperature co-fired ceramic, which can effectively reduce the parasitic capacitance and extract weak avalanche signals. We then characterize the InGaAs/InP SPD to verify the functionality and reliability of the MIRC, and the SPD exhibits excellent performance with 27.5% photon detection efficiency, a 1.2 kcps dark count rate, and 9.1% afterpulse probability at 223 K and 100 ns hold-off time. With this MIRC, one can further design miniaturized high-frequency SPD modules that are highly required for practical applications.

  6. Genome-wide analysis of short interspersed nuclear elements SINES revealed high sequence conservation, gene association and retrotranspositional activity in wheat

    PubMed Central

    Ben-David, Smadar; Yaakov, Beery; Kashkush, Khalil

    2013-01-01

    Short interspersed nuclear elements (SINEs) are non-autonomous non-LTR retroelements that are present in most eukaryotic species. While SINEs have been intensively investigated in humans and other animal systems, they are poorly studied in plants, especially in wheat (Triticum aestivum). We used quantitative PCR of various wheat species to determine the copy number of a wheat SINE family, termed Au SINE, combined with computer-assisted analyses of the publicly available 454 pyrosequencing database of T. aestivum. In addition, we utilized site-specific PCR on 57 Au SINE insertions, transposon methylation display and transposon display on newly formed wheat polyploids to assess retrotranspositional activity, epigenetic status and genetic rearrangements in Au SINE, respectively. We retrieved 3706 different insertions of Au SINE from the 454 pyrosequencing database of T. aestivum, and found that most of the elements are inserted in A/T-rich regions, while approximately 38% of the insertions are associated with transcribed regions, including known wheat genes. We observed typical retrotransposition of Au SINE in the second generation of a newly formed wheat allohexaploid, and massive hypermethylation in CCGG sites surrounding Au SINE in the third generation. Finally, we observed huge differences in the copy numbers in diploid Triticum and Aegilops species, and a significant increase in the copy numbers in natural wheat polyploids, but no significant increase in the copy number of Au SINE in the first four generations for two of three newly formed allopolyploid species used in this study. Our data indicate that SINEs may play a prominent role in the genomic evolution of wheat through stress-induced activation. PMID:23855320

  7. Genome-wide analysis of short interspersed nuclear elements SINES revealed high sequence conservation, gene association and retrotranspositional activity in wheat.

    PubMed

    Ben-David, Smadar; Yaakov, Beery; Kashkush, Khalil

    2013-10-01

    Short interspersed nuclear elements (SINEs) are non-autonomous non-LTR retroelements that are present in most eukaryotic species. While SINEs have been intensively investigated in humans and other animal systems, they are poorly studied in plants, especially in wheat (Triticum aestivum). We used quantitative PCR of various wheat species to determine the copy number of a wheat SINE family, termed Au SINE, combined with computer-assisted analyses of the publicly available 454 pyrosequencing database of T. aestivum. In addition, we utilized site-specific PCR on 57 Au SINE insertions, transposon methylation display and transposon display on newly formed wheat polyploids to assess retrotranspositional activity, epigenetic status and genetic rearrangements in Au SINE, respectively. We retrieved 3706 different insertions of Au SINE from the 454 pyrosequencing database of T. aestivum, and found that most of the elements are inserted in A/T-rich regions, while approximately 38% of the insertions are associated with transcribed regions, including known wheat genes. We observed typical retrotransposition of Au SINE in the second generation of a newly formed wheat allohexaploid, and massive hypermethylation in CCGG sites surrounding Au SINE in the third generation. Finally, we observed huge differences in the copy numbers in diploid Triticum and Aegilops species, and a significant increase in the copy numbers in natural wheat polyploids, but no significant increase in the copy number of Au SINE in the first four generations for two of three newly formed allopolyploid species used in this study. Our data indicate that SINEs may play a prominent role in the genomic evolution of wheat through stress-induced activation. © 2013 Ben-Gurion University The Plant Journal © 2013 John Wiley & Sons Ltd.

  8. BoS: a large and diverse family of short interspersed elements (SINEs) in Brassica oleracea.

    PubMed

    Zhang, Xiaoyu; Wessler, Susan R

    2005-05-01

    Short interspersed elements (SINEs) are nonautonomous non-LTR retrotransposons that populate eukaryotic genomes. Numerous SINE families have been identified in animals, whereas only a few have been described in plants. Here we describe a new family of SINEs, named BoS, that is widespread in Brassicaceae and present at approximately 2000 copies in Brassica oleracea. In addition to sharing a modular structure and target site preference with previously described SINEs, BoS elements have several unusual features. First, the head regions of BoS RNAs can adopt a distinct hairpin-like secondary structure. Second, with 15 distinct subfamilies, BoS represents one of the most diverse SINE families described to date. Third, several of the subfamilies have a mosaic structure that has arisen through the exchange of sequences between existing subfamilies, possibly during retrotransposition. Analysis of BoS subfamilies indicate that they were active during various time periods through the evolution of Brassicaceae and that active elements may still reside in some Brassica species. As such, BoS elements may be a valuable tool as phylogenetic makers for resolving outstanding issues in the evolution of species in the Brassicaceae family.

  9. Wave excitation at Lindblad resonances using the method of multiple scales

    NASA Astrophysics Data System (ADS)

    Horák, Jiří

    2017-12-01

    In this note, the method of multiple scales is adopted to the problem of excitation of non–axisymmetric acoustic waves in vertically integrated disk by tidal gravitational fields. We derive a formula describing a waveform of exited wave that is uniformly valid in a whole disk as long as only a single Lindblad resonance is present. Our formalism is subsequently applied to two classical problems: trapped p–mode oscillations in relativistic accretion disks and the excitation of waves in infinite disks.

  10. Piezoelectric T-matrix approach and multiple scattering of electroacoustic waves in thin plates

    NASA Astrophysics Data System (ADS)

    Darabi, Amir; Ruzzene, Massimo; Leamy, Michael J.

    2017-12-01

    Metamaterial-enhanced harvesting (MEH) of wave energy in thin plates and other structures has appeared recently for powering small sensors and devices. To support continued MEH concept development, this paper proposes a fully coupled T-matrix formulation for analyzing scattering of incident wave energy from a piezoelectric patch attached to a thin plate. More generally, the T-matrix represents an input-output relationship between incident and reflected waves from inclusions in a host layer, and is introduced herein for a piezoelectric patch connected to an external circuit. The utility of a T-matrix formalism is most apparent in scenarios employing multiple piezoelectric harvesters, where it can be re-used with other T-matrices (such as those previously formulated for rigid, void, and elastic inclusions) in a multiple scattering context to compute the total wavefield and other response quantities, such as harvested power. Following development of the requisite T-matrix, harvesting in an example funnel-shaped metamaterial waveguide structure is predicted using the multiple scattering approach. Enhanced wave energy harvesting predictions are verified through comparisons to experimental results of a funnel-shaped waveguide formed by placing rigid aluminum inclusions in, and multiple piezoelectric harvesters on, a Lexan plate. Good agreement with predicted response quantities is noted.

  11. Short interspersed elements (SINEs) of squamate reptiles (Squam1 and Squam2): structure and phylogenetic significance.

    PubMed

    Grechko, Vernata V; Kosushkin, Sergei A; Borodulina, Olga R; Butaeva, Fatima G; Darevsky, Ilya S

    2011-05-15

    Short interspersed elements (SINEs) are important nuclear molecular markers of the evolution of many eukaryotes. However, the SINEs of squamate reptile genomes have been little studied. We first identified two families of SINEs, termed Squam1 and Squam2, in the DNA of meadow lizard Darevskia praticola (Lacertidae) by performing DNA hybridization and PCR. Later, the same families of retrotransposons were found using the same methods in members of another 25 lizard families (from Iguania, Scincomorpha, Gekkota, Varanoidea, and Diploglossa infraorders) and two snake families, but their abundances in these taxa varied greatly. Both SINEs were Squamata-specific and were absent from mammals, birds, crocodiles, turtles, amphibians, and fish. Squam1 possessed some characteristics common to tRNA-related SINEs from fish and mammals, while Squam2 belonged to the tRNA(Ala) group of SINEs and had a more unusual and divergent structure. Squam2-related sequences were found in several unannotated GenBank sequences of squamate reptiles. Squam1 abundance in the Polychrotidae, Agamidae, Leiolepididae, Chamaeleonidae, Scincidae, Lacertidae, Gekkonidae, Varanidae, Helodermatidae, and two snake families were 10(2) -10(4) times higher than those in other taxa (Corytophanidae, Iguanidae, Anguidae, Cordylidae, Gerrhosauridae, Pygopodidae, and Eublepharidae). A less dramatic degree of copy number variation was observed for Squam2 in different taxa. Several Squam1 copies from Lacertidae, Chamaeleonidae, Gekkonidae, Varanidae, and Colubridae were sequenced and found to have evident orthologous features, as well as taxa-specific autapomorphies. Squam1 from Lacertidae and Chamaeleonidae could be divided into several subgroups based on sequence differences. Possible applications of these SINEs as Squamata phylogeny markers are discussed. Copyright © 2010 Wiley-Liss, Inc., A Wiley Company.

  12. Basilar-membrane interference patterns from multiple internal reflection of cochlear traveling waves.

    PubMed

    Shera, Christopher A; Cooper, Nigel P

    2013-04-01

    At low stimulus levels, basilar-membrane (BM) mechanical transfer functions in sensitive cochleae manifest a quasiperiodic rippling pattern in both amplitude and phase. Analysis of the responses of active cochlear models suggests that the rippling is a mechanical interference pattern created by multiple internal reflection within the cochlea. In models, the interference arises when reverse-traveling waves responsible for stimulus-frequency otoacoustic emissions (SFOAEs) reflect off the stapes on their way to the ear canal, launching a secondary forward-traveling wave that combines with the primary wave produced by the stimulus. Frequency-dependent phase differences between the two waves then create the rippling pattern measurable on the BM. Measurements of BM ripples and SFOAEs in individual chinchilla ears demonstrate that the ripples are strongly correlated with the acoustic interference pattern measured in ear-canal pressure, consistent with a common origin involving the generation of SFOAEs. In BM responses to clicks, the ripples appear as temporal fine structure in the response envelope (multiple lobes, waxing and waning). Analysis of the ripple spacing and response phase gradients provides a test for the role of fast- and slow-wave modes of reverse energy propagation within the cochlea. The data indicate that SFOAE delays are consistent with reverse slow-wave propagation but much too long to be explained by fast waves.

  13. Fatigue Damage Spectrum calculation in a Mission Synthesis procedure for Sine-on-Random excitations

    NASA Astrophysics Data System (ADS)

    Angeli, Andrea; Cornelis, Bram; Troncossi, Marco

    2016-09-01

    In many real-life environments, certain mechanical and electronic components may be subjected to Sine-on-Random vibrations, i.e. excitations composed of random vibrations superimposed on deterministic (sinusoidal) contributions, in particular sine tones due to some rotating parts of the system (e.g. helicopters, engine-mounted components,...). These components must be designed to withstand the fatigue damage induced by the “composed” vibration environment, and qualification tests are advisable for the most critical ones. In the case of an accelerated qualification test, a proper test tailoring which starts from the real environment (measured vibration signals) and which preserves not only the accumulated fatigue damage but also the “nature” of the excitation (i.e. sinusoidal components plus random process) is important to obtain reliable results. In this paper, the classic time domain approach is taken as a reference for the comparison of different methods for the Fatigue Damage Spectrum (FDS) calculation in case of Sine-on-Random vibration environments. Then, a methodology to compute a Sine-on-Random specification based on a mission FDS is proposed.

  14. Integrable generalizations of non-linear multiple three-wave interaction models

    NASA Astrophysics Data System (ADS)

    Jurčo, Branislav

    1989-07-01

    Integrable generalizations of multiple three-wave interaction models in terms of r-matrix formulation are investigated. The Lax representations, complete sets of first integrals in involution are constructed, the quantization leading to Gaudin's models is discussed.

  15. A Persistent Feature of Multiple Scattering of Waves in the Time-Domain: A Tutorial

    NASA Technical Reports Server (NTRS)

    Lock, James A.; Mishchenko, Michael I.

    2015-01-01

    The equations for frequency-domain multiple scattering are derived for a scalar or electromagnetic plane wave incident on a collection of particles at known positions, and in the time-domain for a plane wave pulse incident on the same collection of particles. The calculation is carried out for five different combinations of wave types and particle types of increasing geometrical complexity. The results are used to illustrate and discuss a number of physical and mathematical characteristics of multiple scattering in the frequency- and time-domains. We argue that frequency-domain multiple scattering is a purely mathematical construct since there is no temporal sequencing information in the frequency-domain equations and since the multi-particle path information can be dispelled by writing the equations in another mathematical form. However, multiple scattering becomes a definite physical phenomenon in the time-domain when the collection of particles is illuminated by an appropriately short localized pulse.

  16. Coherent transmission of an ultrasonic shock wave through a multiple scattering medium.

    PubMed

    Viard, Nicolas; Giammarinaro, Bruno; Derode, Arnaud; Barrière, Christophe

    2013-08-01

    We report measurements of the transmitted coherent (ensemble-averaged) wave resulting from the interaction of an ultrasonic shock wave with a two-dimensional random medium. Despite multiple scattering, the coherent waveform clearly shows the steepening that is typical of nonlinear harmonic generation. This is taken advantage of to measure the elastic mean free path and group velocity over a broad frequency range (2-15 MHz) in only one experiment. Experimental results are found to be in good agreement with a linear theoretical model taking into account spatial correlations between scatterers. These results show that nonlinearity and multiple scattering are both present, yet uncoupled.

  17. Rogue waves and W-shaped solitons in the multiple self-induced transparency system.

    PubMed

    Wang, Xin; Liu, Chong; Wang, Lei

    2017-09-01

    We study localized nonlinear waves on a plane wave background in the multiple self-induced transparency (SIT) system, which describes an important enhancement of the amplification and control of optical waves compared to the single SIT system. A hierarchy of exact multiparametric rational solutions in a compact determinant representation is presented. We demonstrate that this family of solutions contain known rogue wave solutions and unusual W-shaped soliton solutions. State transitions between the fundamental rogue waves and W-shaped solitons as well as higher-order nonlinear superposition modes are revealed in the zero-frequency perturbation region by the suitable choice for the background wavenumber of the electric field component. Particularly, it is found that the multiple SIT system can admit both stationary and nonstationary W-shaped solitons in contrast to the stationary results in the single SIT system. Moreover, the W-shaped soliton complex which is formed by a certain number of fundamental W-shaped solitons with zero phase parameters and its decomposition mechanism in the case of the nonzero phase parameters are shown. Meanwhile, some important characteristics of the nonlinear waves including trajectories and spectrum are discussed through the numerical and analytical methods.

  18. Collective coordinates theory for discrete soliton ratchets in the sine-Gordon model

    NASA Astrophysics Data System (ADS)

    Sánchez-Rey, Bernardo; Quintero, Niurka R.; Cuevas-Maraver, Jesús; Alejo, Miguel A.

    2014-10-01

    A collective coordinate theory is developed for soliton ratchets in the damped discrete sine-Gordon model driven by a biharmonic force. An ansatz with two collective coordinates, namely the center and the width of the soliton, is assumed as an approximated solution of the discrete nonlinear equation. The dynamical equations of these two collective coordinates, obtained by means of the generalized travelling wave method, explain the mechanism underlying the soliton ratchet and capture qualitatively all the main features of this phenomenon. The numerical simulation of these equations accounts for the existence of a nonzero depinning threshold, the nonsinusoidal behavior of the average velocity as a function of the relative phase between the harmonics of the driver, the nonmonotonic dependence of the average velocity on the damping, and the existence of nontransporting regimes beyond the depinning threshold. In particular, it provides a good description of the intriguing and complex pattern of subspaces corresponding to different dynamical regimes in parameter space.

  19. Collective coordinates theory for discrete soliton ratchets in the sine-Gordon model.

    PubMed

    Sánchez-Rey, Bernardo; Quintero, Niurka R; Cuevas-Maraver, Jesús; Alejo, Miguel A

    2014-10-01

    A collective coordinate theory is developed for soliton ratchets in the damped discrete sine-Gordon model driven by a biharmonic force. An ansatz with two collective coordinates, namely the center and the width of the soliton, is assumed as an approximated solution of the discrete nonlinear equation. The dynamical equations of these two collective coordinates, obtained by means of the generalized travelling wave method, explain the mechanism underlying the soliton ratchet and capture qualitatively all the main features of this phenomenon. The numerical simulation of these equations accounts for the existence of a nonzero depinning threshold, the nonsinusoidal behavior of the average velocity as a function of the relative phase between the harmonics of the driver, the nonmonotonic dependence of the average velocity on the damping, and the existence of nontransporting regimes beyond the depinning threshold. In particular, it provides a good description of the intriguing and complex pattern of subspaces corresponding to different dynamical regimes in parameter space.

  20. Short interspersed CAN SINE elements as prognostic markers in canine mammary neoplasia.

    PubMed

    Gelaleti, Gabriela B; Granzotto, Adriana; Leonel, Camila; Jardim, Bruna V; Moschetta, Marina G; Carareto, Claudia M A; Zuccari, Debora Ap P C

    2014-01-01

    The genome of mammals is characterized by a large number of non-LTR retrotransposons, and among them, the CAN SINEs are characteristics of the canine species. Small amounts of DNA freely circulate in normal blood serum and high amounts are found in human patients with cancer, characterizing it as a candidate tumor-biomarker. The aim of this study was to estimate, through its absolute expression, the number of copies of CAN SINE sequences present in free circulating DNA of female dogs with mammary cancer, in order to correlate with the clinical and pathological characteristics and the follow-up period. The copy number of CAN SINE sequences was estimated by qPCR in 28 female dogs with mammary neoplasia. The univariate analysis showed an increased number of copies in female dogs with mammary tumor in female dogs >10 years old (p=0.02) and tumor time >18 months (p<0.05). The Kaplan-Meier test demonstrated a negative correlation between an increased number of copies and survival time (p=0.03). High amounts of CAN SINE fragments can be good markers for the detection of tumor DNA in blood and may characterize it as a marker of poor prognosis, being related to female dogs with shorter survival times. This estimate can be used as a prognostic marker in non-invasive breast cancer research and is useful in predicting tumor progression and patient monitoring.

  1. Short interspersed nuclear elements (SINEs) are abundant in Solanaceae and have a family-specific impact on gene structure and genome organization.

    PubMed

    Seibt, Kathrin M; Wenke, Torsten; Muders, Katja; Truberg, Bernd; Schmidt, Thomas

    2016-05-01

    Short interspersed nuclear elements (SINEs) are highly abundant non-autonomous retrotransposons that are widespread in plants. They are short in size, non-coding, show high sequence diversity, and are therefore mostly not or not correctly annotated in plant genome sequences. Hence, comparative studies on genomic SINE populations are rare. To explore the structural organization and impact of SINEs, we comparatively investigated the genome sequences of the Solanaceae species potato (Solanum tuberosum), tomato (Solanum lycopersicum), wild tomato (Solanum pennellii), and two pepper cultivars (Capsicum annuum). Based on 8.5 Gbp sequence data, we annotated 82 983 SINE copies belonging to 10 families and subfamilies on a base pair level. Solanaceae SINEs are dispersed over all chromosomes with enrichments in distal regions. Depending on the genome assemblies and gene predictions, 30% of all SINE copies are associated with genes, particularly frequent in introns and untranslated regions (UTRs). The close association with genes is family specific. More than 10% of all genes annotated in the Solanaceae species investigated contain at least one SINE insertion, and we found genes harbouring up to 16 SINE copies. We demonstrate the involvement of SINEs in gene and genome evolution including the donation of splice sites, start and stop codons and exons to genes, enlargement of introns and UTRs, generation of tandem-like duplications and transduction of adjacent sequence regions. © 2016 The Authors The Plant Journal © 2016 John Wiley & Sons Ltd.

  2. Stress induction of Bm1 RNA in silkworm larvae: SINEs, an unusual class of stress genes

    PubMed Central

    Kimura, Richard H.; Choudary, Prabhakara V.; Stone, Koni K.; Schmid, Carl W.

    2001-01-01

    This study surveys the induction of RNA polymerase III (Pol III)–directed expression of short interspersed element (SINE) transcripts by various stresses in an animal model, silkworm larvae. Sublethal heat shock and exposure to several toxic compounds increase the level of Bm1 RNA, the silkworm SINE transcript, while also transiently increasing expression of a well-characterized stress-induced transcript, Hsp70 messenger RNA (mRNA). In certain cases, the Bm1 RNA response coincides with that of Hsp70 mRNA, but more often Bm1 RNA responds later in recovery. Baculovirus infection and exposure to certain toxic compounds increase Bm1 RNA but not Hsp70 mRNA, showing that SINE induction is not necessarily coupled to transcription of this particular heat shock gene. SINEs behave as an additional class of stress-inducible genes in living animals but are unusual as stress genes because of their high copy number, genomic dispersion, and Pol III–directed transcription. PMID:11599568

  3. Cell stress and translational inhibitors transiently increase the abundance of mammalian SINE transcripts.

    PubMed Central

    Liu, W M; Chu, W M; Choudary, P V; Schmid, C W

    1995-01-01

    The abundance of Alu RNA is transiently increased by heat shock in human cell lines. This effect is specific to Alu repeats among Pol III transcribed genes, since the abundance of 7SL, 7SK, 5S and U6 RNAs is essentially unaffected by heat shock. The rapid induction of Alu expression precedes the heat shock induction of mRNAs for the ubiquitin and HSP 70 heat shock genes. Heat shock mimetics also transiently induce Alu expression indicating that increased Alu expression is a general cell-stress response. Cycloheximide treatment rapidly and transiently increases the abundance of Alu RNA. Again, compared with other genes transcribed by Pol III, this increase is specific to Alu. However, as distinguished from the cell stress response, cycloheximide does not induce expression of HSP 70 and ubiquitin mRNAs. Puromycin also increases Alu expression, suggesting that this response is generally caused by translational inhibition. The response of mammalian SINEs to cell stress and translational inhibition is not limited to SINEs which are Alu homologues. Heat shock and cycloheximide each transiently induce Pol III directed expression of B1 and B2 RNAs in mouse cells and C-element RNA in rabbit cells. Together, these three species exemplify the known SINE composition of placental mammals, suggesting that mammalian SINEs are similarly regulated and may serve a common function. Images PMID:7784180

  4. [Hypochondria sine materia as a psychosomatic problem: a model of hypochondriac disorders realized in the cutaneous sphere].

    PubMed

    Smulevich, A B; Dorozhenok, I Iu; Romanov, D V; L'vov, A N

    2012-01-01

    Hypochondria sine materia is a disorder with physical complains corresponding to no any somatic diagnosis. Hypochondria sine materia is a more complicated psychopathological condition compared to hypochondria cum materia. Hypochondria sine materia could be diagnosed not only in psychiatry, but mainly in general medicine. It is especially prevalent in dermatology. As a result of analysis of hypochondriac disorders involving cutaneous sphere in patients without dermatological diseases, a binary model of psychodermatological syndromes presenting with hypochondria sine materia in dermatology was developed. The binary structure of the psychodermatological syndromes includes secondary psychiatric symptoms based on primary coenesthesiopathic phenomena. The heterogeneous psychodermatological syndromes (cutaneous organ neurosis, impulsive excoriations syndrome, circumscripta hypochondria, coenesthesiopathic paranoia) could be arranged in a continuum of consecutively worsening conditions from neurotic to psychotic severity register. The syndromes differ in clinical and social prognosis requiring different approach to diagnosis and treatment.

  5. A Cryogenic Half-Wave Plate Module to Measure Polarization at Multiple FIR Passbands

    NASA Technical Reports Server (NTRS)

    Rennick, Timothy S.; Vaillancourt, John E.; Hildebrand, Roger H.; Heimsath, Stephen J.

    2002-01-01

    One of the key components in a far-infrared polarimeter that is being designed at the University of Chicago is a locally-powered half-wave plate module. This compact, lightweight, and reliable module will operate at cryogenic temperatures, rotating a half-wave plate about its axis within the optical path. By doing so, polarization measurements can be made. Further, by utilizing multiple half-wave plate modules within the polarimeter, multiple wavelengths or passbands can be studied. In this paper, we describe the design and performance of a relatively inexpensive prototype module that was assembled and tested successfully, outline the difficulties that had to be overcome, and recommend improvements to future modules. This effort now lays some of the groundwork for a next-generation polarimeter for far-infrared astronomy.

  6. Pstl repeat: a family of short interspersed nucleotide element (SINE)-like sequences in the genomes of cattle, goat, and buffalo.

    PubMed

    Sheikh, Faruk G; Mukhopadhyay, Sudit S; Gupta, Prabhakar

    2002-02-01

    The PstI family of elements are short, highly repetitive DNA sequences interspersed throughout the genome of the Bovidae. We have cloned and sequenced some members of the PstI family from cattle, goat, and buffalo. These elements are approximately 500 bp, have a copy number of 2 x 10(5) - 4 x 10(5), and comprise about 4% of the haploid genome. Studies of nucleotide sequence homology indicate that the buffalo and goat PstI repeats (type II) are similar types of short interspersed nucleotide element (SINE) sequences, but the cattle PstI repeat (type I) is considerably more divergent. Additionally, the goat PstI sequence showed significant sequence homology with bovine serine tRNA, and is therefore likely derived from serine tRNA. Interestingly, Southern hybridization suggests that both types of SINEs (I and II) are present in all the species of Bovidae. Dendrogram analysis indicates that cattle PstI SINE is similar to bovine Alu-like SINEs. Goat and buffalo SINEs formed a separate cluster, suggesting that these two types of SINEs evolved separately in the genome of the Bovidae.

  7. A hybrid Q-learning sine-cosine-based strategy for addressing the combinatorial test suite minimization problem

    PubMed Central

    Zamli, Kamal Z.; Din, Fakhrud; Bures, Miroslav

    2018-01-01

    The sine-cosine algorithm (SCA) is a new population-based meta-heuristic algorithm. In addition to exploiting sine and cosine functions to perform local and global searches (hence the name sine-cosine), the SCA introduces several random and adaptive parameters to facilitate the search process. Although it shows promising results, the search process of the SCA is vulnerable to local minima/maxima due to the adoption of a fixed switch probability and the bounded magnitude of the sine and cosine functions (from -1 to 1). In this paper, we propose a new hybrid Q-learning sine-cosine- based strategy, called the Q-learning sine-cosine algorithm (QLSCA). Within the QLSCA, we eliminate the switching probability. Instead, we rely on the Q-learning algorithm (based on the penalty and reward mechanism) to dynamically identify the best operation during runtime. Additionally, we integrate two new operations (Lévy flight motion and crossover) into the QLSCA to facilitate jumping out of local minima/maxima and enhance the solution diversity. To assess its performance, we adopt the QLSCA for the combinatorial test suite minimization problem. Experimental results reveal that the QLSCA is statistically superior with regard to test suite size reduction compared to recent state-of-the-art strategies, including the original SCA, the particle swarm test generator (PSTG), adaptive particle swarm optimization (APSO) and the cuckoo search strategy (CS) at the 95% confidence level. However, concerning the comparison with discrete particle swarm optimization (DPSO), there is no significant difference in performance at the 95% confidence level. On a positive note, the QLSCA statistically outperforms the DPSO in certain configurations at the 90% confidence level. PMID:29771918

  8. A hybrid Q-learning sine-cosine-based strategy for addressing the combinatorial test suite minimization problem.

    PubMed

    Zamli, Kamal Z; Din, Fakhrud; Ahmed, Bestoun S; Bures, Miroslav

    2018-01-01

    The sine-cosine algorithm (SCA) is a new population-based meta-heuristic algorithm. In addition to exploiting sine and cosine functions to perform local and global searches (hence the name sine-cosine), the SCA introduces several random and adaptive parameters to facilitate the search process. Although it shows promising results, the search process of the SCA is vulnerable to local minima/maxima due to the adoption of a fixed switch probability and the bounded magnitude of the sine and cosine functions (from -1 to 1). In this paper, we propose a new hybrid Q-learning sine-cosine- based strategy, called the Q-learning sine-cosine algorithm (QLSCA). Within the QLSCA, we eliminate the switching probability. Instead, we rely on the Q-learning algorithm (based on the penalty and reward mechanism) to dynamically identify the best operation during runtime. Additionally, we integrate two new operations (Lévy flight motion and crossover) into the QLSCA to facilitate jumping out of local minima/maxima and enhance the solution diversity. To assess its performance, we adopt the QLSCA for the combinatorial test suite minimization problem. Experimental results reveal that the QLSCA is statistically superior with regard to test suite size reduction compared to recent state-of-the-art strategies, including the original SCA, the particle swarm test generator (PSTG), adaptive particle swarm optimization (APSO) and the cuckoo search strategy (CS) at the 95% confidence level. However, concerning the comparison with discrete particle swarm optimization (DPSO), there is no significant difference in performance at the 95% confidence level. On a positive note, the QLSCA statistically outperforms the DPSO in certain configurations at the 90% confidence level.

  9. Tropisms of Avena coleoptiles: sine law for gravitropism, exponential law for photogravitropic equilibrium.

    PubMed

    Galland, Paul

    2002-09-01

    The quantitative relation between gravitropism and phototropism was analyzed for light-grown coleoptiles of Avena sativa (L.). With respect to gravitropism the coleoptiles obeyed the sine law. To study the interaction between light and gravity, coleoptiles were inclined at variable angles and irradiated for 7 h with unilateral blue light (466 nm) impinging at right angles relative to the axis of the coleoptile. The phototropic stimulus was applied from the side opposite to the direction of gravitropic bending. The fluence rate that was required to counteract the negative gravitropism increased exponentially with the sine of the inclination angle. To achieve balance, a linear increase in the gravitropic stimulus required compensation by an exponential increase in the counteracting phototropic stimulus. The establishment of photogravitropic equilibrium during continuous unilateral irradiation is thus determined by two different laws: the well-known sine law for gravitropism and a novel exponential law for phototropism described in this work.

  10. The Sine Method: An Alternative Height Measurement Technique

    Treesearch

    Don C. Bragg; Lee E. Frelich; Robert T. Leverett; Will Blozan; Dale J. Luthringer

    2011-01-01

    Height is one of the most important dimensions of trees, but few observers are fully aware of the consequences of the misapplication of conventional height measurement techniques. A new approach, the sine method, can improve height measurement by being less sensitive to the requirements of conventional techniques (similar triangles and the tangent method). We studied...

  11. Characterization of short interspersed elements (SINEs) in a red alga, Porphyra yezoensis.

    PubMed

    Zhang, Wenbo; Lin, Xiaofei; Peddigari, Suresh; Takechi, Katsuaki; Takano, Hiroyoshi; Takio, Susumu

    2007-02-01

    Short interspersed element (SINE)-like sequences referred to as PySN1 and PySN2 were identified in a red alga, Porphyra yezoensis. Both elements contained an internal promoter with motifs (A box and B box) recognized by RNA polymerase III, and target site duplications at both ends. Genomic Southern blot analysis revealed that both elements were widely and abundantly distributed on the genome. 3' and 5' RACE suggested that PySN1 was expressed as a chimera transcript with flanking SINE-unrelated sequences and possessed the poly-A tail at the same position near the 3' end of PySN1.

  12. Direct multiple path magnetospheric propagation - A fundamental property of nonducted VLF waves

    NASA Technical Reports Server (NTRS)

    Sonwalkar, V. S.; Bell, T. F.; Helliwell, R. A.; Inan, U. S.

    1984-01-01

    An elongation of 20-200 ms, attributed to closely spaced multiple propagation paths between the satellite and the ground, is noted in well defined pulses observed by the ISEE 1 satellite in nonducted whistler mode signals from the Siple Station VLF transmitter. Electric field measurements show a 2 to 10 dB amplitude variation in the observed amplitude fading pattern which is also consistent with direct multiple path propagation. The results obtained for two cases, one outside and one inside the plasmapause, establish that the direct signals transmitted from the ground arrive almost simultaneously at any point in the magnetosphere along two or more closely spaced direct ray paths. It is also shown that multiple paths can be explained by assuming field-aligned irregularities, and the implications of these results for nonducted wave-particle interaction in the magnetosphere are discussed. For reasonable parameters of nonducted, multiple path propagation, a cyclotron-resonant electron will experience a wave Doppler broadening of a few tens to a few hundreds of Hz.

  13. Performance Investigation of Millimeter Wave Generation Reliant on Stimulated Brillouin Scattering

    NASA Astrophysics Data System (ADS)

    Tickoo, Sheetal; Gupta, Amit

    2018-04-01

    In this work, photonic method of generating the millimeter waves has been done based on Brillouin scattering effect in optical fiber. Here different approaches are proposed to get maximum frequency shift in mm-wave region using only pumps, radio signals with Mach-Zehnder modulator. Moreover for generated signal validation, signals modulated and send to both wired and wireless medium in optical domain. It is observed that maximum shift of 300 GHz is realized using 60 GHz input sine wave. Basically a frequency doubler is proposed which double shift of input frequency and provide better SNR. For the future generation network system, the generation of millimeter waves makes them well reliable for the transmission of the data.

  14. Increased levels of B1 and B2 SINE transcripts in mouse fibroblast cells due to minute virus of mice infection.

    PubMed

    Williams, Warren P; Tamburic, Lillian; Astell, Caroline R

    2004-10-01

    Minute virus of mice (MVM), an autonomous parvovirus, has served as a model for understanding parvovirus infection including host cell response to infection. In this paper, we report the effect of MVM infection on host cell gene expression in mouse fibroblast cells (LA9 cells), analyzed by differential display. Somewhat surprisingly, our data reveal that few cellular protein-coding genes appear to be up- or downregulated and identify the murine B1 and B2 short interspersed element (SINE) transcripts as being increased upon MVM infection. Primer extension assays confirm the effect of MVM infection on SINE expression and demonstrate that both SINEs are upregulated in a roughly linear fashion throughout MVM infection. They also demonstrate that the SINE response was due to RNA polymerase III transcription and not contaminating DNA or RNA polymerase II transcription. Furthermore, expression of MVM NS1, the major nonstructural protein, by transient transfection also leads to an increase in both murine SINEs. We believe this is the first time that the B1 and B2 SINEs have been shown to be altered by viral infection and the first time parvovirus infection has been shown to increase SINE expression. The increase in SINE transcripts caused by MVM infection does not appear to be due to an increase in either of the basal transcription factors TFIIIC110 or 220, in contrast to that which has been shown for other viruses.

  15. Electromagnetic Ion Cyclotron Waves in the Helium Branch Induced by Multiple Electromagnetic Ion Cyclotron Triggered Emissions

    NASA Astrophysics Data System (ADS)

    Shoji, M.; Omura, Y.; Grison, B.; Pickett, J. S.; Dandouras, I. S.; Engebretson, M. J.

    2011-12-01

    Electromagnetic ion cyclotron (EMIC) triggered emissions with rising tones between the H+ and He+ cyclotron frequencies were found in the inner magnetosphere by the recent Cluster observations. Another type of EMIC wave with a constant frequency is occasionally observed below the He+ cyclotron frequency after the multiple EMIC triggered emissions. We performed a self-consistent hybrid simulation with a one-dimensional cylindrical magnetic flux model approximating the dipole magnetic field of the Earth's inner magnetosphere. In the presence of energetic protons with a sufficient density and temperature anisotropy, multiple EMIC triggered emissions are reproduced due to the nonlinear wave growth mechanism of rising-tone chorus emissions, and a constant frequency wave in the He+ EMIC branch is subsequently generated. Through interaction with the multiple EMIC rising-tone emissions, the velocity distribution function of the energetic protons is strongly modified. Because of the pitch angle scattering of the protons, the gradient of the distribution in velocity phase space is enhanced along the diffusion curve of the He+ branch wave, resulting in the linear growth of the EMIC wave in the He+ branch.

  16. Electromagnetic ion cyclotron waves in the helium branch induced by multiple electromagnetic ion cyclotron triggered emissions

    NASA Astrophysics Data System (ADS)

    Shoji, Masafumi; Omura, Yoshiharu; Grison, Benjamin; Pickett, Jolene; Dandouras, Iannis; Engebretson, Mark

    2011-09-01

    Electromagnetic ion cyclotron (EMIC) triggered emissions with rising tones between the H+ and He+ cyclotron frequencies were found in the inner magnetosphere by the recent Cluster observations. Another type of EMIC wave with a constant frequency is occasionally observed below the He+ cyclotron frequency after the multiple EMIC triggered emissions. We performed a self-consistent hybrid simulation with a one-dimensional cylindrical magnetic flux model approximating the dipole magnetic field of the Earth's inner magnetosphere. In the presence of energetic protons with a sufficient density and temperature anisotropy, multiple EMIC triggered emissions are reproduced due to the nonlinear wave growth mechanism of rising-tone chorus emissions, and a constant frequency wave in the He+ EMIC branch is subsequently generated. Through interaction with the multiple EMIC rising-tone emissions, the velocity distribution function of the energetic protons is strongly modified. Because of the pitch angle scattering of the protons, the gradient of the distribution in velocity phase space is enhanced along the diffusion curve of the He+ branch wave, resulting in the linear growth of the EMIC wave in the He+ branch.

  17. Influence of multiple ion species on low-frequency electromagnetic wave instabilities. [in solar wind

    NASA Technical Reports Server (NTRS)

    Brinca, Armando L.; Tsurutani, Bruce T.

    1989-01-01

    The effect of multiple (singly ionized) coexisting newborn ion species on the stability of low-frequency electromagnetic waves was investigated using a plasma model in which solar wind magnetoplasma is made up of isotropic Maxwellian electron and proton populations with a common number density of 4.95/cu cm and temperatures equal to 17.2 eV and 6.9 eV, respectively. It is shown that the effect of multiple ions on wave growth, for given background magnetoplasma conditions and relative densities, depends not only on their mass but also on the physical nature of the wave modes. If the ion masses are disparate, each one of the coexisting ion beams tends to stimulate instabilities without undue influence from the other species. If the masses of newborn ions are similar, they can strongly catalyze wave growth of fluidlike nonresonant modes, but bring about weak growth enhancements in cyclotron resonant instabilities.

  18. Analysis of the 227 bp short interspersed nuclear element (SINE) insertion of the promoter of the myostatin (MSTN) gene in different horse breeds.

    PubMed

    Dall'Olio, Stefania; Scotti, Emilio; Fontanesi, Luca; Tassinari, Marco

    2014-01-01

    The myostatin (MSTN) gene encodes a protein known to be a negative regulator of muscle mass in mammalian species. Different polymorphisms of the horse (Equus caballus) MSTN gene have been identified, including single nucleotide polymorphisms and a short interspersed nuclear element (SINE) insertion of 227 bp within the promoter of the gene. The SINE insertion has been associated with performance traits in Thoroughbred racehorses and it was proposed as a predictor of optimum racing distance. The aims of this study were to perform in silico analysis to identify putative gains or abrogation of transcription-factor binding sites (TFBSs) generated by the SINE allele of the promoter and to analyse the frequency of the SINE insertion in horses used for racing (gallop and trot) and other purposes. The SINE insertion was genotyped in 227 horses from 10 breeds belonging to different morphological types (brachimorphic, mesomorphic, meso-dolichomorphic and dolichomorphic). The presence of the insertion was confirmed in the Quarter Horse (SINE allele frequency of 0.81) and in the Thoroughbred (0.51), whereas the SINE allele did not segregate in any of the other analysed breeds. As the SINE MSTN gene polymorphism may be population or breed specific, it is not a useful marker for association studies in all breeds.

  19. Wave interactions with multiple semi-immersed Jarlan-type perforated breakwaters

    NASA Astrophysics Data System (ADS)

    Elbisy, Moussa S.

    2017-06-01

    This study examines wave interactions with multiple semi-immersed Jarlan-type perforated breakwaters. A numerical model based on linear wave theory and an eigenfunction expansion method has been developed to study the hydrodynamic characteristics of breakwaters. The numerical results show a good agreement with previous analytical results and experimental data for limiting cases of double partially immersed impermeable walls and double and triple Jarlan-type breakwaters. The wave transmission coefficient C T; reflection coefficient C R, and energy dissipation coefficient C E coefficients and the horizontal wave force exerted on the front and rear walls are examined. The results show that C R reaches the maximum value when B/L = 0.46 n while it is smallest when B/L=0.46 n+0.24 ( n=0, 1, 2,...). An economical triple semi-immersed Jarlan-type perforated breakwater can be designed with B/L = 0.25 and C R and C T ranging from 0.25 to 0.32 by choosing a relative draft d/h of 0.35 and a permeability parameter of the perforated front walls being 0.5 for an incident wave number kh nearly equal to 2.0. The triple semi-immersed Jarlan-type perforated breakwaters with significantly reduced C R, will enhance the structure's wave absorption ability, and lead to smaller wave forces compared with the double one. The proposed model may be used to predict the response of a structure in the preliminary design stage for practical engineering.

  20. Bead-probe complex capture a couple of SINE and LINE family from genomes of two closely related species of East Asian cyprinid directly using magnetic separation

    PubMed Central

    Tong, Chaobo; Guo, Baocheng; He, Shunping

    2009-01-01

    Background Short and long interspersed elements (SINEs and LINEs, respectively), two types of retroposons, are active in shaping the architecture of genomes and powerful tools for studies of phylogeny and population biology. Here we developed special protocol to apply biotin-streptavidin bead system into isolation of interspersed repeated sequences rapidly and efficiently, in which SINEs and LINEs were captured directly from digested genomic DNA by hybridization to bead-probe complex in solution instead of traditional strategy including genomic library construction and screening. Results A new couple of SINEs and LINEs that shared an almost identical 3'tail was isolated and characterized in silver carp and bighead carp of two closely related species. These SINEs (34 members), designated HAmo SINE family, were little divergent in sequence and flanked by obvious TSD indicated that HAmo SINE was very young family. The copy numbers of this family was estimated to 2 × 105 and 1.7 × 105 per haploid genome by Real-Time qPCR, respectively. The LINEs, identified as the homologs of LINE2 in other fishes, had a conserved primary sequence and secondary structures of the 3'tail region that was almost identical to that of HAmo SINE. These evidences suggest that HAmo SINEs are active and amplified recently utilizing the enzymatic machinery for retroposition of HAmoL2 through the recognition of higher-order structures of the conserved 42-tail region. We analyzed the possible structures of HAmo SINE that lead to successful amplification in genome and then deduced that HAmo SINE, SmaI SINE and FokI SINE that were similar in sequence each other, were probably generated independently and created by LINE family within the same lineage of a LINE phylogeny in the genomes of different hosts. Conclusion The presented results show the advantage of the novel method for retroposons isolation and a pair of young SINE family and its partner LINE family in two carp fishes, which strengthened

  1. The development of sine vibration test requirements for Viking lander capsule components

    NASA Technical Reports Server (NTRS)

    Barrett, S.

    1974-01-01

    In connection with the Viking project for exploring the planet Mars, two identical spacecraft, each consisting of an orbiter and a lander, will be launched in the third quarter of 1975. Upon arrival at the planet, the Viking lander will separate from the Viking orbiter and descend to a soft landing at a selected site on the Mars surface. It was decided to perform a sine vibration test on the Viking spacecraft, in its launch configuration, to qualify it for the booster-induced transient-dynamic environment. It is shown that component-level testing is a cost- and schedule-effective prerequisite to the system-level, sine-vibration test sequences.

  2. Response functions for sine- and square-wave modulations of disparity.

    NASA Technical Reports Server (NTRS)

    Richards, W.

    1972-01-01

    Depth sensations cannot be elicited by modulations of disparity that are more rapid than about 6 Hz, regardless of the modulation amplitude. Vergence tracking also fails at similar modulation rates, suggesting that this portion of the oculomotor system is limited by the behavior of disparity detectors. For sinusoidal modulations of disparity between 1/2 to 2 deg of disparity, most depth-response functions exhibit a low-frequency decrease that is not observed with square-wave modulations of disparity.

  3. Structural Qualification Testing of the WindSat Payload Using Sine Bursts Near Structural Resonance

    NASA Technical Reports Server (NTRS)

    Pontius, Jim; Barnes, Donald; Broduer, Steve (Technical Monitor)

    2001-01-01

    Sine burst tests are often used for structural qualification of space flight hardware. In most instances, the driving frequency of the shaker is specified far below the structure's first resonant mode, such that the entire test article sees uniform acceleration. For large structures, this limits qualification testing to lower parts of the structure, or else it over-tests the lower structure to achieve qualification of the upper structure. The WindSat payload, a 10.5 foot tall graphite/epoxy, titanium, and aluminum radiometer, experiences accelerations at the six foot diameter reflector nearly four times that at the spacecraft interface. Due to size of the payload, the number of bonded joints, and the lightweight reflector support structure design and construction, using static pull testing to qualify all of the bonded joints in the upper structure would result in large, expensive, and extensive test fixturing. Sine burst testing near the first two structural resonant modes was performed on the WindSat payload to achieve the correct load factor distribution up the stack for structural qualification. In this presentation, how finite element method (FEM) sine burst predictions were used in conjunction with low level random and sine burst tests to achieve correct qualification test load factor distribution on the WindSat payload is discussed. Also presented is the risk mitigation approach for using the uncorrelated FEM in this procedure.

  4. From sine-Gordon to vacuumless systems in flat and curved spacetimes

    NASA Astrophysics Data System (ADS)

    Bazeia, D.; Moreira, D. C.

    2017-12-01

    In this work we start from the Higgs prototype model to introduce a new model, which makes a smooth transition between systems with well-located minima and systems that support no minima at all. We implement this possibility using the deformation procedure, which allows the obtaining a sine-Gordon-like model, controlled by a real parameter that gives rise to a family of models, reproducing the sine-Gordon and the so-called vacuumless models. We also study the thick brane scenarios associated with these models and investigate their stability and renormalization group flow. In particular, it is shown how gravity can change from the 5-dimensional warped geometry with a single extra dimension of infinite extent to the conventional 5-dimensional Minkowski geometry.

  5. A SINE in the genome of the cephalochordate amphioxus is an Alu element

    PubMed Central

    Holland, Linda Z.

    2006-01-01

    Transposable elements of about 300 bp, termed “short interspersed nucleotide elements or SINEs are common in eukaryotes. However, Alu elements, SINEs containing restriction sites for the AluI enzyme, have been known only from primates. Here I report the first SINE found in the genome of the cephalochordate, amphioxus. It is an Alu element of 375 bp that does not share substantial identity with any genomic sequences in vertebrates. It was identified because it was located in the FoxD regulatory region in a cosmid derived from one individual, but absent from the two FoxD alleles of BACs from a second individual. However, searches of sequences of BACs and genomic traces from this second individual gave an estimate of 50-100 copies in the amphioxus genome. The finding of an Alu element in amphioxus raises the question of whether Alu elements in amphioxus and primates arose by convergent evolution or by inheritance from a common ancestor. Genome-wide analyses of transposable elements in amphioxus and other chordates such as tunicates, agnathans and cartilaginous fishes could well provide the answer. PMID:16733535

  6. Efficient use of bit planes in the generation of motion stimuli

    NASA Technical Reports Server (NTRS)

    Mulligan, Jeffrey B.; Stone, Leland S.

    1988-01-01

    The production of animated motion sequences on computer-controlled display systems presents a technical problem because large images cannot be transferred from disk storage to image memory at conventional frame rates. A technique is described in which a single base image can be used to generate a broad class of motion stimuli without the need for such memory transfers. This technique was applied to the generation of drifting sine-wave gratings (and by extension, sine wave plaids). For each drifting grating, sine and cosine spatial phase components are first reduced to 1 bit/pixel using a digital halftoning technique. The resulting pairs of 1-bit images are then loaded into pairs of bit planes of the display memory. To animate the patterns, the display hardware's color lookup table is modified on a frame-by-frame basis; for each frame the lookup table is set to display a weighted sum of the spatial sine and cosine phase components. Because the contrasts and temporal frequencies of the various components are mutually independent in each frame, the sine and cosine components can be counterphase modulated in temporal quadrature, yielding a single drifting grating. Using additional bit planes, multiple drifting gratings can be combined to form sine-wave plaid patterns. A large number of resultant plaid motions can be produced from a single image file because the temporal frequencies of all the components can be varied independently. For a graphics device having 8 bits/pixel, up to four drifting gratings may be combined, each having independently variable contrast and speed.

  7. Multiple-frequency continuous wave ultrasonic system for accurate distance measurement

    NASA Astrophysics Data System (ADS)

    Huang, C. F.; Young, M. S.; Li, Y. C.

    1999-02-01

    A highly accurate multiple-frequency continuous wave ultrasonic range-measuring system for use in air is described. The proposed system uses a method heretofore applied to radio frequency distance measurement but not to air-based ultrasonic systems. The method presented here is based upon the comparative phase shifts generated by three continuous ultrasonic waves of different but closely spaced frequencies. In the test embodiment to confirm concept feasibility, two low cost 40 kHz ultrasonic transducers are set face to face and used to transmit and receive ultrasound. Individual frequencies are transmitted serially, each generating its own phase shift. For any given frequency, the transmitter/receiver distance modulates the phase shift between the transmitted and received signals. Comparison of the phase shifts allows a highly accurate evaluation of target distance. A single-chip microcomputer-based multiple-frequency continuous wave generator and phase detector was designed to record and compute the phase shift information and the resulting distance, which is then sent to either a LCD or a PC. The PC is necessary only for calibration of the system, which can be run independently after calibration. Experiments were conducted to test the performance of the whole system. Experimentally, ranging accuracy was found to be within ±0.05 mm, with a range of over 1.5 m. The main advantages of this ultrasonic range measurement system are high resolution, low cost, narrow bandwidth requirements, and ease of implementation.

  8. Specification and correlation of the sine vibration environment for Viking '75

    NASA Technical Reports Server (NTRS)

    Snyder, R. E.; Trummel, M.; Wada, B. K.; Pohlen, J. C.

    1974-01-01

    Two Viking spacecraft will be individually launched on a new Titan IIIE/Centaur D-1T launch vehicle in August 1975. The method for the establishment of spacecraft sine vibration test levels prior to availability of any Titan IIIE/Centaur D-1T flight data by use of both computer simulations and data from previous Titan and Atlas Centaur vehicles is described. The specification level is compared with actual flight data obtained from a proof flight launch of the Titan IIIE/Centaur D-1T and a Viking dynamic simulator in January 1974. An objective of the proof flight launch was to obtain estimates of the flight loads and environments. The criteria used to minimize the structural weight that would result from an unmodified application of a sine test environment are described.

  9. Detection of briefly flashed sine-gratings in dark-adapted vision.

    PubMed

    Hofmann, M I; Barnes, C S; Hallett, P E

    1990-01-01

    Scotopic contrast sensitivity was measured near 20 deg retinal eccentricity for briefly flashed (10 or 20 msec) sine-wave gratings presented in darkness to dark-adapted subjects. For very low spatial frequencies (0.2-0.5 c/deg), curves of contrast sensitivity vs luminous energy show evidence of a low rod plateau and a high scotopic region, with an intervening transition at around -2 to -2.5 log scot td sec. Similar measurements made using long flashed or flickering gratings do not show a plateau. The results suggest that vision in the low rod region is impaired for brief flashes. For the briefly flashed stimuli, curves of contrast sensitivity versus spatial frequency in the low region were best fit by simple Gaussian functions with a variable centre size (sigma c = 0.5----0.25 deg), size decreasing with increasing flash energy. Difference-of-Gaussian functions with constant centre size (sigma c = 0.25 deg) provided the best fit in the high region. Overt input from the cones and grating area artefacts are excluded by appropriate tests. Calculation of photon flux into the receptive field centres suggests that signal compression in P alpha ganglion cells contributes to the low rod plateau.

  10. On the correct use of stepped-sine excitations for the measurement of time-varying bioimpedance.

    PubMed

    Louarroudi, E; Sanchez, B

    2017-02-01

    When a linear time-varying (LTV) bioimpedance is measured using stepped-sine excitations, a compromise must be made: the temporal distortions affecting the data depend on the experimental time, which in turn sets the data accuracy and limits the temporal bandwidth of the system that needs to be measured. Here, the experimental time required to measure linear time-invariant bioimpedance with a specified accuracy is analyzed for different stepped-sine excitation setups. We provide simple equations that allow the reader to know whether LTV bioimpedance can be measured through repeated time- invariant stepped-sine experiments. Bioimpedance technology is on the rise thanks to a plethora of healthcare monitoring applications. The results presented can help to avoid distortions in the data while measuring accurately non-stationary physiological phenomena. The impact of the work presented is broad, including the potential of enhancing bioimpedance studies and healthcare devices using bioimpedance technology.

  11. [SINEs in mammalian genomes can serve as additional signals in formation of facultative heterochromatin].

    PubMed

    Usmanova, N M; Kazakov, V I; Tomilin, N V

    2008-01-01

    Using computer-based methods we determined the global distribution of short interspersed nuclear elements (SINEs) in the human and mouse X chromosomes. It has been shown that this distributions is similar to the distributions of CpG islands and genes but is different from the distribution of LINE1 elements. Since SINEs (human Alu and mouse B2) may have binding sites for Polycomb protein YY1, we suggest that these repeats can serve as additional signals ("boosters") in Polycomb-dependent silencing of gene rich segments during X inactivation.

  12. Explicitly solvable complex Chebyshev approximation problems related to sine polynomials

    NASA Technical Reports Server (NTRS)

    Freund, Roland

    1989-01-01

    Explicitly solvable real Chebyshev approximation problems on the unit interval are typically characterized by simple error curves. A similar principle is presented for complex approximation problems with error curves induced by sine polynomials. As an application, some new explicit formulae for complex best approximations are derived.

  13. Retroelements (LINEs and SINEs) in vole genomes: differential distribution in the constitutive heterochromatin.

    PubMed

    Acosta, M J; Marchal, J A; Fernández-Espartero, C H; Bullejos, M; Sánchez, A

    2008-01-01

    The chromosomal distribution of mobile genetic elements is scarcely known in Arvicolinae species, but could be of relevance to understand the origin and complex evolution of the sex chromosome heterochromatin. In this work we cloned two retrotransposon sequences, L1 and SINE-B1, from the genome of Chionomys nivalis and investigated their chromosomal distribution on several arvicoline species. Our results demonstrate first that both retroelements are the most abundant repeated DNA sequences in the genome of these species. L1 elements, in most species, are highly accumulated in the sex chromosomes compared to the autosomes. This favoured L1 insertion could have played an important role in the origin of the enlarged heterochromatic blocks existing in the sex chromosomes of some Microtus species. Also, we propose that L1 accumulation on the X heterochromatin could have been the consequence of different, independent and rapid amplification processes acting in each species. SINE elements, however, were completely lacking from the constitutive heterochromatin, either in autosomes or in the heterochromatic blocks of sex chromosomes. These data could indicate that some SINE elements are incompatible with the formation of heterochromatic complexes and hence are necessarily missing from the constitutive heterochromatin.

  14. Generation and propagation of a sine-azimuthal wavefront modulated Gaussian beam

    PubMed Central

    Lao, Guanming; Zhang, Zhaohui; Luo, Meilan; Zhao, Daomu

    2016-01-01

    We introduce a method for modulating the Gaussian beam by means of sine-azimuthal wavefront and carry out the experimental generation. The analytical propagation formula of such a beam passing through a paraxial ABCD optical system is derived, by which the intensity properties of the sine-azimuthal wavefront modulated Gaussian (SWMG) beam are examined both theoretically and experimentally. Both of the experimental and theoretical results show that the SWMG beam goes through the process from beam splitting to a Gaussian-like profile, which is closely determined by the phase factor and the propagation distance. Appropriate phase factor and short distance are helpful for the splitting of beam. However, in the cases of large phase factor and focal plane, the intensity distributions tend to take a Gaussian form. Such unique features may be of importance in particle trapping and medical applications. PMID:27443798

  15. Sines and Cosines. Part 2 of 3

    NASA Technical Reports Server (NTRS)

    Apostol, Tom M. (Editor)

    1993-01-01

    The Law of Sines and the Law of Cosines are introduced and demonstrated in this 'Project Mathematics' series video using both film footage and computer animation. This video deals primarily with the mathematical field of Trigonometry and explains how these laws were developed and their applications. One significant use is geographical and geological surveying. This includes both the triangulation method and the spirit leveling method. With these methods, it is shown how the height of the tallest mountain in the world, Mt. Everest, was determined.

  16. Gene conversion as a secondary mechanism of short interspersed element (SINE) evolution

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Kass, D.H.; Batzer, M.A.; Deininger, P.L.

    The Alu repetitive family of short interspersed elements (SINEs) in primates can be subdivided into distinct subfamilies by specific diagnostic nucleotide changes. The older subfamilies are generally very abundant, while the younger subfamilies have fewer copies. Some of the youngest Alu elements are absent in the orthologous loci of nonhuman primates, indicative of recent retroposition events, the primary mode of SINE evolutions. PCR analysis of one young Alu subfamily (Sb2) member found in the low-density lipoprotein receptor gene apparently revealed the presence of this element in the green monkey, orangutan, gorilla, and chimpanzee genomes, as well as the human genome.more » However, sequence analysis of these genomes revealed a highly mutated, older, primate-specific Alu element was present at this position in the nonhuman primates. Comparison of the flanking DNA sequences upstream of this Alu insertion corresponded to evolution expected for standard primate phylogeny, but comparison of the Alu repeat sequences revealed that the human element departed from this phylogeny. The change in the human sequence apparently occurred by a gene conversion event only within the Alu element itself, converting it from one of the oldest to one of the youngest Alu subfamilies. Although gene conversions of Alu elements are clearly very rare, this finding shows that such events can occur and contribute to specific cases of SINE subfamily evolution.« less

  17. The comparison of multiple F-wave variable studies and magnetic resonance imaging examinations in the assessment of cervical radiculopathy.

    PubMed

    Lin, Chu-Hsu; Tsai, Yuan-Hsiung; Chang, Chia-Hao; Chen, Chien-Min; Hsu, Hung-Chih; Wu, Chun-Yen; Hong, Chang-Zern

    2013-09-01

    The aims of this study were to investigate the correlation of the findings of multiple median and ulnar F-wave variables and magnetic resonance imaging examinations in the prediction of cervical radiculopathy. The data of 68 patients who underwent both nerve conduction studies of the upper extremities and cervical spine magnetic resonance imaging within 3 mos of the nerve conduction studies were retrospectively reviewed and reinterpreted. The associations between multiple median and ulnar F-wave variables (including persistence, chronodispersion, and minimal, maximal, and mean latencies) and magnetic resonance imaging evidence of lower cervical spondylotic radiculopathy (i.e., C7, C8, and T1 radiculopathy) were investigated. Patients with lower cervical radiculopathy exhibited reduced right median F-wave persistence (P = 0.011), increased right ulnar F-wave chronodispersion (P = 0.041), and a trend toward increased left ulnar F-wave chronodispersion (P = 0.059); however, there were no other consistent significant differences in the F-wave variables between patients with and patients without magnetic resonance imaging evidence of lower cervical radiculopathy. In comparison with normal reference values established previously, the sensitivity and positive predictive value of F-wave variable abnormalities for predicting lower cervical radiculopathy were low. There was a low correlation between F-wave studies and magnetic resonance imaging examinations. The diagnostic utility of multiple F-wave variables in the prediction of cervical radiculopathy was not supported by this study.

  18. Damage Evaluation Based on a Wave Energy Flow Map Using Multiple PZT Sensors

    PubMed Central

    Liu, Yaolu; Hu, Ning; Xu, Hong; Yuan, Weifeng; Yan, Cheng; Li, Yuan; Goda, Riu; Alamusi; Qiu, Jinhao; Ning, Huiming; Wu, Liangke

    2014-01-01

    A new wave energy flow (WEF) map concept was proposed in this work. Based on it, an improved technique incorporating the laser scanning method and Betti's reciprocal theorem was developed to evaluate the shape and size of damage as well as to realize visualization of wave propagation. In this technique, a simple signal processing algorithm was proposed to construct the WEF map when waves propagate through an inspection region, and multiple lead zirconate titanate (PZT) sensors were employed to improve inspection reliability. Various damages in aluminum and carbon fiber reinforced plastic laminated plates were experimentally and numerically evaluated to validate this technique. The results show that it can effectively evaluate the shape and size of damage from wave field variations around the damage in the WEF map. PMID:24463430

  19. A difference tracking algorithm based on discrete sine transform

    NASA Astrophysics Data System (ADS)

    Liu, HaoPeng; Yao, Yong; Lei, HeBing; Wu, HaoKun

    2018-04-01

    Target tracking is an important field of computer vision. The template matching tracking algorithm based on squared difference matching (SSD) and standard correlation coefficient (NCC) matching is very sensitive to the gray change of image. When the brightness or gray change, the tracking algorithm will be affected by high-frequency information. Tracking accuracy is reduced, resulting in loss of tracking target. In this paper, a differential tracking algorithm based on discrete sine transform is proposed to reduce the influence of image gray or brightness change. The algorithm that combines the discrete sine transform and the difference algorithm maps the target image into a image digital sequence. The Kalman filter predicts the target position. Using the Hamming distance determines the degree of similarity between the target and the template. The window closest to the template is determined the target to be tracked. The target to be tracked updates the template. Based on the above achieve target tracking. The algorithm is tested in this paper. Compared with SSD and NCC template matching algorithms, the algorithm tracks target stably when image gray or brightness change. And the tracking speed can meet the read-time requirement.

  20. Bridging Three Orders of Magnitude: Multiple Scattered Waves Sense Fractal Microscopic Structures via Dispersion

    NASA Astrophysics Data System (ADS)

    Lambert, Simon A.; Näsholm, Sven Peter; Nordsletten, David; Michler, Christian; Juge, Lauriane; Serfaty, Jean-Michel; Bilston, Lynne; Guzina, Bojan; Holm, Sverre; Sinkus, Ralph

    2015-08-01

    Wave scattering provides profound insight into the structure of matter. Typically, the ability to sense microstructure is determined by the ratio of scatterer size to probing wavelength. Here, we address the question of whether macroscopic waves can report back the presence and distribution of microscopic scatterers despite several orders of magnitude difference in scale between wavelength and scatterer size. In our analysis, monosized hard scatterers 5 μ m in radius are immersed in lossless gelatin phantoms to investigate the effect of multiple reflections on the propagation of shear waves with millimeter wavelength. Steady-state monochromatic waves are imaged in situ via magnetic resonance imaging, enabling quantification of the phase velocity at a voxel size big enough to contain thousands of individual scatterers, but small enough to resolve the wavelength. We show in theory, experiments, and simulations that the resulting coherent superposition of multiple reflections gives rise to power-law dispersion at the macroscopic scale if the scatterer distribution exhibits apparent fractality over an effective length scale that is comparable to the probing wavelength. Since apparent fractality is naturally present in any random medium, microstructure can thereby leave its fingerprint on the macroscopically quantifiable power-law exponent. Our results are generic to wave phenomena and carry great potential for sensing microstructure that exhibits intrinsic fractality, such as, for instance, vasculature.

  1. Prediction and phylogenetic analysis of mammalian short interspersed elements (SINEs).

    PubMed

    Rogozin, I B; Mayorov, V I; Lavrentieva, M V; Milanesi, L; Adkison, L R

    2000-09-01

    The presence of repetitive elements can create serious problems for sequence analysis, especially in the case of homology searches in nucleotide sequence databases. Repetitive elements should be treated carefully by using special programs and databases. In this paper, various aspects of SINE (short interspersed repetitive element) identification, analysis and evolution are discussed.

  2. Explaining rapid reinfections in multiple-wave influenza outbreaks: Tristan da Cunha 1971 epidemic as a case study

    PubMed Central

    Camacho, Anton; Ballesteros, Sébastien; Graham, Andrea L.; Carrat, Fabrice; Ratmann, Oliver; Cazelles, Bernard

    2011-01-01

    Influenza usually spreads through the human population in multiple-wave outbreaks. Successive reinfection of individuals over a short time interval has been explicitly reported during past pandemics. However, the causes of rapid reinfection and the role of reinfection in driving multiple-wave outbreaks remain poorly understood. To investigate these issues, we focus on a two-wave influenza A/H3N2 epidemic that occurred on the remote island of Tristan da Cunha in 1971. Over 59 days, 273 (96%) of 284 islanders experienced at least one attack and 92 (32%) experienced two attacks. We formulate six mathematical models invoking a variety of antigenic and immunological reinfection mechanisms. Using a maximum-likelihood analysis to confront model predictions with the reported incidence time series, we demonstrate that only two mechanisms can be retained: some hosts with either a delayed or deficient humoral immune response to the primary influenza infection were reinfected by the same strain, thus initiating the second epidemic wave. Both mechanisms are supported by previous empirical studies and may arise from a combination of genetic and ecological causes. We advocate that a better understanding and account of heterogeneity in the human immune response are essential to analysis of multiple-wave influenza outbreaks and pandemic planning. PMID:21525058

  3. Excitation of multiple surface-plasmon-polariton waves using a compound surface-relief grating

    NASA Astrophysics Data System (ADS)

    Faryad, Muhammad; Lakhtakia, Akhlesh

    2012-01-01

    The excitation of multiple surface-plasmon-polariton waves, all of the same frequency but different polarization states, phase speeds, spatial profiles and degrees of localization, by a compound surface-relief grating formed by a metal and a rugate filter, both of finite thickness, was studied using the rigorous coupled-wave approach. Each period of the compound surface-relief grating was chosen to have an integral number of periods of two different simple surface-relief gratings. The excitation of different SPP waves was inferred from the absorptance peaks that were independent of the thickness of the rugate filter. The excitation of each SPP wave could be attributed to either a simple surface-relief grating present in the compound surface-relief grating or to the compound surface-relief grating itself. However, the excitation of SPP waves was found to be less efficient with the compound surface-relief grating than with a simple surface-relief grating.

  4. Surface Acoustic Wave Vibration Sensors for Measuring Aircraft Flutter

    NASA Technical Reports Server (NTRS)

    Wilson, William C.; Moore, Jason P.; Juarez, Peter D.

    2016-01-01

    Under NASA's Advanced Air Vehicles Program the Advanced Air Transport Technology (AATT) Project is investigating flutter effects on aeroelastic wings. To support that work a new method for measuring vibrations due to flutter has been developed. The method employs low power Surface Acoustic Wave (SAW) sensors. To demonstrate the ability of the SAW sensor to detect flutter vibrations the sensors were attached to a Carbon fiber-reinforced polymer (CFRP) composite panel which was vibrated at six frequencies from 1Hz to 50Hz. The SAW data was compared to accelerometer data and was found to resemble sine waves and match each other closely. The SAW module design and results from the tests are presented here.

  5. Factors Influencing Army Accessions.

    DTIC Science & Technology

    1982-12-01

    partial autocorrelations were examined for significant lags or a recognizable pattern such as a damped exponential or a sine wave. The TSP prugrams...decreasing function indicating nonstation- *arity or a very long sine wave where only a small portion of the wave is plotted. The partial...plot of the raw data appeared (Appendix E-1) to be either the middle of a long sine wave or a linearly decreasing function. This pattern is recognized

  6. Public health interventions for epidemics: implications for multiple infection waves.

    PubMed

    Wessel, Lindsay; Hua, Yi; Wu, Jianhong; Moghadas, Seyed M

    2011-02-25

    Epidemics with multiple infection waves have been documented for some human diseases, most notably during past influenza pandemics. While pathogen evolution, co-infection, and behavioural changes have been proposed as possible mechanisms for the occurrence of subsequent outbreaks, the effect of public health interventions remains undetermined. We develop mean-field and stochastic epidemiological models for disease transmission, and perform simulations to show how control measures, such as drug treatment and isolation of ill individuals, can influence the epidemic profile and generate sequences of infection waves with different characteristics. We demonstrate the impact of parameters representing the effectiveness and adverse consequences of intervention measures, such as treatment and emergence of drug resistance, on the spread of a pathogen in the population. If pathogen resistant strains evolve under drug pressure, multiple outbreaks are possible with variability in their characteristics, magnitude, and timing. In this context, the level of drug use and isolation capacity play an important role in the occurrence of subsequent outbreaks. Our simulations for influenza infection as a case study indicate that the intensive use of these interventions during the early stages of the epidemic could delay the spread of disease, but it may also result in later infection waves with possibly larger magnitudes. The findings highlight the importance of intervention parameters in the process of public health decision-making, and in evaluating control measures when facing substantial uncertainty regarding the epidemiological characteristics of an emerging infectious pathogen. Critical factors that influence population health including evolutionary responses of the pathogen under the pressure of different intervention measures during an epidemic should be considered for the design of effective strategies that address short-term targets compatible with long-term disease outcomes.

  7. Multiple-scale structures: from Faraday waves to soft-matter quasicrystals.

    PubMed

    Savitz, Samuel; Babadi, Mehrtash; Lifshitz, Ron

    2018-05-01

    For many years, quasicrystals were observed only as solid-state metallic alloys, yet current research is now actively exploring their formation in a variety of soft materials, including systems of macromolecules, nanoparticles and colloids. Much effort is being invested in understanding the thermodynamic properties of these soft-matter quasicrystals in order to predict and possibly control the structures that form, and hopefully to shed light on the broader yet unresolved general questions of quasicrystal formation and stability. Moreover, the ability to control the self-assembly of soft quasicrystals may contribute to the development of novel photonics or other applications based on self-assembled metamaterials. Here a path is followed, leading to quantitative stability predictions, that starts with a model developed two decades ago to treat the formation of multiple-scale quasiperiodic Faraday waves (standing wave patterns in vibrating fluid surfaces) and which was later mapped onto systems of soft particles, interacting via multiple-scale pair potentials. The article reviews, and substantially expands, the quantitative predictions of these models, while correcting a few discrepancies in earlier calculations, and presents new analytical methods for treating the models. In so doing, a number of new stable quasicrystalline structures are found with octagonal, octadecagonal and higher-order symmetries, some of which may, it is hoped, be observed in future experiments.

  8. Evolution of the optimum bidirectional (+/- biphasic) wave for defibrillation.

    PubMed

    Geddes, L A; Havel, W

    2000-01-01

    Introduction of the asymmetric bidirectional (+/- biphasic) current waveform has made it possible to achieve ventricular defibrillation with less energy and current than are needed with a unidirectional (monophasic) waveform. The symmetrical bidirectional (sinusoidal) waveform was used for the first human-heart defibrillation. Subsequent studies employed the underdamped and overdamped sine waves, then the trapezoidal (monophasic) wave. Studies were then undertaken to investigate the benefit of adding a second identical and inverted wave; little success rewarded these efforts until it was discovered that the second inverted wave needed to be much less in amplitude to lower the threshold for defibrillation. However, there is no physiologic theory that explains the mechanism of action of the bidirectional wave, nor does any theory predict the optimum amplitude and time dimensions for the second inverted wave. The authors analyze the research that shows that the threshold defibrillation energy is lowest when the charge in the second, inverted phase is slightly more than a third of that in the first phase. An ion-flux, spatial-K+ summation hypothesis is presented that shows the effect on myocardial cells of adding the second inverted current pulse.

  9. Seismostratigraphic model of the Sines Contourite Drift (SW Portuguese Margin) - depositional evolution, structural control and paleoceanographic implications

    NASA Astrophysics Data System (ADS)

    Rodrigues, Sara; Roque, Cristina; Terrinha, Pedro; Hernández-Molina, Francisco J.; Llave, Estefania; Ercilla, Gemma; Casas, David; Farran, Marcelli

    2017-04-01

    The Sines Contourite Drift, located in the Southwest Portuguese margin, is a distal drift of the Contourite Depositional System of the Gulf of Cadiz, built by the influence of the Mediterranean Outflow Water (MOW). This drift is located between 1000 and 2000 m water depth on the Alentejo margin continental slope. The Sines Drift is bounded by four major morphologic features, the 1.4 km high Pereira de Sousa Fault escarpment to the west, the upper continental slope to the east and the Setúbal and São Vicente canyons to the north and south, respectively. This work presents a seismic stratigraphic analysis and proposes an evolutionary model for the Sines Drift, as well as the identification of its main driving mechanisms and constraints. We used new seismic reflection lines acquired during the MOWER/CONDRIBER cruise in September-October 2014, pre-existent multichannel seismic lines and lithostratigraphic and chronological data from Site U1391 of IODP Expedition 339 carried out in 2011-2012. Three evolutionary phases are identified for the Sines Drift development: 1) a sheeted-contourite-drift phase (<5.3-3.2 Ma) built since the Late Miocene by an initially weak flowing MOW; 2) a mounded-contourite-drift phase (3.2-0.7 Ma) from Late Pliocene to Early Quaternary times characterized by a mounded drift in the north and sheeted in the south, with a succession of sinuous N-S paleomoats in the east built as a result of a MOW enhancement; and 3) a plastered-contourite-drift phase from Mid-Pleistocene (0.7 Ma) till the present day, characterized by the present depositional (sandy-muddy drifts) and erosional (moats) contourite features associated with two major events of MOW intensification. The growth of the Sines Drift was constrained, in a long-term, by seafloor morphologies that resulted from the Mesozoic rifting processes of the Southwest Portuguese margin, inherited from the Mesozoic rifting phases. The paleomorphology provided accommodation space for drift growth and

  10. A multiple scattering theory for EM wave propagation in a dense random medium

    NASA Technical Reports Server (NTRS)

    Karam, M. A.; Fung, A. K.; Wong, K. W.

    1985-01-01

    For a dense medium of randomly distributed scatterers an integral formulation for the total coherent field has been developed. This formulation accounts for the multiple scattering of electromagnetic waves including both the twoand three-particle terms. It is shown that under the Markovian assumption the total coherent field and the effective field have the same effective wave number. As an illustration of this theory, the effective wave number and the extinction coefficient are derived in terms of the polarizability tensor and the pair distribution function for randomly distributed small spherical scatterers. It is found that the contribution of the three-particle term increases with the particle size, the volume fraction, the frequency and the permittivity of the particle. This increase is more significant with frequency and particle size than with other parameters.

  11. Retinal detachment and retinal holes in retinitis pigmentosa sine pigmento.

    PubMed

    Csaky, K; Olk, R J; Mahl, C F; Bloom, S M

    1991-01-01

    Retinal detachment and retinal holes in two family members with retinitis pigmentosa sine pigmento are reported. We believe these are the first such cases reported in the literature. We describe the presenting symptoms and management, including cryotherapy, scleral buckling procedure, and sulfur hexafluoride injection (SF6), resulting in stable visual acuity in one case and retinal reattachment and improved visual acuity in the other case.

  12. Multifocal amelanotic conjunctival melanoma and acquired melanosis sine pigmento.

    PubMed

    Paridaens, A D; McCartney, A C; Hungerford, J L

    1992-03-01

    Clinical and histopathological features of four cases of multifocal amelanotic malignant melanoma of the conjunctiva in association with 'acquired melanosis sine pigmento' are reported. The absence of conjunctival pigmentation in this extremely rare combination of lesions prevented early diagnosis and clinical monitoring. As a result orbital exenteration was required in three cases. This multicentric non-pigmented variety of conjunctival malignant melanoma tends to present later than pigmented forms and may require exenteration of the orbit as a primary procedure.

  13. Ancient Exaptation of a CORE-SINE Retroposon into a Highly Conserved Mammalian Neuronal Enhancer of the Proopiomelanocortin Gene

    PubMed Central

    Bumaschny, Viviana F; Low, Malcolm J; Rubinstein, Marcelo

    2007-01-01

    The proopiomelanocortin gene (POMC) is expressed in the pituitary gland and the ventral hypothalamus of all jawed vertebrates, producing several bioactive peptides that function as peripheral hormones or central neuropeptides, respectively. We have recently determined that mouse and human POMC expression in the hypothalamus is conferred by the action of two 5′ distal and unrelated enhancers, nPE1 and nPE2. To investigate the evolutionary origin of the neuronal enhancer nPE2, we searched available vertebrate genome databases and determined that nPE2 is a highly conserved element in placentals, marsupials, and monotremes, whereas it is absent in nonmammalian vertebrates. Following an in silico paleogenomic strategy based on genome-wide searches for paralog sequences, we discovered that opossum and wallaby nPE2 sequences are highly similar to members of the superfamily of CORE-short interspersed nucleotide element (SINE) retroposons, in particular to MAR1 retroposons that are widely present in marsupial genomes. Thus, the neuronal enhancer nPE2 originated from the exaptation of a CORE-SINE retroposon in the lineage leading to mammals and remained under purifying selection in all mammalian orders for the last 170 million years. Expression studies performed in transgenic mice showed that two nonadjacent nPE2 subregions are essential to drive reporter gene expression into POMC hypothalamic neurons, providing the first functional example of an exapted enhancer derived from an ancient CORE-SINE retroposon. In addition, we found that this CORE-SINE family of retroposons is likely to still be active in American and Australian marsupial genomes and that several highly conserved exonic, intronic and intergenic sequences in the human genome originated from the exaptation of CORE-SINE retroposons. Together, our results provide clear evidence of the functional novelties that transposed elements contributed to their host genomes throughout evolution. PMID:17922573

  14. Emotional Intelligence: The Sine Qua Non for a Clinical Leadership Toolbox

    ERIC Educational Resources Information Center

    Rao, Paul R.

    2006-01-01

    Over the past decade, it has become increasingly clear that although IQ and technical skills are important, emotional intelligence is the Sine Qua Non of leadership. According to Goleman [Goleman, D. (1998). What makes a leader? "Harvard Business Review," 93-102] "effective leaders are alike in one crucial way: they all have a high degree of…

  15. A method for quantification of exportin-1 (XPO1) occupancy by Selective Inhibitor of Nuclear Export (SINE) compounds

    PubMed Central

    Crochiere, Marsha L.; Baloglu, Erkan; Klebanov, Boris; Donovan, Scott; del Alamo, Diego; Lee, Margaret; Kauffman, Michael; Shacham, Sharon; Landesman, Yosef

    2016-01-01

    Selective Inhibitor of Nuclear Export (SINE) compounds are a family of small-molecules that inhibit nuclear export through covalent binding to cysteine 528 (Cys528) in the cargo-binding pocket of Exportin 1 (XPO1/CRM1) and promote cancer cell death. Selinexor is the lead SINE compound currently in phase I and II clinical trials for advanced solid and hematological malignancies. In an effort to understand selinexor-XPO1 interaction and to establish whether cancer cell response is a function of drug-target engagement, we developed a quantitative XPO1 occupancy assay. Biotinylated leptomycin B (b-LMB) was utilized as a tool compound to measure SINE-free XPO1. Binding to XPO1 was quantitated from SINE compound treated adherent and suspension cells in vitro, dosed ex vivo human peripheral blood mononuclear cells (PBMCs), and PBMCs from mice dosed orally with drug in vivo. Evaluation of a panel of selinexor sensitive and resistant cell lines revealed that resistance was not attributed to XPO1 occupancy by selinexor. Administration of a single dose of selinexor bound XPO1 for minimally 72 hours both in vitro and in vivo. While XPO1 inhibition directly correlates with selinexor pharmacokinetics, the biological outcome of this inhibition depends on modulation of pathways downstream of XPO1, which ultimately determines cancer cell responsiveness. PMID:26654943

  16. Wave multiple scattering by a finite number of unclosed circular cylinders

    NASA Technical Reports Server (NTRS)

    Veliyev, E. I.; Veremey, V. V.

    1984-01-01

    The boundary value problem of plane H-polarized electromagnetic wave multiple scattering by a finite number of unclosed circular cylinders is solved. The solution is obtained by two different methods: the method of successive scattering and the method of partial matrix inversion for simultaneous dual equations. The advantages of the successive scattering method are shown. Computer calculations of the suface currents and the total cross section are presented for the structure of two screens.

  17. Needle-array to Plate DBD Plasma Using Sine AC and Nanosecond Pulse Excitations for Purpose of Improving Indoor Air Quality

    PubMed Central

    Zhang, Li; Yang, Dezheng; Wang, Wenchun; Wang, Sen; Yuan, Hao; Zhao, Zilu; Sang, Chaofeng; Jia, Li

    2016-01-01

    In this study, needle-array to plate electrode configuration was employed to generate an atmospheric air diffuse discharge using both nanosecond pulse and sine AC voltage as excitation voltage for the purpose of improving indoor air quality. Different types of voltage sources and electrode configurations are employed to optimize electrical field distribution and improve discharge stability. Discharge images, electrical characteristics, optical emission spectra, and plasma gas temperatures in both sine AC discharge and nanosecond pulse discharge were compared and the discharge stability during long operating time were discussed. Compared with the discharge excited by sine AC voltage, the nanosecond pulsed discharge is more homogenous and stable, besides, the plasma gas temperature of nanosecond pulse discharge is much lower. Using packed-bed structure, where γ- Al2O3 pellets are filled in the electrode gap, has obvious efficacy in the production of homogenous discharge. Furthermore, both sine AC discharge and nanosecond pulse discharge were used for removing formaldehyde from flowing air. It shows that nanosecond pulse discharge has a significant advantage in energy cost. And the main physiochemical processes for the generation of active species and the degradation of formaldehyde were discussed. PMID:27125663

  18. Rogue waves generation via nonlinear soliton collision in multiple-soliton state of a mode-locked fiber laser.

    PubMed

    Peng, Junsong; Tarasov, Nikita; Sugavanam, Srikanth; Churkin, Dmitry

    2016-09-19

    We report for the first time, rogue waves generation in a mode-locked fiber laser that worked in multiple-soliton state in which hundreds of solitons occupied the whole laser cavity. Using real-time spatio-temporal intensity dynamics measurements, it is unveiled that nonlinear soliton collision accounts for the formation of rogue waves in this laser state. The nature of interactions between solitons are also discussed. Our observation may suggest similar formation mechanisms of rogue waves in other systems.

  19. Generation of dark hollow beam by focusing a sine-Gaussian beam using a cylindrical lens and a focusing lens

    NASA Astrophysics Data System (ADS)

    Tang, Huiqin; Zhu, Kaicheng

    2013-12-01

    Based on the generalized Huygens-Fresnel diffraction integral, a closed-form propagation equation related to sine-Gaussian beams through a cylindrical lens and a focusing lens is derived and illustrated with numerical methods. It is found that a sine-Gaussian beam through such a system may be converted into a dark hollow beam (DHB) with topological charge index one and its bright enclosure is approximately an elongated ellipse with very high ellipticity. Moreover, the parameter values at which the DHBs have perfect intensity patterns are designed. The optimal relative orientation between the dislocation line of the input sine-Gaussian beam and the axial orientation of the cylindrical lens is specified. And the ellipticity of the elliptical DHBs is mainly defined by the focal length of the cylindrical lens and the Fresnel number of the optical system.

  20. On sine dwell or broadband methods for modal testing

    NASA Technical Reports Server (NTRS)

    Chen, Jay-Chung; Wada, Ben K.

    1987-01-01

    For large, complex spacecraft structural systems, the objectives of the modal test are outlined. Based on these objectives, the comparison criteria for the modal test methods, namely, the broadband excitation and the sine dwell methods are established. Using the Galileo spacecraft modal test and the Centaur G Prime upper stage vehicle modal test as examples, the relative advantages or disadvantages of each method are examined. The usefulness or shortcoming of the methods are given from a practicing engineer's view point.

  1. Multifocal amelanotic conjunctival melanoma and acquired melanosis sine pigmento.

    PubMed Central

    Paridaens, A D; McCartney, A C; Hungerford, J L

    1992-01-01

    Clinical and histopathological features of four cases of multifocal amelanotic malignant melanoma of the conjunctiva in association with 'acquired melanosis sine pigmento' are reported. The absence of conjunctival pigmentation in this extremely rare combination of lesions prevented early diagnosis and clinical monitoring. As a result orbital exenteration was required in three cases. This multicentric non-pigmented variety of conjunctival malignant melanoma tends to present later than pigmented forms and may require exenteration of the orbit as a primary procedure. Images PMID:1540561

  2. Nonlinear Wave Simulation on the Xeon Phi Knights Landing Processor

    NASA Astrophysics Data System (ADS)

    Hristov, Ivan; Goranov, Goran; Hristova, Radoslava

    2018-02-01

    We consider an interesting from computational point of view standing wave simulation by solving coupled 2D perturbed Sine-Gordon equations. We make an OpenMP realization which explores both thread and SIMD levels of parallelism. We test the OpenMP program on two different energy equivalent Intel architectures: 2× Xeon E5-2695 v2 processors, (code-named "Ivy Bridge-EP") in the Hybrilit cluster, and Xeon Phi 7250 processor (code-named "Knights Landing" (KNL). The results show 2 times better performance on KNL processor.

  3. Wide-range lock-in amplifier

    DOEpatents

    McNeilly, D.R.

    1984-01-01

    A lock-in amplifier is provided which allows detection of a signal buried in noise without preprocessing of the input signal. An analog signal multiplier is used to obtain a dc output which is the product of the signal being detected and a high-purity sine wave signal. A reference signal of a known selectable frequency is applied to a sine-wave generator to generate the sine wave of the same frequency. The sine wave is applied to a multiplier through a phase shift arrangement to allow the detection of both amplitude of the detected signal and the phases relative to the reference signal. The multiplier output is filtered by a low-pass filter to eliminate unwanted frequency components from the output signal.

  4. Wide-range lock-in amplifier

    DOEpatents

    McNeilly, David R.

    1985-01-01

    A lock-in amplifier is provided which allows detection of a signal buried in noise without preprocessing of the input signal. An analog signal multiplier is used to obtain a dc output which is the product of the signal being detected and a high-purity sine wave signal. A reference signal of a known selectable frequency is applied to a sine-wave generator to generate the sine wave of the same frequency. The sine wave is applied to a multiplier through a phase shift arrangement to allow the detection of both amplitude of the detected signal and the phases relative to the reference signal. The multiplier output is filtered by a low-pass filter to eliminate unwanted frequency components from the output signal.

  5. The sine method as a more accurate height predictor for hardwoods

    Treesearch

    Don C. Bragg

    2007-01-01

    Most hypsometers apply a mathematical technique that utilizes the tangent of angles and a horizontal distance to deliver the exact height of a tree under idealized circumstances. Unfortunately, these conditions are rarely met for hardwoods in the field. A “new” predictor based on sine and slope distance and discussed here does not require the same assumptions for...

  6. Multifluxon dynamics in driven Josephson junctions

    NASA Astrophysics Data System (ADS)

    Lawrence, Albert; Kim, Nung Soo; McDaniel, James; Jack, Michael

    1985-06-01

    The dynamics of fluxons in a long Josephson junction driven by time-varying nonuniform bias currents are described by a generalization of the sine-Gordon equation. This equation has solitary wave solutions which correspond to current vortices or quantized packets of magnetic flux in the junction. As with the sine-Gordon equation, multifluxon solutions may be demonstrated for the long Josephson junction. Our numerical calculations show that several fluxons may be launched or annihilated at the end of a junction. We also show multiple steady state conditions which correspond to one or more flux quanta trapped in the junction.

  7. Wide-Range Filter-Based Sinusoidal Wave Synthesizer for Electrochemical Impedance Spectroscopy Measurements.

    PubMed

    Chia-Ling Wei; Yi-Wen Wang; Bin-Da Liu

    2014-06-01

    A filter-based wide-range programmable sinusoidal wave synthesizer for electrochemical impedance spectroscopy measurement is proposed. The adopted filter is implemented with switched-capacitor circuits, so its corner frequency is accurate and adjustable by changing its switching frequency. The proposed sine wave synthesizer is implemented by using a 0.35 μm 2P4M 3.3 V mixed-signal polycide process. According to the measured results, the output frequency of the proposed synthesizer is 40 mHz-40 kHz . The measured total harmonic distortion is 0.073% at 10 Hz and 0.075% at 10 kHz, both of which are better than that of a typical function generator.

  8. Energy in a String Wave

    NASA Astrophysics Data System (ADS)

    Ng, Chiu-king

    2010-01-01

    When one end of a taut horizontal elastic string is shaken repeatedly up and down, a transverse wave (assume sine waveform) will be produced and travel along it. College students know this type of wave motion well. They know when the wave passes by, each element of the string will perform an oscillating up-down motion, which in mechanics is termed simple harmonic2. They also know elements of the string at the highest and the lowest positions—the crests and the troughs—are momentarily at rest, while those at the centerline (zero displacement) have the greatest speed, as shown in Fig. 1. Irrespective of this, they are less familiar with the energy associated with the wave. They may fail to answer a question such as, "In a traveling string wave, which elements have respectively the greatest kinetic energy (KE) and the greatest potential energy (PE)?" The answer to the former is not difficult; elements at zero position have the fastest speed and hence their KE, being proportional to the square of speed, is the greatest. To the PE, what immediately comes to their mind may be the simple harmonic motion (SHM), in which the PE is the greatest and the KE is zero at the two turning points. It may thus lead them to think elements at crests or troughs have the greatest PE. Unfortunately, this association is wrong. Thinking that the crests or troughs have the greatest PE is a misconception.3

  9. Multiple Bloch surface waves in visible region of light at the interfaces between rugate filter/rugate filter and rugate filter/dielectric slab/rugate filter

    NASA Astrophysics Data System (ADS)

    Ullah Manzoor, Habib; Manzoor, Tareq; Hussain, Masroor; Manzoor, Sanaullah; Nazar, Kashif

    2018-04-01

    Surface electromagnetic waves are the solution of Maxwell’s frequency domain equations at the interface of two dissimilar materials. In this article, two canonical boundary-value problems have been formulated to analyze the multiplicity of electromagnetic surface waves at the interface between two dissimilar materials in the visible region of light. In the first problem, the interface between two semi-infinite rugate filters having symmetric refractive index profiles is considered and in the second problem, to enhance the multiplicity of surface electromagnetic waves, a homogeneous dielectric slab of 400 nm is included between two semi-infinite symmetric rugate filters. Numerical results show that multiple Bloch surface waves of different phase speeds, different polarization states, different degrees of localization and different field profiles are propagated at the interface between two semi-infinite rugate filters. Having two interfaces when a homogeneous dielectric layer is placed between two semi-infinite rugate filters has increased the multiplicity of electromagnetic surface waves.

  10. Comparison of sine dwell and broadband methods for modal testing

    NASA Technical Reports Server (NTRS)

    Chen, Jay-Chung

    1989-01-01

    The objectives of modal tests for large complex spacecraft structural systems are outlined. The comparison criteria for the modal test methods, namely, the broadband excitation and the sine dwell methods, are established. Using the Galileo spacecraft modal test and the Centaur G Prime upper stage vehicle modal test as examples, the relative advantage or disadvantage of each method is examined. The usefulness or shortcomings of the methods are given from a practical engineering viewpoint.

  11. Modulated Sine Waves for Differential Absorption Measurements Using a CW Laser System

    NASA Technical Reports Server (NTRS)

    Campbell, Joel F. (Inventor); Lin, Bing (Inventor); Nehrir, Amin R. (Inventor)

    2015-01-01

    A continuous wave Light Detection and Ranging (CW LiDAR) system utilizes two or more laser frequencies and time or range shifted pseudorandom noise (PN) codes to discriminate between the laser frequencies. The performance of these codes can be improved by subtracting out the bias before processing. The CW LiDAR system may be mounted to an artificial satellite orbiting the earth, and the relative strength of the return signal for each frequency can be utilized to determine the concentration of selected gases or other substances in the atmosphere.

  12. Fluid-structure interaction dynamic simulation of spring-loaded pressure relief valves under seismic wave

    NASA Astrophysics Data System (ADS)

    Lv, Dongwei; Zhang, Jian; Yu, Xinhai

    2018-05-01

    In this paper, a fluid-structure interaction dynamic simulation method of spring-loaded pressure relief valve was established. The dynamic performances of the fluid regions and the stress and strain of the structure regions were calculated at the same time by accurately setting up the contact pairs between the solid parts and the coupling surfaces between the fluid regions and the structure regions. A two way fluid-structure interaction dynamic simulation of a simplified pressure relief valve model was carried out. The influence of vertical sinusoidal seismic waves on the performance of the pressure relief valve was preliminarily investigated by loading sine waves. Under vertical seismic waves, the pressure relief valve will flutter, and the reseating pressure was affected by the amplitude and frequency of the seismic waves. This simulation method of the pressure relief valve under vertical seismic waves can provide effective means for investigating the seismic performances of the valves, and make up for the shortcomings of the experiment.

  13. LINEs, SINEs and other retroelements: do birds of a feather flock together?

    PubMed

    Roy-Engel, Astrid M

    2012-01-01

    Mobile elements account for almost half of the mass of the human genome. Only the retroelements from the non-LTR (long terminal repeat) retrotransposon family, which include the LINE-1 (L1) and its non-autonomous partners, are currently active and contributing to new insertions. Although these elements seem to share the same basic amplification mechanism, the activity and success of the different types of retroelements varies. For example, Alu-induced mutagenesis is responsible for the majority of the documented instances of human disease induced by insertion of retroelements. Using copy number in mammals as an indicator, some SINEs have been vastly more successful than other retroelements, such as the retropseudogenes and even L1, likely due to differences in post-insertion selection and ability to overcome cellular controls. SINE and LINE integration can be differentially influenced by cellular factors, indicating some differences between in their amplification mechanisms. We focus on the known aspects of this group of retroelements and highlight their similarities and differences that may significantly influence their biological impact.

  14. LINEs, SINEs and other retroelements: do birds of a feather flock together?

    PubMed Central

    Roy-Engel, Astrid M.

    2012-01-01

    Mobile elements account for almost half of the mass of the human genome. Only the retroelements from the non-LTR (long terminal repeat) retrotransposon family, which include the LINE-1 (L1) and its non-autonomous partners, are currently active and contributing to new insertions. Although these elements seem to share the same basic amplification mechanism, the activity and success of the different types of retroelements varies. For example, Alu-induced mutagenesis is responsible for the majority of the documented instances of human disease induced by insertion of retroelements. Using copy number in mammals as an indicator, some SINEs have been vastly more successful than other retroelements, such as the retropseudogenes and even L1, likely due to differences in post-insertion selection and ability to overcome cellular controls. SINE and LINE integration can be differentially influenced by cellular factors, indicating some differences between in their amplification mechanisms. We focus on the known aspects of this group of retroelements and highlight their similarities and differences that may significantly influence their biological impact. PMID:22201808

  15. Identification of an active ID-like group of SINEs in the mouse

    PubMed Central

    Kass, David H; Jamison, Nicole

    2007-01-01

    The mouse genome consists of five known families of SINEs: B1, B2, B4/RSINE, ID, and MIR. Using RT-PCR we identified a germ-line transcript that demonstrates 92.7% sequence identity to ID (excluding primer sequence), yet a BLAST search identified numerous matches of 100% sequence identity. We analyzed four of these elements for their presence in orthologous genes in strains and subspecies of M. musculus as well as other species of Mus using a PCR-based assay. All four analyzed elements were either identified only in M. musculus or exclusively in both M. musculus and M. domesticus indicative of recent integrations. In conjunction with the identification of transcripts, we present an active ID-like group of elements that is not derived from the proposed BC1 master gene of ID elements. A BLAST of the rat genome indicated that these elements were not in the rat. Therefore, this family of SINEs has recently evolved, and since thus far has mainly been observed in M. musculus, we then refer to this family as MMIDL. PMID:17572061

  16. Identification of an active ID-like group of SINEs in the mouse.

    PubMed

    Kass, David H; Jamison, Nicole

    2007-09-01

    The mouse genome consists of five known families of SINEs: B1, B2, B4/RSINE, ID, and MIR. Using RT-PCR we identified a germ-line transcript that demonstrates 92.7% sequence identity to ID (excluding primer sequence), yet a BLAST search identified numerous matches of 100% sequence identity. We analyzed four of these elements for their presence in orthologous genes in strains and subspecies of Mus musculus as well as other species of Mus using a PCR-based assay. All four analyzed elements were identified either only in M. musculus or exclusively in both M. musculus and M. domesticus, indicative of recent integrations. In conjunction with the identification of transcripts, we present an active ID-like group of elements that is not derived from the proposed BC1 master gene of ID elements. A BLAST of the rat genome indicated that these elements were not in the rat. Therefore, this family of SINEs has recently evolved, and since it has thus far been observed mainly in M. musculus, we refer to this family as MMIDL.

  17. Spike-like solitary waves in incompressible boundary layers driven by a travelling wave.

    PubMed

    Feng, Peihua; Zhang, Jiazhong; Wang, Wei

    2016-06-01

    Nonlinear waves produced in an incompressible boundary layer driven by a travelling wave are investigated, with damping considered as well. As one of the typical nonlinear waves, the spike-like wave is governed by the driven-damped Benjamin-Ono equation. The wave field enters a completely irregular state beyond a critical time, increasing the amplitude of the driving wave continuously. On the other hand, the number of spikes of solitary waves increases through multiplication of the wave pattern. The wave energy grows in a sequence of sharp steps, and hysteresis loops are found in the system. The wave energy jumps to different levels with multiplication of the wave, which is described by winding number bifurcation of phase trajectories. Also, the phenomenon of multiplication and hysteresis steps is found when varying the speed of driving wave as well. Moreover, the nature of the change of wave pattern and its energy is the stability loss of the wave caused by saddle-node bifurcation.

  18. Matrix formalism of electromagnetic wave propagation through multiple layers in the near-field region: application to the flat panel display.

    PubMed

    Lee, C Y; Lee, D E; Hong, Y K; Shim, J H; Jeong, C K; Joo, J; Zang, D S; Shim, M G; Lee, J J; Cha, J K; Yang, H G

    2003-04-01

    We have developed an electromagnetic (EM) wave propagation theory through a single layer and multiple layers in the near-field and far-field regions, and have constructed a matrix formalism in terms of the boundary conditions of the EM waves. From the shielding efficiency (SE) against EM radiation in the near-field region calculated by using the matrix formalism, we propose that the effect of multiple layers yields enhanced shielding capability compared to a single layer with the same total thickness in conducting layers as the multiple layers. We compare the intensities of an EM wave propagating through glass coated with conducting indium tin oxide (ITO) on one side and on both sides, applying it to the electromagnetic interference (EMI) shielding filter in a flat panel display such as a plasma display panel (PDP). From the measured intensities of EMI noise generated by a PDP loaded with ITO coated glass samples, the two-side coated glass shows a lower intensity of EMI noise compared to the one-side coated glass. The result confirms the enhancement of the SE due to the effect of multiple layers, as expected in the matrix formalism of EM wave propagation in the near-field region. In the far-field region, the two-side coated glass with ITO in multiple layers has a higher SE than the one-side coated glass with ITO, when the total thickness of ITO in both cases is the same.

  19. Observation of Wave Packet Distortion during a Negative-Group-Velocity Transmission

    PubMed Central

    Ye, Dexin; Salamin, Yannick; Huangfu, Jiangtao; Qiao, Shan; Zheng, Guoan; Ran, Lixin

    2015-01-01

    In Physics, causality is a fundamental postulation arising from the second law of thermodynamics. It states that, the cause of an event precedes its effect. In the context of Electromagnetics, the relativistic causality limits the upper bound of the velocity of information, which is carried by electromagnetic wave packets, to the speed of light in free space (c). In anomalously dispersive media (ADM), it has been shown that, wave packets appear to propagate with a superluminal or even negative group velocity. However, Sommerfeld and Brillouin pointed out that the “front” of such wave packets, known as the initial point of the Sommerfeld precursor, always travels at c. In this work, we investigate the negative-group-velocity transmission of half-sine wave packets. We experimentally observe the wave front and the distortion of modulated wave packets propagating with a negative group velocity in a passive artificial ADM in microwave regime. Different from previous literature on the propagation of superluminal Gaussian packets, strongly distorted sinusoidal packets with non-superluminal wave fronts were observed. This result agrees with Brillouin's assertion, i.e., the severe distortion of seemingly superluminal wave packets makes the definition of group velocity physically meaningless in the anomalously dispersive region. PMID:25631746

  20. Suppression of stimulated Brillouin instability of a beat-wave of two lasers in multiple-ion-species plasmas

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Yadav, Pinki; Gupta, D. N., E-mail: dngupta@physics.du.ac.in; Avinash, K.

    2016-01-15

    Stimulated Brillouin instability of a beat-wave of two lasers in plasmas with multiple-ion-species (negative-ions) was studied. The inclusion of negative-ions affects the growth of ion-acoustic wave in Brillouin scattering. Thus, the growth rate of instability is suppressed significantly by the density of negative-ions. To obey the phase-matching condition, the growth rate of the instability attains a maxima for an appropriate scattering angle (angle between the pump and scattered sideband waves). This study would be technologically important to have diagnostics in low-temperature plasmas.

  1. 2-micrometer continuous wave laser treatment for multiple non-muscle-invasive bladder cancer with intravesical instillation of epirubicin.

    PubMed

    Liu, Haitao; Xue, Song; Ruan, Yuan; Sun, Xiaowen; Han, Bangmin; Xia, Shujie

    2011-01-01

    We have reported the efficacy and safety of 2-micrometer continuous wave laser resection of non-muscle-invasive bladder tumor (NMIVBC) (World J Urology 2010;28:157-161). In this study, we evaluated the use of 2-micrometer continuous wave laser resection in combination with intravesical instillation of epirubicin for the treatment of multiple NMIVBC. From September 2007 to April 2008, sixty patients with multiple NMIVBC were included in this study (44 cases of low grade papillary urothelial carcinoma, 10 cases of high grade papillary urothelial carcinoma, and six cases of papillary urothelial neoplasm with low malignant potential). Imaging examinations including pelvic computer tomography (CT) and intravenous urography showed no extravesical extension, lymphatic metastasis or any lesions of upper urinary tract. All patients received 2-micrometer continuous wave laser therapy under continuous epidural anesthesia, and intravesical chemotherapy with epirubicin 1 week later (intravesical instillation weekly for 8 weeks, followed by monthly maintenance to 12 months). Totally 211 tumors in 60 patients were successfully removed with 2-micrometer continuous wave laser. The mean operation time was 48 minutes per patient (ranged 20-90 minutes) and 13.6 minutes per tumor (range 5-25 minutes). No obturator nerve reflection or bladder perforation occurred during the procedure. All patients finished 12 months of intravesical chemotherapy without severe complications. The mean followed-up time was 23 months. Tumor recurrences were found in 13 patients (22%). The combination of 2-micrometer continuous wave laser and intravesical chemotherapy is feasible, safe, and efficacious for the treatment of multiple NMIVBC. Copyright © 2011 Wiley-Liss, Inc.

  2. Multiple bio-monitoring system using visible light for electromagnetic-wave free indoor healthcare

    NASA Astrophysics Data System (ADS)

    An, Jinyoung; Pham, Ngoc Quan; Chung, Wan-Young

    2017-12-01

    In this paper, a multiple biomedical data transmission system with visible light communication (VLC) is proposed for an electromagnetic-wave-free indoor healthcare. VLC technology has emerged as an alternative solution to radio-frequency (RF) wireless systems, due to its various merits, e.g., ubiquity, power efficiency, no RF radiation, and security. With VLC, critical bio-medical signals, including electrocardiography (ECG), can be transmitted in places where RF radiation is restricted. This potential advantage of VLC could save more lives in emergency situations. A time hopping (TH) scheme is employed to transfer multiple medical-data streams in real time with a simple system design. Multiple data streams are transmitted using identical color LEDs and go into an optical detector. The received multiple data streams are demodulated and rearranged using a TH-based demodulator. The medical data is then monitored and managed to provide the necessary medical care for each patient.

  3. Sine-Gordon solitonic scalar stars and black holes

    NASA Astrophysics Data System (ADS)

    Franzin, Edgardo; Cadoni, Mariano; Tuveri, Matteo

    2018-06-01

    We study exact, analytic, static, spherically symmetric, four-dimensional solutions of minimally coupled Einstein-scalar gravity, sourced by a scalar field whose profile has the form of the sine-Gordon soliton. We present a horizonless, everywhere regular and positive-mass solution—a solitonic star—and a black hole. The scalar potential behaves as a constant near the origin and vanishes at infinity. In particular, the solitonic scalar star interpolates between an anti-de Sitter and an asympototically flat spacetime. The black-hole spacetime is unstable against linear perturbations, while due to numerical issues, we were not able to determine with confidence whether or not the starlike background solution is stable.

  4. Retinitis pigmentosa sine pigmenti. Debut with macular oedema.

    PubMed

    de la Mata Pérez, G; Ruiz-Moreno, O; Fernández-Pérez, S; Torrón Fernández-Blanco, C; Pablo-Júlvez, L

    2014-09-01

    A 25-year-old woman, with metamorphopsia in her left eye of one year onset. The examination revealed a bilateral cystoid macular oedema (CME) and vascular attenuation. We describe the diagnostic tests, as well as differential diagnosis and treatment response with carbonic anhydrase inhibitors. The retinitis pigmentosa sine pigment is a subtype of atypical retinitis pigmentosa characterised by the absence of pigment deposits. The night blindness is milder, and perimetric and electroretinographic impairment is lower. CME is an important cause of central vision loss, and responds to anhydrase carbonic inhibitors. Copyright © 2012 Sociedad Española de Oftalmología. Published by Elsevier Espana. All rights reserved.

  5. Influence of waveform and current direction on short-interval intracortical facilitation: a paired-pulse TMS study.

    PubMed

    Delvendahl, Igor; Lindemann, Hannes; Jung, Nikolai H; Pechmann, Astrid; Siebner, Hartwig R; Mall, Volker

    2014-01-01

    Transcranial magnetic stimulation (TMS) of the human primary motor hand area (M1-HAND) can produce multiple descending volleys in fast-conducting corticospinal neurons, especially so-called indirect waves (I-waves) resulting from trans-synaptic excitation. Facilitatory interaction between these I-waves can be studied non-invasively using a paired-pulse paradigm referred to as short-interval intracortical facilitation (SICF). We examined whether SICF depends on waveform and current direction of the TMS pulses. In young healthy volunteers, we applied single- and paired-pulse TMS to M1-HAND. We probed SICF by pairs of monophasic or half-sine pulses at suprathreshold stimulation intensity and inter-stimulus intervals (ISIs) between 1.0 and 5.0 ms. For monophasic paired-pulse stimulation, both pulses had either a posterior-anterior (PA) or anterior-posterior (AP) current direction (AP-AP or PA-PA), whereas current direction was reversed between first and second pulse for half-sine paired-pulse stimulation (PA-AP and AP-PA). Monophasic AP-AP stimulation resulted in stronger early SICF at 1.4 ms relative to late SICF at 2.8 and 4.4 ms, whereas monophasic PA-PA stimulation produced SICF of comparable size at all three peaks. With half-sine stimulation the third SICF peak was reduced for PA-AP current orientation compared with AP-PA. SICF elicited using monophasic as well as half-sine pulses is affected by current direction at clearly suprathreshold intensities. The impact of current orientation is stronger for monophasic compared with half-sine pulses. The direction-specific effect of paired-pulse TMS on the strength of early versus late SICF shows that different cortical circuits mediate early and late SICF. Copyright © 2014 Elsevier Inc. All rights reserved.

  6. Condition Assessment of Foundation Piles and Utility Poles Based on Guided Wave Propagation Using a Network of Tactile Transducers and Support Vector Machines

    PubMed Central

    Yu, Yang; Niederleithinger, Ernst; Li, Jianchun; Wiggenhauser, Herbert

    2017-01-01

    This paper presents a novel non-destructive testing and health monitoring system using a network of tactile transducers and accelerometers for the condition assessment and damage classification of foundation piles and utility poles. While in traditional pile integrity testing an impact hammer with broadband frequency excitation is typically used, the proposed testing system utilizes an innovative excitation system based on a network of tactile transducers to induce controlled narrow-band frequency stress waves. Thereby, the simultaneous excitation of multiple stress wave types and modes is avoided (or at least reduced), and targeted wave forms can be generated. The new testing system enables the testing and monitoring of foundation piles and utility poles where the top is inaccessible, making the new testing system suitable, for example, for the condition assessment of pile structures with obstructed heads and of poles with live wires. For system validation, the new system was experimentally tested on nine timber and concrete poles that were inflicted with several types of damage. The tactile transducers were excited with continuous sine wave signals of 1 kHz frequency. Support vector machines were employed together with advanced signal processing algorithms to distinguish recorded stress wave signals from pole structures with different types of damage. The results show that using fast Fourier transform signals, combined with principal component analysis as the input feature vector for support vector machine (SVM) classifiers with different kernel functions, can achieve damage classification with accuracies of 92.5% ± 7.5%. PMID:29258274

  7. Experimental observation of multiple dispersive waves emitted by multiple mid-infrared solitons in a birefringence tellurite microstuctured optical fiber.

    PubMed

    Cheng, Tonglei; Tuan, Tong Hoang; Xue, Xiaojei; Liu, Lai; Deng, Dinghuan; Suzuki, Takenobu; Ohishi, Yasutake

    2015-08-10

    We experimentally demonstrate multiple dispersive waves (DWs) emitted by multiple mid-infrared solitons in a birefringence tellurite microstuctured optical fiber (BTMOF). To the best of our knowledge, this is the first demonstration of multiple DWs in the non-silica fibers. By using a pulse of ~80 MHz and ~200 fs emitted from an optical parametric oscillator (OPO) as the pump source, DWs and solitons are investigated on the fast and slow axes of the BTMOF at the pump wavelength of ~1800 nm. With the average pump power increasing from ~200 to 450 mW, the center wavelength of the 1st DW decreases from ~956 to 890 nm, the 2nd DW from ~1039 to 997 nm, the 3rd DW from ~1101 to 1080 nm, and the 4th DW from ~1160 to 1150 nm. Meanwhile, obvious multiple soliton self-frequency shifts (SSFSs) are observed in the mid-infrared region. Furthermore, DWs and solitons at the pump wavelength of ~1400 and 2000 nm are investigated at the average pump power of ~350 mW.

  8. Role of Multiple Soliton Interactions in the Generation of Rogue Waves: The Modified Korteweg-de Vries Framework.

    PubMed

    Slunyaev, A V; Pelinovsky, E N

    2016-11-18

    The role of multiple soliton and breather interactions in the formation of very high waves is disclosed within the framework of the integrable modified Korteweg-de Vries (MKdV) equation. Optimal conditions for the focusing of many solitons are formulated explicitly. Namely, trains of ordered solitons with alternate polarities evolve to huge strongly localized transient waves. The focused wave amplitude is exactly the sum of the focusing soliton heights; the maximum wave inherits the polarity of the fastest soliton in the train. The focusing of several solitary waves or/and breathers may naturally occur in a soliton gas and will lead to rogue-wave-type dynamics; hence, it represents a new nonlinear mechanism of rogue wave generation. The discovered scenario depends crucially on the soliton polarities (phases), and is not taken into account by existing kinetic theories. The performance of the soliton mechanism of rogue wave generation is shown for the example of the focusing MKdV equation, when solitons possess "frozen" phases (certain polarities), though the approach is efficient in some other integrable systems which admit soliton and breather solutions.

  9. Role of Multiple Soliton Interactions in the Generation of Rogue Waves: The Modified Korteweg-de Vries Framework

    NASA Astrophysics Data System (ADS)

    Slunyaev, A. V.; Pelinovsky, E. N.

    2016-11-01

    The role of multiple soliton and breather interactions in the formation of very high waves is disclosed within the framework of the integrable modified Korteweg-de Vries (MKdV) equation. Optimal conditions for the focusing of many solitons are formulated explicitly. Namely, trains of ordered solitons with alternate polarities evolve to huge strongly localized transient waves. The focused wave amplitude is exactly the sum of the focusing soliton heights; the maximum wave inherits the polarity of the fastest soliton in the train. The focusing of several solitary waves or/and breathers may naturally occur in a soliton gas and will lead to rogue-wave-type dynamics; hence, it represents a new nonlinear mechanism of rogue wave generation. The discovered scenario depends crucially on the soliton polarities (phases), and is not taken into account by existing kinetic theories. The performance of the soliton mechanism of rogue wave generation is shown for the example of the focusing MKdV equation, when solitons possess "frozen" phases (certain polarities), though the approach is efficient in some other integrable systems which admit soliton and breather solutions.

  10. Seismic velocity site characterization of 10 Arizona strong-motion recording stations by spectral analysis of surface wave dispersion

    USGS Publications Warehouse

    Kayen, Robert E.; Carkin, Brad A.; Corbett, Skye C.

    2017-10-19

    Vertical one-dimensional shear wave velocity (VS) profiles are presented for strong-motion sites in Arizona for a suite of stations surrounding the Palo Verde Nuclear Generating Station. The purpose of the study is to determine the detailed site velocity profile, the average velocity in the upper 30 meters of the profile (VS30), the average velocity for the entire profile (VSZ), and the National Earthquake Hazards Reduction Program (NEHRP) site classification. The VS profiles are estimated using a non-invasive continuous-sine-wave method for gathering the dispersion characteristics of surface waves. Shear wave velocity profiles were inverted from the averaged dispersion curves using three independent methods for comparison, and the root-mean-square combined coefficient of variation (COV) of the dispersion and inversion calculations are estimated for each site.

  11. Receiver Signal to Noise Ratios for IPDA Lidars Using Sine-wave and Pulsed Laser Modulation and Direct Detections

    NASA Technical Reports Server (NTRS)

    Sun, Xiaoli; Abshire, James B.

    2011-01-01

    seeder lasers, one on-line and one offline that are intensity modulated by two different frequency sine-waves signals before being amplified by a common laser amplifier. The receiver uses narrowband amplitude demodulation, or lock-in, Signal processing at the given laser modulation frequencies [3,4]. The laser transmitter operates in a quasi CW mode with the peak power equal to twice the average power. The on-line and off-line lasers can be transmitted at the same time without interference. Another direct detection technique uses a low duty cycle pulsed laser modulation [5,6] with the laser wavelengths alternating between on-line and off-line on successive pulses. The receiver uses time resolved detection and can also provide simultaneous target range measurement. With a lower laser duty cycle it requires a much higher peak laser power for the same average power.

  12. A pulse coding and decoding strategy to perform Lamb wave inspections using simultaneously multiple actuators

    NASA Astrophysics Data System (ADS)

    De Marchi, Luca; Marzani, Alessandro; Moll, Jochen; Kudela, Paweł; Radzieński, Maciej; Ostachowicz, Wiesław

    2017-07-01

    The performance of Lamb wave based monitoring systems, both in terms of diagnosis time and data complexity, can be enhanced by increasing the number of transducers used to actuate simultaneously the guided waves in the inspected medium. However, in case of multiple simultaneously-operated actuators the interference among the excited wave modes within the acquired signals has to be considered for the further processing. To this aim, in this work a code division strategy based on the Warped Frequency Transform is presented. At first, the proposed procedure encodes actuation pulses using Gold sequences. Next, for each considered actuator the acquired signals are compensated from dispersion by cross correlating the warped version of the actuated and received signals. Compensated signals form the base for a final wavenumber imaging meant at emphasizing defects and or anomalies by removing incident wavefield and edge reflections. The proposed strategy is tested numerically, and validated through an experiment in which guided waves are actuated in a plate by four piezoelectric transducers operating simultaneously.

  13. Observations and modeling of EMIC wave properties in the presence of multiple ion species as function of magnetic local time

    NASA Astrophysics Data System (ADS)

    Lee, Justin H.; Angelopoulos, Vassilis

    2014-11-01

    Electromagnetic ion cyclotron (EMIC) wave generation and propagation in Earth's magnetosphere depend on readily measurable hot (a few to tens of keV) plasma sheet ions, elusive plasmaspheric or ionospheric cold (sub-eV to a few eV) ions, and partially heated warm ions (tens to hundreds of eV). Previous work has assumed all low-energy ions are cold and not considered possible effects of warm ions. Using measurements by multiple Time History of Events and Macroscale Interactions during Substorms spacecraft, we analyze four typical EMIC wave events in the four magnetic local time sectors and consider the properties of both cold and warm ions supplied from previous statistical studies to interpret the wave observations using linear theory. As expected, we find that dusk EMIC waves grow due to the presence of drifting hot anisotropic protons and cold plasmaspheric ions with a dominant cold proton component. Near midnight, EMIC waves are less common because warm heavy ions that suppress wave growth are more abundant there. The waves can grow when cold, plume-like density enhancements are present, however. Dawn EMIC waves, known for their peculiar properties, are generated away from the equator and change polarization during propagation through the warm plasma cloak. Noon EMIC waves can also be generated nonlocally and their properties modified during propagation by a plasmaspheric plume combined with low-energy ions from solar and terrestrial sources. Accounting for multiple ion species, measured wave dispersion, and propagation characteristics can explain previously elusive EMIC wave properties and are therefore important for future studies of EMIC wave effects on energetic particle depletion.

  14. Does homologous reinfection drive multiple-wave influenza outbreaks? Accounting for immunodynamics in epidemiological models.

    PubMed

    Camacho, A; Cazelles, B

    2013-12-01

    Epidemiological models of influenza transmission usually assume that recovered individuals instantly develop a fully protective immunity against the infecting strain. However, recent studies have highlighted host heterogeneity in the development of this immune response, characterized by delay and even absence of protection, that could lead to homologous reinfection (HR). Here, we investigate how these immunological mechanisms at the individual level shape the epidemiological dynamics at the population level. In particular, because HR was observed during the successive waves of past pandemics, we assess its role in driving multiple-wave influenza outbreaks. We develop a novel mechanistic model accounting for host heterogeneity in the immune response. Immunological parameters are inferred by fitting our dynamical model to a two-wave influenza epidemic that occurred on the remote island of Tristan da Cunha (TdC) in 1971, and during which HR occurred in 92 of 284 islanders. We then explore the dynamics predicted by our model for various population settings. We find that our model can explain HR over both short (e.g. week) and long (e.g. month) time-scales, as reported during past pandemics. In particular, our results reveal that the HR wave on TdC was a natural consequence of the exceptional contact configuration and high susceptibility of this small and isolated community. By contrast, in larger, less mixed and partially protected populations, HR alone cannot generate multiple-wave outbreaks. However, in the latter case, we find that a significant proportion of infected hosts would remain unprotected at the end of the pandemic season and should therefore benefit from vaccination. Crucially, we show that failing to account for these unprotected individuals can lead to large underestimation of the magnitude of the first post-pandemic season. These results are relevant in the context of the 2009 A/H1N1 influenza post-pandemic era. Copyright © 2013 The Authors. Published

  15. An information-theoretic approach to the gravitational-wave burst detection problem

    NASA Astrophysics Data System (ADS)

    Katsavounidis, E.; Lynch, R.; Vitale, S.; Essick, R.; Robinet, F.

    2016-03-01

    The advanced era of gravitational-wave astronomy, with data collected in part by the LIGO gravitational-wave interferometers, has begun as of fall 2015. One potential type of detectable gravitational waves is short-duration gravitational-wave bursts, whose waveforms can be difficult to predict. We present the framework for a new detection algorithm - called oLIB - that can be used in relatively low-latency to turn calibrated strain data into a detection significance statement. This pipeline consists of 1) a sine-Gaussian matched-filter trigger generator based on the Q-transform - known as Omicron -, 2) incoherent down-selection of these triggers to the most signal-like set, and 3) a fully coherent analysis of this signal-like set using the Markov chain Monte Carlo (MCMC) Bayesian evidence calculator LALInferenceBurst (LIB). We optimally extract this information by using a likelihood-ratio test (LRT) to map these search statistics into a significance statement. Using representative archival LIGO data, we show that the algorithm can detect gravitational-wave burst events of realistic strength in realistic instrumental noise with good detection efficiencies across different burst waveform morphologies. With support from the National Science Foundation under Grant PHY-0757058.

  16. L1-mediated retrotransposition of murine B1 and B2 SINEs recapitulated in cultured cells.

    PubMed

    Dewannieux, Marie; Heidmann, Thierry

    2005-06-03

    SINEs are short interspersed nucleotide elements with transpositional activity, present at a high copy number (up to a million) in mammalian genomes. They are 80-400 bp long, non-coding sequences which derive either from the 7SL RNA (e.g. human Alus, murine B1s) or tRNA (e.g. murine B2s) polymerase III-driven genes. We have previously demonstrated that Alus very efficiently divert the enzymatic machinery of the autonomous L1 LINE (long interspersed nucleotide element) retrotransposons to transpose at a high rate. Here we show, using an ex vivo assay for transposition, that both B1 and B2 SINEs can be mobilized by murine LINEs, with the hallmarks of a bona fide retrotransposition process, including target site duplications of varying lengths and integrations into A-rich sequences. Despite different phylogenetic origins, transposition of the tRNA-derived B2 sequences is as efficient as that of the human Alus, whereas that of B1s is 20-100-fold lower despite a similar high copy number of these elements in the mouse genome. We provide evidence, via an appropriate nucleotide substitution within the B1 sequence in a domain essential for its intracellular targeting, that the current B1 SINEs are not optimal for transposition, a feature most probably selected for the host sake in the course of evolution.

  17. Selective Inhibitor of Nuclear Export (SINE) Compounds Alter New World Alphavirus Capsid Localization and Reduce Viral Replication in Mammalian Cells.

    PubMed

    Lundberg, Lindsay; Pinkham, Chelsea; de la Fuente, Cynthia; Brahms, Ashwini; Shafagati, Nazly; Wagstaff, Kylie M; Jans, David A; Tamir, Sharon; Kehn-Hall, Kylene

    2016-11-01

    The capsid structural protein of the New World alphavirus, Venezuelan equine encephalitis virus (VEEV), interacts with the host nuclear transport proteins importin α/β1 and CRM1. Novel selective inhibitor of nuclear export (SINE) compounds, KPT-185, KPT-335 (verdinexor), and KPT-350, target the host's primary nuclear export protein, CRM1, in a manner similar to the archetypical inhibitor Leptomycin B. One major limitation of Leptomycin B is its irreversible binding to CRM1; which SINE compounds alleviate because they are slowly reversible. Chemically inhibiting CRM1 with these compounds enhanced capsid localization to the nucleus compared to the inactive compound KPT-301, as indicated by immunofluorescent confocal microscopy. Differences in extracellular versus intracellular viral RNA, as well as decreased capsid in cell free supernatants, indicated the inhibitors affected viral assembly, which led to a decrease in viral titers. The decrease in viral replication was confirmed using a luciferase-tagged virus and through plaque assays. SINE compounds had no effect on VEEV TC83_Cm, which encodes a mutated form of capsid that is unable to enter the nucleus. Serially passaging VEEV in the presence of KPT-185 resulted in mutations within the nuclear localization and nuclear export signals of capsid. Finally, SINE compound treatment also reduced the viral titers of the related eastern and western equine encephalitis viruses, suggesting that CRM1 maintains a common interaction with capsid proteins across the New World alphavirus genus.

  18. Exact Mass-Coupling Relation for the Homogeneous Sine-Gordon Model.

    PubMed

    Bajnok, Zoltán; Balog, János; Ito, Katsushi; Satoh, Yuji; Tóth, Gábor Zsolt

    2016-05-06

    We derive the exact mass-coupling relation of the simplest multiscale quantum integrable model, i.e., the homogeneous sine-Gordon model with two mass scales. The relation is obtained by comparing the perturbed conformal field theory description of the model valid at short distances to the large distance bootstrap description based on the model's integrability. In particular, we find a differential equation for the relation by constructing conserved tensor currents, which satisfy a generalization of the Θ sum rule Ward identity. The mass-coupling relation is written in terms of hypergeometric functions.

  19. Scattering of the double sine-Gordon kinks

    NASA Astrophysics Data System (ADS)

    Gani, Vakhid A.; Marjaneh, Aliakbar Moradi; Askari, Alidad; Belendryasova, Ekaterina; Saadatmand, Danial

    2018-04-01

    We study the scattering of kink and antikink of the double sine-Gordon model. There is a critical value of the initial velocity v_{{cr}} of the colliding kinks, which separates different regimes of the collision. At v_{in}>v_{cr} we observe kinks reflection, while at v_{in}

  20. A Mammalian Conserved Element Derived from SINE Displays Enhancer Properties Recapitulating Satb2 Expression in Early-Born Callosal Projection Neurons

    PubMed Central

    Nakanishi, Akiko; Sasaki, Takeshi; Yan, Kuo; Tarabykin, Victor; Vigier, Lisa; Sumiyama, Kenta; Hirakawa, Mika; Nishihara, Hidenori; Pierani, Alessandra; Okada, Norihiro

    2011-01-01

    Short interspersed repetitive elements (SINEs) are highly repeated sequences that account for a significant proportion of many eukaryotic genomes and are usually considered “junk DNA”. However, we previously discovered that many AmnSINE1 loci are evolutionarily conserved across mammalian genomes, suggesting that they may have acquired significant functions involved in controlling mammalian-specific traits. Notably, we identified the AS021 SINE locus, located 390 kbp upstream of Satb2. Using transgenic mice, we showed that this SINE displays specific enhancer activity in the developing cerebral cortex. The transcription factor Satb2 is expressed by cortical neurons extending axons through the corpus callosum and is a determinant of callosal versus subcortical projection. Mouse mutants reveal a crucial function for Sabt2 in corpus callosum formation. In this study, we compared the enhancer activity of the AS021 locus with Satb2 expression during telencephalic development in the mouse. First, we showed that the AS021 enhancer is specifically activated in early-born Satb2+ neurons. Second, we demonstrated that the activity of the AS021 enhancer recapitulates the expression of Satb2 at later embryonic and postnatal stages in deep-layer but not superficial-layer neurons, suggesting the possibility that the expression of Satb2 in these two subpopulations of cortical neurons is under genetically distinct transcriptional control. Third, we showed that the AS021 enhancer is activated in neurons projecting through the corpus callosum, as described for Satb2+ neurons. Notably, AS021 drives specific expression in axons crossing through the ventral (TAG1−/NPY+) portion of the corpus callosum, confirming that it is active in a subpopulation of callosal neurons. These data suggest that exaptation of the AS021 SINE locus might be involved in enhancement of Satb2 expression, leading to the establishment of interhemispheric communication via the corpus callosum, a eutherian

  1. [Short interspersed repetitive sequences (SINEs) and their use as a phylogenetic tool].

    PubMed

    Kramerov, D A; Vasetskiĭ, N S

    2009-01-01

    The data on one of the most common repetitive elements of eukaryotic genomes, short interspersed elements (SINEs), are reviewed. Their structure, origin, and functioning in the genome are discussed. The variation and abundance of these neutral genomic markers makes them a convenient and reliable tool for phylogenetic analysis. The main methods of such analysis are presented, and the potential and limitations of this approach are discussed using specific examples.

  2. Drag of two-dimensional small-amplitude symmetric and asymmetric wavy walls in turbulent boundary layers

    NASA Technical Reports Server (NTRS)

    Lin, J. C.; Walsh, M. J.; Balasubramanian, R.

    1984-01-01

    Included are results of an experimental investigation of low-speed turbulent flow over multiple two-dimensional transverse rigid wavy surfaces having a wavelength on the order of the boundary-layer thickness. Data include surface pressure and total drag measurements on symmetric and asymmetric wall waves under a low-speed turbulent boundary-layer flow. Several asymmetric wave configurations exhibited drag levels below the equivalent symmetric (sine) wave. The experimental results compare favorably with numerical predictions from a Reynolds-averaged Navier-Stokes spectral code. The reported results are of particular interest for the estimation of drag, the minimization of fabrication waviness effects, and the study of wind-wave interactions.

  3. A (2+1)-dimensional Korteweg-de Vries type equation in water waves: Lie symmetry analysis; multiple exp-function method; conservation laws

    NASA Astrophysics Data System (ADS)

    Adem, Abdullahi Rashid

    2016-05-01

    We consider a (2+1)-dimensional Korteweg-de Vries type equation which models the shallow-water waves, surface and internal waves. In the analysis, we use the Lie symmetry method and the multiple exp-function method. Furthermore, conservation laws are computed using the multiplier method.

  4. Application of RMS for damage detection by guided elastic waves

    NASA Astrophysics Data System (ADS)

    Radzieński, M.; Doliński, Ł.; Krawczuk, M.; dot Zak, A.; Ostachowicz, W.

    2011-07-01

    This paper presents certain results of an experimental study related with a damage detection in structural elements based on deviations in guided elastic wave propagation patterns. In order to excite guided elastic waves within specimens tested piezoelectric transducers have been applied. As excitation signals 5 sine cycles modulated by Hanning window have been used. Propagation of guided elastic waves has been monitored by a scanning Doppler laser vibrometer. The time signals recorded during measurement have been utilised to calculate the values of RMS. It has turned out that the values of RMS differed significantly in damaged areas from the values calculated for the healthy ones. In this way it has become possible to pinpoint precisely the locations of damage over the entire measured surface. All experimental investigations have been carried out for thin aluminium or composite plates. Damage has been simulated by a small additional mass attached on the plate surface or by a narrow notch cut. It has been shown that proposed method allows one to localise damage of various shapes and sizes within structural elements over the whole area under investigation.

  5. Method for the Direct Solve of the Many-Body Schrödinger Wave Equation

    NASA Astrophysics Data System (ADS)

    Jerke, Jonathan; Tymczak, C. J.; Poirier, Bill

    We report on theoretical and computational developments towards a computationally efficient direct solve of the many-body Schrödinger wave equation for electronic systems. This methodology relies on two recent developments pioneered by the authors: 1) the development of a Cardinal Sine basis for electronic structure calculations; and 2) the development of a highly efficient and compact representation of multidimensional functions using the Canonical tensor rank representation developed by Belykin et. al. which we have adapted to electronic structure problems. We then show several relevant examples of the utility and accuracy of this methodology, scaling with system size, and relevant convergence issues of the methodology. Method for the Direct Solve of the Many-Body Schrödinger Wave Equation.

  6. The long (LINEs) and the short (SINEs) of it: altered methylation as a precursor to toxicity.

    PubMed

    Carnell, Ammie N; Goodman, Jay I

    2003-10-01

    Although once thought of as "junk" DNA, the importance of interspersed elements in the genome has become increasingly appreciated in recent years. In a broad sense these are collectively referred to as transposable elements, which encompass both transposons and retrotransposons. The latter include long interspersed nuclear elements (LINEs) and short interspersed nuclear elements (SINEs). Expression of these elements leads to genetic instability. Therefore, it is important that they remain transcriptionally silenced, and DNA methylation plays a key role in this regard. A framework for understanding the possible interplay between altered DNA methylation, an epigenetic change, and mutational events is presented. A case is made as to how retrotransposable elements, specifically LINEs and SINEs, are likely to emerge as key players in furthering our understanding of mechanisms underlying a variety of toxicities, including carcinogenesis but not limited to this endpoint.

  7. Two-wave model of the muscle contraction.

    PubMed

    Molski, Marcin

    2009-05-01

    The Matsuno model of the muscle contraction is considered in the framework of the two-wave Corben's theory of composite objects built up of both time- and space-like components. It has been proved that during muscle contraction the locally coherent aggregates distributed along the actin filament interact by means of space-like fields, which are solutions of the relativistic Feinberg equation. The existence of such interactions and lack of decoherence are conditions sine qua non for appearance of the quantum entanglement between actin monomers in an ATP-activated filament. A possible role of a quantum potential in the muscle contraction is discussed and the mass of the carrier of space-like interactions is estimated m0' = 7.3 x 10(-32) g (46 eV).

  8. Multiple scattering and stop band characteristics of flexural waves on a thin plate with circular holes

    NASA Astrophysics Data System (ADS)

    Wang, Zuowei; Biwa, Shiro

    2018-03-01

    A numerical procedure is proposed for the multiple scattering analysis of flexural waves on a thin plate with circular holes based on the Kirchhoff plate theory. The numerical procedure utilizes the wave function expansion of the exciting as well as scattered fields, and the boundary conditions at the periphery of holes are incorporated as the relations between the expansion coefficients of exciting and scattered fields. A set of linear algebraic equations with respect to the wave expansion coefficients of the exciting field alone is established by the numerical collocation method. To demonstrate the applicability of the procedure, the stop band characteristics of flexural waves are analyzed for different arrangements and concentrations of circular holes on a steel plate. The energy transmission spectra of flexural waves are shown to capture the detailed features of the stop band formation of regular and random arrangements of holes. The increase of the concentration of holes is found to shift the dips of the energy transmission spectra toward higher frequencies as well as deepen them. The hexagonal hole arrangement can form a much broader stop band than the square hole arrangement for flexural wave transmission. It is also demonstrated that random arrangements of holes make the transmission spectrum more complicated.

  9. On resonant coupling of acoustic waves and gravity waves

    NASA Astrophysics Data System (ADS)

    Millet, Christophe

    2017-11-01

    Acoustic propagation in the atmosphere is often modeled using modes that are confined within waveguides causing the sound to propagate through multiple paths to the receiver. On the other hand, direct observations in the lower stratosphere show that the gravity wave field is intermittent, and is often dominated by rather well defined large-amplitude wave packets. In the present work, we use normal modes to describe both the gravity wave field and the acoustic field. The gravity wave spectrum is obtained by launching few monochromatic waves whose properties are chosen stochastically to mimic the intermittency. Owing to the disparity of the gravity and acoustic length scales, the interactions between the gravity wave field and each of the acoustic modes can be described using a multiple-scale analysis. The appropriate amplitude evolution equation for the acoustic field involves certain random terms that can be directly related to the gravity wave sources. We will show that the cumulative effect of gravity wave breakings makes the sensitivity of ground-based acoustic signals large, in that small changes in the gravity wave parameterization can create or destroy specific acoustic features.

  10. A three-dimensional numerical study on instability of sinusoidal flame induced by multiple shock waves

    NASA Astrophysics Data System (ADS)

    Chen, Xiao; Dong, Gang; Jiang, Hua

    2017-04-01

    The instabilities of a three-dimensional sinusoidally premixed flame induced by an incident shock wave with Mach = 1.7 and its reshock waves were studied by using the Navier-Stokes (NS) equations with a single-step chemical reaction and a high resolution, 9th-order weighted essentially non-oscillatory scheme. The computational results were validated by the grid independence test and the experimental results in the literature. The computational results show that after the passage of incident shock wave the flame interface develops in symmetric structure accompanied by large-scale transverse vortex structures. After the interactions by successive reshock waves, the flame interface is gradually destabilized and broken up, and the large-scale vortex structures are gradually transformed into small-scale vortex structures. The small-scale vortices tend to be isotropic later. The results also reveal that the evolution of the flame interface is affected by both mixing process and chemical reaction. In order to identify the relationship between the mixing and the chemical reaction, a dimensionless parameter, η , that is defined as the ratio of mixing time scale to chemical reaction time scale, is introduced. It is found that at each interaction stage the effect of chemical reaction is enhanced with time. The enhanced effect of chemical reaction at the interaction stage by incident shock wave is greater than that at the interaction stages by reshock waves. The result suggests that the parameter η can reasonably character the features of flame interface development induced by the multiple shock waves.

  11. Determinism and randomness in the evolution of introns and sine inserts in mouse and human mitochondrial solute carrier and cytokine receptor genes.

    PubMed

    Cianciulli, Antonia; Calvello, Rosa; Panaro, Maria A

    2015-04-01

    In the homologous genes studied, the exons and introns alternated in the same order in mouse and human. We studied, in both species: corresponding short segments of introns, whole corresponding introns and complete homologous genes. We considered the total number of nucleotides and the number and orientation of the SINE inserts. Comparisons of mouse and human data series showed that at the level of individual relatively short segments of intronic sequences the stochastic variability prevails in the local structuring, but at higher levels of organization a deterministic component emerges, conserved in mouse and human during the divergent evolution, despite the ample re-editing of the intronic sequences and the fact that processes such as SINE spread had taken place in an independent way in the two species. Intron conservation is negatively correlated with the SINE occupancy, suggesting that virus inserts interfere with the conservation of the sequences inherited from the common ancestor. Copyright © 2015 Elsevier Ltd. All rights reserved.

  12. The stationary sine-Gordon equation on metric graphs: Exact analytical solutions for simple topologies

    NASA Astrophysics Data System (ADS)

    Sabirov, K.; Rakhmanov, S.; Matrasulov, D.; Susanto, H.

    2018-04-01

    We consider the stationary sine-Gordon equation on metric graphs with simple topologies. Exact analytical solutions are obtained for different vertex boundary conditions. It is shown that the method can be extended for tree and other simple graph topologies. Applications of the obtained results to branched planar Josephson junctions and Josephson junctions with tricrystal boundaries are discussed.

  13. Discovering Trigonometric Relationships Implied by the Law of Sines and the Law of Cosines

    ERIC Educational Resources Information Center

    Skurnick, Ronald; Javadi, Mohammad

    2006-01-01

    The Law of Sines and The Law of Cosines are of paramount importance in the field of trigonometry because these two theorems establish relationships satisfied by the three sides and the three angles of any triangle. In this article, the authors use these two laws to discover a host of other trigonometric relationships that exist within any…

  14. Retroposition of the AFC family of SINEs (short interspersed repetitive elements) before and during the adaptive radiation of cichlid fishes in Lake Malawi and related inferences about phylogeny.

    PubMed

    Takahashi, K; Nishida, M; Yuma, M; Okada, N

    2001-01-01

    Lake Malawi is home to more than 450 species of endemic cichlids, which provide a spectacular example of adaptive radiation. To clarify the phylogenetic relationships among these fish, we examined the presence and absence of SINEs (short interspersed repetitive elements) at orthologous loci. We identified six loci at which a SINE sequence had apparently been specifically inserted by retroposition in the common ancestor of all the investigated species of endemic cichlids in Lake Malawi. At another locus, unique sharing of a SINE sequence was evident among all the investigated species of endemic non-Mbuna cichlids with the exception of Rhamphochromis sp. The relationships were in good agreement with those deduced in previous studies with various different markers, demonstrating that the SINE method is useful for the elucidation of phylogenetic relationships among cichlids in Lake Malawi. We also characterized a locus that exhibited transspecies polymorphism with respect to the presence or absence of the SINE sequence among non-Mbuna species. This result suggests that incomplete lineage sorting and/or interspecific hybridization might have occurred or be occurring among the species in this group, which might potentially cause misinterpretation of phylogenetic data, in particular when a single-locus marker, such as a sequence in the mitochondrial DNA, is used for analysis.

  15. Implementing the sine transform of fermionic modes as a tensor network

    NASA Astrophysics Data System (ADS)

    Epple, Hannes; Fries, Pascal; Hinrichsen, Haye

    2017-09-01

    Based on the algebraic theory of signal processing, we recursively decompose the discrete sine transform of the first kind (DST-I) into small orthogonal block operations. Using a diagrammatic language, we then second-quantize this decomposition to construct a tensor network implementing the DST-I for fermionic modes on a lattice. The complexity of the resulting network is shown to scale as 5/4 n logn (not considering swap gates), where n is the number of lattice sites. Our method provides a systematic approach of generalizing Ferris' spectral tensor network for nontrivial boundary conditions.

  16. Normal compression wave scattering by a permeable crack in a fluid-saturated poroelastic solid

    NASA Astrophysics Data System (ADS)

    Song, Yongjia; Hu, Hengshan; Rudnicki, John W.

    2017-04-01

    A mathematical formulation is presented for the dynamic stress intensity factor (mode I) of a finite permeable crack subjected to a time-harmonic propagating longitudinal wave in an infinite poroelastic solid. In particular, the effect of the wave-induced fluid flow due to the presence of a liquid-saturated crack on the dynamic stress intensity factor is analyzed. Fourier sine and cosine integral transforms in conjunction with Helmholtz potential theory are used to formulate the mixed boundary-value problem as dual integral equations in the frequency domain. The dual integral equations are reduced to a Fredholm integral equation of the second kind. It is found that the stress intensity factor monotonically decreases with increasing frequency, decreasing the fastest when the crack width and the slow wave wavelength are of the same order. The characteristic frequency at which the stress intensity factor decays the fastest shifts to higher frequency values when the crack width decreases.

  17. Location of high-frequency P wave microseismic noise in the Pacific Ocean using multiple small aperture arrays

    DOE PAGES

    Pyle, Moira L.; Koper, Keith D.; Euler, Garrett G.; ...

    2015-04-20

    We investigate source locations of P-wave microseisms within a narrow frequency band (0.67–1.33 Hz) that is significantly higher than the classic microseism band (~0.05–0.3 Hz). Employing a backprojection method, we analyze data recorded during January 2010 from five International Monitoring System arrays that border the Pacific Ocean. We develop a ranking scheme that allows us to combine beam power from multiple arrays to obtain robust locations of the microseisms. Some individual arrays exhibit a strong regional component, but results from the combination of all arrays show high-frequency P wave energy emanating from the North Pacific basin, in general agreement withmore » previous observations in the double-frequency (DF) microseism band (~0.1–0.3 Hz). This suggests that the North Pacific source of ambient P noise covers a broad range of frequencies and that the wave-wave interaction model is likely valid at shorter periods.« less

  18. Asymptotic behavior for systems of nonlinear wave equations with multiple propagation speeds in three space dimensions

    NASA Astrophysics Data System (ADS)

    Katayama, Soichiro

    We consider the Cauchy problem for systems of nonlinear wave equations with multiple propagation speeds in three space dimensions. Under the null condition for such systems, the global existence of small amplitude solutions is known. In this paper, we will show that the global solution is asymptotically free in the energy sense, by obtaining the asymptotic pointwise behavior of the derivatives of the solution. Nonetheless we can also show that the pointwise behavior of the solution itself may be quite different from that of the free solution. In connection with the above results, a theorem is also developed to characterize asymptotically free solutions for wave equations in arbitrary space dimensions.

  19. Mechanical waves conceptual survey: Its modification and conversion to a standard multiple-choice test

    NASA Astrophysics Data System (ADS)

    Barniol, Pablo; Zavala, Genaro

    2016-06-01

    In this article we present several modifications of the mechanical waves conceptual survey, the most important test to date that has been designed to evaluate university students' understanding of four main topics in mechanical waves: propagation, superposition, reflection, and standing waves. The most significant changes are (i) modification of several test questions that had some problems in their original design, (ii) standardization of the number of options for each question to five, (iii) conversion of the two-tier questions to multiple-choice questions, and (iv) modification of some questions to make them independent of others. To obtain a final version of the test, we administered both the original and modified versions several times to students at a large private university in Mexico. These students were completing a course that covers the topics tested by the survey. The final modified version of the test was administered to 234 students. In this study we present the modifications for each question, and discuss the reasons behind them. We also analyze the results obtained by the final modified version and offer a comparison between the original and modified versions. In the Supplemental Material we present the final modified version of the test. It can be used by teachers and researchers to assess students' understanding of, and learning about, mechanical waves.

  20. Stochastic acceleration of electrons from multiple uncorrelated plasma waves

    NASA Astrophysics Data System (ADS)

    Gee, David; Michel, Pierre; Wurtele, Jonathan

    2017-10-01

    One-dimensional theory puts a strict limit on the maximum energy attainable by an electron trapped and accelerated by an electron plasma wave (EPW). However, experimental measurements of hot electron distributions accelerated by stimulated Raman scattering (SRS) in ICF experiments typically show a thermal distribution with temperatures of the order of the kinetic energy of the resonant EPW's (Thot mvp2 , where vp is the phase velocity of the EPW's driven by SRS) and no clear cutoff at high energies. In this project, we are investigating conditions under which electrons can be stochastically accelerated by multiple uncorrelated EPW's, such as those generated by incoherent laser speckles in large laser spots like the ones used on NIF ( mm-size), and reproduce distributions similar to those observed in experiments. This work was performed under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory under Contract No. DE-AC52-07NA27344.

  1. lsjk—a C++ library for arbitrary-precision numeric evaluation of the generalized log-sine functions

    NASA Astrophysics Data System (ADS)

    Kalmykov, M. Yu.; Sheplyakov, A.

    2005-10-01

    Generalized log-sine functions Lsj(k)(θ) appear in higher order ɛ-expansion of different Feynman diagrams. We present an algorithm for the numerical evaluation of these functions for real arguments. This algorithm is implemented as a C++ library with arbitrary-precision arithmetics for integer 0⩽k⩽9 and j⩾2. Some new relations and representations of the generalized log-sine functions are given. Program summaryTitle of program:lsjk Catalogue number:ADVS Program summary URL:http://cpc.cs.qub.ac.uk/summaries/ADVS Program obtained from: CPC Program Library, Queen's University of Belfast, N. Ireland Licensing terms: GNU General Public License Computers:all Operating systems:POSIX Programming language:C++ Memory required to execute:Depending on the complexity of the problem, at least 32 MB RAM recommended No. of lines in distributed program, including testing data, etc.:41 975 No. of bytes in distributed program, including testing data, etc.:309 156 Distribution format:tar.gz Other programs called:The CLN library for arbitrary-precision arithmetics is required at version 1.1.5 or greater External files needed:none Nature of the physical problem:Numerical evaluation of the generalized log-sine functions for real argument in the region 0<θ<π. These functions appear in Feynman integrals Method of solution:Series representation for the real argument in the region 0<θ<π Restriction on the complexity of the problem:Limited up to Lsj(9)(θ), and j is an arbitrary integer number. Thus, all function up to the weight 12 in the region 0<θ<π can be evaluated. The algorithm can be extended up to higher values of k(k>9) without modification Typical running time:Depending on the complexity of problem. See text below.

  2. Numerical simulations of short-mixing-time double-wave-vector diffusion-weighting experiments with multiple concatenations on whole-body MR systems

    NASA Astrophysics Data System (ADS)

    Finsterbusch, Jürgen

    2010-12-01

    Double- or two-wave-vector diffusion-weighting experiments with short mixing times in which two diffusion-weighting periods are applied in direct succession, are a promising tool to estimate cell sizes in the living tissue. However, the underlying effect, a signal difference between parallel and antiparallel wave vector orientations, is considerably reduced for the long gradient pulses required on whole-body MR systems. Recently, it has been shown that multiple concatenations of the two wave vectors in a single acquisition can double the modulation amplitude if short gradient pulses are used. In this study, numerical simulations of such experiments were performed with parameters achievable with whole-body MR systems. It is shown that the theoretical model yields a good approximation of the signal behavior if an additional term describing free diffusion is included. More importantly, it is demonstrated that the shorter gradient pulses sufficient to achieve the desired diffusion weighting for multiple concatenations, increase the signal modulation considerably, e.g. by a factor of about five for five concatenations. Even at identical echo times, achieved by a shortened diffusion time, a moderate number of concatenations significantly improves the signal modulation. Thus, experiments on whole-body MR systems may benefit from multiple concatenations.

  3. Resonant circuit which provides dual-frequency excitation for rapid cycling of an electromagnet

    DOEpatents

    Praeg, W.F.

    1982-03-09

    Disclosed is a novel ring-magnet control circuit that permits synchrotron repetition rates much higher than the frequency of the sinusoidal guide field of the ring magnet during particle acceleration. The control circuit generates sinusoidal excitation currents of different frequencies in the half waves. During radio-frequency acceleration of the synchrotron, the control circuit operates with a lower frequency sine wave and, thereafter, the electromagnets are reset with a higher-frequency half sine wave.

  4. Gravitropism in Arabidopsis thaliana: violation of the sine- and resultant-law

    NASA Astrophysics Data System (ADS)

    Galland, Paul

    We investigated the gravitropic bending of hypocotyls and roots of seedlings of Arabidopsis tha-liana in response to long-term centrifugal accelerations in a range of 5 x 10-3 to 4 x g. The so-cal-led resultant law of gravitropism, a corollary of the so called sine law, claims that during centri-fugation a gravitropic organ aligns itself parallel to the resultant stimulus vector. We show here that neither of the two empirical “laws” is apt to describe the complex gravitropic behaviour of seedlings of Arabidopsis. Hypocotyls obey reasonably well the resultant law while roots display a complex behaviour that is clearly at variance with it. Horizontally centrifuged seedlings sense minute accelerations acting parallel to the longitudinal axis. If the centrifugal vector points to-ward the cotyledons, then the bending of hypocotyls and roots is greatly enhanced. If the centri-fugal vector points, however, toward the root tip, then only the bending of roots is enhanced by accelerations as low as 5 x 10-3 x g (positive tonic effect). The absolute gravitropic thresholds were determined for hypocotyls and roots in a clinostat-centrifuge and found to be near 1.5 x 10-2 x g. A behavioural mutant, ehb1-2 (Knauer et al. 2011), displays a lower gravitropic threshold for roots, not however, for hypocotyls. The complex gravitropic behaviour of seedlings of Arabi-dopsis is at odds with the classical sine- as well as the resultant law and can indicates the eminent role that is played by the acceleration vector operating longitudinally to the seedling axis.

  5. Real-time nondestructive evaluation of fiber composite laminates using low-frequency Lamb waves

    NASA Astrophysics Data System (ADS)

    díAz Valdés, Sergio H.; Soutis, Costas

    2002-05-01

    Amid the nondestructive evaluation techniques available for the inspection of composite materials, only a few are suitable for implementation while the component is in service. The investigation examines the application of Lamb waves at low-frequency-thickness products for the detection of delaminations in thick composite laminates. Surface-mounted piezoelectric devices were excited with a tone burst to generate elastic waves in the structure. Experiments were carried out on composite beam specimens where wave propagation distances over 2 m were achieved and artificially induced delaminations as small as 1 cm2 were successfully identified. The feasibility of employing piezoelectric devices for the development of smart structures, where a small and lightweight transducer system design is required, has been demonstrated. The resonance spectrum method, which is based on the study of spectra obtained by forced mechanical resonance of samples using sine-sweep excitation, has been proposed as a technique for measuring the Ao Lamb mode phase velocity. The finite-element method was also used to investigate qualitatively the dynamic response of laminates to wave propagation. Several locations and spatial distribution of the actuators were examined showing the advantages of using transducers arrays for the inspection of large structures.

  6. Rotational waves in geodynamics

    NASA Astrophysics Data System (ADS)

    Gerus, Artyom; Vikulin, Alexander

    2015-04-01

    The rotation model of a geoblock with intrinsic momentum was constructed by A.V. Vikulin and A.G. Ivanchin [9, 10] to describe seismicity within the Pacific Ocean margin. It is based on the idea of a rotational motion of geoblocks as the parts of the rotating body of the Earth that generates rotary deformation waves. The law of the block motion was derived in the form of the sine-Gordon equation (SG) [5, 9]; the dimensionless form of the equation is: δ2θ δ2θ δξ2 - δη2 = sinθ, (1) where θ = β/2, ξ = k0z and η = v0k0t are dimensionless coordinates, z - length of the chain of masses (blocks), t - time, β - turn angle, ν0 - representative velocity of the process, k0 - wave number. Another case analyzed was a chain of nonuniformly rotating blocks, with deviation of force moments from equilibrium positions μ, considering friction forces α along boundaries, which better matched a real-life seismic process. As a result, the authors obtained the law of motion for a block in a chain in the form of the modified SG equation [8]: δ2θ δ2θ δθ- δξ2 - δ η2 = sin θ+ α δη + μδ(ξ)sin θ (2)

  7. Investigation of the phase velocities of guided acoustic waves in soft porous layers.

    PubMed

    Boeckx, L; Leclaire, P; Khurana, P; Glorieux, C; Lauriks, W; Allard, J F

    2005-02-01

    A new experimental method for measuring the phase velocities of guided acoustic waves in soft poroelastic or poroviscoelastic plates is proposed. The method is based on the generation of standing waves in the material and on the spatial Fourier transform of the displacement profile of the upper surface. The plate is glued on a rigid substrate so that it has a free upper surface and a nonmoving lower surface. The displacement is measured with a laser Doppler vibrometer along a line corresponding to the direction of propagation of plane surface waves. A continuous sine with varying frequencies was chosen as excitation signal to maximize the precision of the measurements. The spatial Fourier transform provides the wave numbers, and the phase velocities are obtained from the relationship between wave number and frequency. The phase velocities of several guided modes could be measured in a highly porous foam saturated by air. The modes were also studied theoretically and, from the theoretical results, the experimental results, and a fitting procedure, it was possible to determine the frequency behavior of the complex shear modulus and of the complex Poisson ratio from 200 Hz to 1.4 kHz, in a frequency range higher than the traditional methods.

  8. SINEs of progress: Mobile element applications to molecular ecology.

    PubMed

    Ray, David A

    2007-01-01

    Mobile elements represent a unique and under-utilized set of tools for molecular ecologists. They are essentially homoplasy-free characters with the ability to be genotyped in a simple and efficient manner. Interpretation of the data generated using mobile elements can be simple compared to other genetic markers. They exist in a wide variety of taxa and are useful over a wide selection of temporal ranges within those taxa. Furthermore, their mode of evolution instills them with another advantage over other types of multilocus genotype data: the ability to determine loci applicable to a range of time spans in the history of a taxon. In this review, I discuss the application of mobile element markers, especially short interspersed elements (SINEs), to phylogenetic and population data, with an emphasis on potential applications to molecular ecology.

  9. Systemic Sclerosis Sine Scleroderma in Mexican Patients. Case Reports.

    PubMed

    Vera-Lastra, Olga; Sauceda-Casas, Christian Alexis; Domínguez, María Del Pilar Cruz; Alvarez, Sergio Alberto Mendoza; Sepulceda-Delgado, Jesús

    2017-01-03

    Systemic sclerosis sine scleroderma (ssSSc) is a form of systemic sclerosis that is characterized by Raynaud's phenomenon (RP), visceral involvement without thickening of skin and anticentromere antibodies (ACA). We studied 10 ssSsc patients with a prevalence of 2%. The clinical signs were: RP 9/10, esophageal manifestations 8/10, pulmonary arterial hypertension 4/10, interstitial lung disease 4/10, cardiac signs 3/10 and ACA 8/10. In patients with RP, esophageal dysmotility, interstitial lung disease and pulmonary arterial hypertension should be tested for ACA in order to establish a prompt diagnosis and treatment of ssSSc. Copyright © 2016 Elsevier España, S.L.U. and Sociedad Española de Reumatología y Colegio Mexicano de Reumatología. All rights reserved.

  10. Discrete cosine and sine transforms generalized to honeycomb lattice

    NASA Astrophysics Data System (ADS)

    Hrivnák, Jiří; Motlochová, Lenka

    2018-06-01

    The discrete cosine and sine transforms are generalized to a triangular fragment of the honeycomb lattice. The honeycomb point sets are constructed by subtracting the root lattice from the weight lattice points of the crystallographic root system A2. The two-variable orbit functions of the Weyl group of A2, discretized simultaneously on the weight and root lattices, induce a novel parametric family of extended Weyl orbit functions. The periodicity and von Neumann and Dirichlet boundary properties of the extended Weyl orbit functions are detailed. Three types of discrete complex Fourier-Weyl transforms and real-valued Hartley-Weyl transforms are described. Unitary transform matrices and interpolating behavior of the discrete transforms are exemplified. Consequences of the developed discrete transforms for transversal eigenvibrations of the mechanical graphene model are discussed.

  11. Local pulse wave velocity estimated from small vibrations measured ultrasonically at multiple points on the arterial wall

    NASA Astrophysics Data System (ADS)

    Ito, Mika; Arakawa, Mototaka; Kanai, Hiroshi

    2018-07-01

    Pulse wave velocity (PWV) is used as a diagnostic criterion for arteriosclerosis, a major cause of heart disease and cerebrovascular disease. However, there are several problems with conventional PWV measurement techniques. One is that a pulse wave is assumed to only have an incident component propagating at a constant speed from the heart to the femoral artery, and another is that PWV is only determined from a characteristic time such as the rise time of the blood pressure waveform. In this study, we noninvasively measured the velocity waveform of small vibrations at multiple points on the carotid arterial wall using ultrasound. Local PWV was determined by analyzing the phase component of the velocity waveform by the least squares method. This method allowed measurement of the time change of the PWV at approximately the arrival time of the pulse wave, which discriminates the period when the reflected component is not contaminated.

  12. Remarks on the Non-Linear Differential Equation the Second Derivative of Theta Plus A Sine Theta Equals 0.

    ERIC Educational Resources Information Center

    Fay, Temple H.; O'Neal, Elizabeth A.

    1985-01-01

    The authors draw together a variety of facts concerning a nonlinear differential equation and compare the exact solution with approximate solutions. Then they provide an expository introduction to the elliptic sine function suitable for presentation in undergraduate courses on differential equations. (MNS)

  13. A Classroom Note on Generating Examples for the Laws of Sines and Cosines from Pythagorean Triangles

    ERIC Educational Resources Information Center

    Sher, Lawrence; Sher, David

    2007-01-01

    By selecting certain special triangles, students can learn about the laws of sines and cosines without wrestling with long decimal representations or irrational numbers. Since the law of cosines requires only one of the three angles of a triangle, there are many examples of triangles with integral sides and a cosine that can be represented exactly…

  14. Numerical investigation of interactions of multiple spherical shock waves between themselves and with the underlying surface

    NASA Astrophysics Data System (ADS)

    Andrushchenko, V. A.; Murashkin, I. V.; Shevelev, Yu. D.

    2016-06-01

    Within the investigation of various aspects of asteroid and comet danger and, in particular, the explosion of several fragments of meteoroids in the atmosphere above the Earth surface, the toy problem about four point explosions in the case of their special arrangement above the underlying surface is numerically solved. Complex interactions of primary and secondary shock waves between themselves, with the hard surface, and with tangential discontinuities are examined. The structure of flow inside gas regions disturbed by the explosions—the occurrence of eddy structures in them and the influence of reflected shocks waves on them—are investigated. The tendency of the external wave fronts of each explosion to form a unified front and the tendency of their internal hot domains to merge into a joined configuration (where the second process proceeds a little later than the first one) is revealed. This unified front and joined configuration are qualitatively identical to the external internal structure for the solitary explosion. The specially arranged explosions are chosen because the effects of multiple diffraction, interference, and, the main thing, cumulation of spherical waves are manifested more clearly in this caseTwo variants with different altitude of the explosions above the surface are calculated.

  15. Multiple branches of travelling waves for the Gross–Pitaevskii equation

    NASA Astrophysics Data System (ADS)

    Chiron, David; Scheid, Claire

    2018-06-01

    Explicit solitary waves are known to exist for the Kadomtsev–Petviashvili-I (KP-I) equation in dimension 2. We first address numerically the question of their Morse index. The results confirm that the lump solitary wave has Morse index one and that the other explicit solutions correspond to excited states. We then turn to the 2D Gross–Pitaevskii (GP) equation, which in some long wave regime converges to the KP-I equation. Numerical simulations have already shown that a branch of travelling waves of GP converges to a ground state of KP-I, expected to be the lump. In this work, we perform numerical simulations showing that other explicit solitary waves solutions to the KP-I equation give rise to new branches of travelling waves of GP corresponding to excited states.

  16. Interaction of wave with a body submerged below an ice sheet with multiple arbitrarily spaced cracks

    NASA Astrophysics Data System (ADS)

    Li, Z. F.; Wu, G. X.; Ji, C. Y.

    2018-05-01

    The problem of wave interaction with a body submerged below an ice sheet with multiple arbitrarily spaced cracks is considered, based on the linearized velocity potential theory together with the boundary element method. The ice sheet is modeled as a thin elastic plate with uniform properties, and zero bending moment and shear force conditions are enforced at the cracks. The Green function satisfying all the boundary conditions including those at cracks, apart from that on the body surface, is derived and is expressed in an explicit integral form. The boundary integral equation for the velocity potential is constructed with an unknown source distribution over the body surface only. The wave/crack interaction problem without the body is first solved directly without the need for source. The convergence and comparison studies are undertaken to show the accuracy and reliability of the solution procedure. Detailed numerical results through the hydrodynamic coefficients and wave exciting forces are provided for a body submerged below double cracks and an array of cracks. Some unique features are observed, and their mechanisms are analyzed.

  17. Chronic active VZV infection manifesting as zoster sine herpete, zoster paresis and myelopathy.

    PubMed

    Morita, Y; Osaki, Y; Doi, Y; Forghani, B; Gilden, D H

    2003-08-15

    After lumbar-distribution zoster, an HTLV-1-seropositive woman developed chronic radicular sacral-distribution pain (zoster sine herpete), cervical-distribution zoster paresis and thoracic-distribution myelopathy. Detection of anti-varicella zoster virus (VZV) IgM and VZV IgG antibody in cerebrospinal fluid (CSF), with reduced serum/CSF ratios of anti-VZV IgG compared to normal serum/CSF ratios for albumin and total IgG, proved that VZV caused the protracted neurological complications. Diagnosis by antibody testing led to aggressive antiviral treatment and a favorable outcome.

  18. Fast Boundary Element Method for acoustics with the Sparse Cardinal Sine Decomposition

    NASA Astrophysics Data System (ADS)

    Alouges, François; Aussal, Matthieu; Parolin, Emile

    2017-07-01

    This paper presents the newly proposed method Sparse Cardinal Sine Decomposition that allows fast convolution on unstructured grids. We focus on its use when coupled with finite element techniques to solve acoustic problems with the (compressed) Boundary Element Method. In addition, we also compare the computational performances of two equivalent Matlab® and Python implementations of the method. We show validation test cases in order to assess the precision of the approach. Eventually, the performance of the method is illustrated by the computation of the acoustic target strength of a realistic submarine from the Benchmark Target Strength Simulation international workshop.

  19. Specific sine-Gordon soliton dynamics in the presence of external driving forces

    NASA Astrophysics Data System (ADS)

    Reinisch, Gilbert; Fernandez, Jean Claude

    1981-07-01

    We consider the acceleration of a single sine-Gordon (SG) soliton kink wave by an external time-dependent force χ(t), first without any dissipation, and then in the presence of a weak damping effect. We use the method of Fogel, Trullinger, Bishop, and Krumhansl [FTBK,

    Phys. Rev. B 45, 1578 (1977)]
    which consists in perturbing the SG equation about its kink solution and solving the resulting linear inhomogeneous equation for the perturbation function by expanding it in the complete set of eigenfunctions of the Schrödinger operator with potential 1-2 2x. Our results concerning the accelerated soliton dynamics strongly disagree with the FTBK conclusion that the soliton should undergo an acceleration proportional to χ (this is the so-called Newtonian dynamical behavior of SG soliton, which is also predicted by all existing perturbation theories dealing with the perturbed SG equation). On the contrary, we find that this Newtonian acceleration is exactly balanced by a reaction effect of the continuous phonon spectrum excited by the external force χ, upon the moving kink, so that there is no soliton acceleration at all within the frame of this linear perturbation theory, i.e., for small time values. Actually, we show by the simple example of a static external force that the acceleration of an initially static kink is a higher-order effect (proportional to χt2, where t is the time, instead of being constant and proportional to χ). We emphasize that this last result has already been checked by numerical experiments and show, both by theory and by numerical simulations, that it does not qualitatively change when a small damping effect is taken into account.

  20. Integrability: mathematical methods for studying solitary waves theory

    NASA Astrophysics Data System (ADS)

    Wazwaz, Abdul-Majid

    2014-03-01

    real features in a variety of vital areas in science, technology and engineering. In recognition of the importance of solitary waves theory and the underlying concept of integrable equations, a variety of powerful methods have been developed to carry out the required analysis. Examples of such methods which have been advanced are the inverse scattering method, the Hirota bilinear method, the simplified Hirota method, the Bäcklund transformation method, the Darboux transformation, the Pfaffian technique, the Painlevé analysis, the generalized symmetry method, the subsidiary ordinary differential equation method, the coupled amplitude-phase formulation, the sine-cosine method, the sech-tanh method, the mapping and deformation approach and many new other methods. The inverse scattering method, viewed as a nonlinear analogue of the Fourier transform method, is a powerful approach that demonstrates the existence of soliton solutions through intensive computations. At the center of the theory of integrable equations lies the bilinear forms and Hirota's direct method, which can be used to obtain soliton solutions by using exponentials. The Bäcklund transformation method is a useful invariant transformation that transforms one solution into another of a differential equation. The Darboux transformation method is a well known tool in the theory of integrable systems. It is believed that there is a connection between the Bäcklund transformation and the Darboux transformation, but it is as yet not known. Archetypes of integrable equations are the Korteweg-de Vries (KdV) equation, the modified KdV equation, the sine-Gordon equation, the Schrödinger equation, the Vakhnenko equation, the KdV6 equation, the Burgers equation, the fifth-order Lax equation and many others. These equations yield soliton solutions, multiple soliton solutions, breather solutions, quasi-periodic solutions, kink solutions, homo-clinic solutions and other solutions as well. The couplings of linear and

  1. The Influence of LINE-1 and SINE Retrotransposons on Mammalian Genomes.

    PubMed

    Richardson, Sandra R; Doucet, Aurélien J; Kopera, Huira C; Moldovan, John B; Garcia-Perez, José Luis; Moran, John V

    2015-04-01

    Transposable elements have had a profound impact on the structure and function of mammalian genomes. The retrotransposon Long INterspersed Element-1 (LINE-1 or L1), by virtue of its replicative mobilization mechanism, comprises ∼17% of the human genome. Although the vast majority of human LINE-1 sequences are inactive molecular fossils, an estimated 80-100 copies per individual retain the ability to mobilize by a process termed retrotransposition. Indeed, LINE-1 is the only active, autonomous retrotransposon in humans and its retrotransposition continues to generate both intra-individual and inter-individual genetic diversity. Here, we briefly review the types of transposable elements that reside in mammalian genomes. We will focus our discussion on LINE-1 retrotransposons and the non-autonomous Short INterspersed Elements (SINEs) that rely on the proteins encoded by LINE-1 for their mobilization. We review cases where LINE-1-mediated retrotransposition events have resulted in genetic disease and discuss how the characterization of these mutagenic insertions led to the identification of retrotransposition-competent LINE-1s in the human and mouse genomes. We then discuss how the integration of molecular genetic, biochemical, and modern genomic technologies have yielded insight into the mechanism of LINE-1 retrotransposition, the impact of LINE-1-mediated retrotransposition events on mammalian genomes, and the host cellular mechanisms that protect the genome from unabated LINE-1-mediated retrotransposition events. Throughout this review, we highlight unanswered questions in LINE-1 biology that provide exciting opportunities for future research. Clearly, much has been learned about LINE-1 and SINE biology since the publication of Mobile DNA II thirteen years ago. Future studies should continue to yield exciting discoveries about how these retrotransposons contribute to genetic diversity in mammalian genomes.

  2. New Hybridized Surface Wave Approach for Geotechnical Modeling of Shear Wave Velocity at Strong Motion Recording Stations

    NASA Astrophysics Data System (ADS)

    Kayen, R.; Carkin, B.; Minasian, D.

    2006-12-01

    Strong motion recording (SMR) networks often have little or no shear wave velocity measurements at stations where characterization of site amplification and site period effects is needed. Using the active Spectral Analysis of Surface Waves (SASW) method, and passive H/V microtremor method we have investigated nearly two hundred SMR sites in California, Alaska, Japan, Australia, China and Taiwan. We are conducting these studies, in part, to develop a new hybridized method of site characterization that utilizes a parallel array of harmonic-wave sources for active-source SASW, and a single long period seismometer for passive-source microtremor measurement. Surface wave methods excel in their ability to non-invasively and rapidly characterize the variation of ground stiffness properties with depth below the surface. These methods are lightweight, inexpensive to deploy, and time-efficient. They have been shown to produce accurate and deep soil stiffness profiles. By placing and wiring shakers in a large parallel circuit, either side-by-side on the ground or in a trailer-mounted array, a strong in-phase harmonic wave can be produced. The effect of arraying many sources in parallel is to increase the amplitude of waves received at far-away spaced seismometers at low frequencies so as to extend the longest wavelengths of the captured dispersion curve. The USGS system for profiling uses this concept by arraying between two and eight electro-mechanical harmonic-wave shakers. With large parallel arrays of vibrators, a dynamic force in excess of 1000 lb can be produced to vibrate the ground and produce surface waves. We adjust the harmonic wave through a swept-sine procedure to profile surface wave dispersion down to a frequency of 1 Hz and out to surface wave-wavelengths of 200-1000 meters, depending on the site stiffness. The parallel-array SASW procedure is augmented using H/V microtremor data collected with the active source turned off. Passive array microtremor data

  3. The Sines industrial complex monitoring programme: A preliminary report.

    PubMed

    Jones, M P; Catarino, F M; Sérgio, C; Bento-Pereira, F

    1981-06-01

    It is anticipated that the establishment of the industrial complex at Sines, Alentejo, Portugal, will have some impact on the environment. Details of the methods used in the monitoring programme are provided. Records of the epiphytic lichen vegetation in permanent quadrats have been made and changes shown in selected sites over a three year period are discussed. Material has been collected for analysis for heavy metals and the results discussed. There is considerable variation in replicates and in interspecies values. The problem of age and bio-accumulation is mentioned. Scanning electron microscopy has shown the accumulation of particulates, as yet unidentified, the quantity varying with increase in age and surface texture. A broadly based study of the local epiphytic flora is being carried out to record the present day diversity. There appears, as yet, to be no detectable influence of the industrial complex on the epiphytic flora of the permanent quadrats.

  4. Merger of Multiple Accreting Black Holes Concordant with Gravitational-wave Events

    NASA Astrophysics Data System (ADS)

    Tagawa, Hiromichi; Umemura, Masayuki

    2018-03-01

    Recently, the advanced Laser Interferometer Gravitational-Wave Observatory (aLIGO) has detected black hole (BH) merger events, most of which are sourced by BHs more massive than 30 M ⊙. Especially, the observation of GW170104 suggests dynamically assembled binaries favoring a distribution of misaligned spins. It has been argued that mergers of unassociated BHs can be engendered through a chance meeting in a multiple BH system under gas-rich environments. In this paper, we consider the merger of unassociated BHs, concordant with the massive BH merger events. To that end, we simulate a multiple BH system with a post-Newtonian N-body code incorporating gas accretion and general relativistic effects. As a result, we find that gas dynamical friction effectively promotes a three-body interaction of BHs in dense gas of n gas ≳ 106 cm‑3, so that BH mergers can take place within 30 Myr. This scenario predicts an isotropic distribution of spin tilts. In the concordant models with GW150914, the masses of seed BHs are required to be ≳25 M ⊙. The potential sites of such chance meeting BH mergers are active galactic nucleus (AGN) disks and dense interstellar clouds. Assuming the LIGO O1, we roughly estimate the event rates for PopI BHs and PopIII BHs in AGN disks to be ≃1–2 yr‑1 and ≃1 yr‑1, respectively. Multiple episodes of AGNs may enhance the rates by roughly an order of magnitude. For massive PopI BHs in dense interstellar clouds the rate is ≃0.02 yr‑1. Hence, high-density AGN disks are a more plausible site for mergers of chance meeting BHs.

  5. Evidence for a Peierls phase-transition in a three-dimensional multiple charge-density waves solid

    PubMed Central

    Mansart, Barbara; Cottet, Mathieu J. G.; Penfold, Thomas J.; Dugdale, Stephen B.; Tediosi, Riccardo; Chergui, Majed; Carbone, Fabrizio

    2012-01-01

    The effect of dimensionality on materials properties has become strikingly evident with the recent discovery of graphene. Charge ordering phenomena can be induced in one dimension by periodic distortions of a material’s crystal structure, termed Peierls ordering transition. Charge-density waves can also be induced in solids by strong coulomb repulsion between carriers, and at the extreme limit, Wigner predicted that crystallization itself can be induced in an electrons gas in free space close to the absolute zero of temperature. Similar phenomena are observed also in higher dimensions, but the microscopic description of the corresponding phase transition is often controversial, and remains an open field of research for fundamental physics. Here, we photoinduce the melting of the charge ordering in a complex three-dimensional solid and monitor the consequent charge redistribution by probing the optical response over a broad spectral range with ultrashort laser pulses. Although the photoinduced electronic temperature far exceeds the critical value, the charge-density wave is preserved until the lattice is sufficiently distorted to induce the phase transition. Combining this result with ab initio electronic structure calculations, we identified the Peierls origin of multiple charge-density waves in a three-dimensional system for the first time. PMID:22451898

  6. On the efficiency of the image encryption and decryption by using logistic-sine chaotic system and logistic-tent chaotic system

    NASA Astrophysics Data System (ADS)

    Chiun, Lee Chia; Mandangan, Arif; Daud, Muhamad Azlan; Hussin, Che Haziqah Che

    2017-04-01

    We may secure the content of text, audio, image and video during their transmission from one party to another party via an open channel such as the internet by using cryptograph. Logistic-Sine System (LSS) is a combination on two 1D chaotic maps which are Logistic Map and Sine Map. By applying the LSS into cryptography, the image encryption and decryption can be performed. This study is focusing on the performance test of the image encryption and decryption processes by using the LSS. For comparison purpose, we compare the performance of the encryption and decryption by using two different chaotic systems, which are the LSS and Logistic-Tent System (LTS). The result shows that system with LSS is less efficient than LTS in term of encryption time but both systems have similar efficiency in term of decryption time.

  7. A Non-Intrusive Pressure Sensor by Detecting Multiple Longitudinal Waves

    PubMed Central

    Zhou, Hongliang; Lin, Weibin; Ge, Xiaocheng; Zhou, Jian

    2016-01-01

    Pressure vessels are widely used in industrial fields, and some of them are safety-critical components in the system—for example, those which contain flammable or explosive material. Therefore, the pressure of these vessels becomes one of the critical measurements for operational management. In the paper, we introduce a new approach to the design of non-intrusive pressure sensors, based on ultrasonic waves. The model of this sensor is built based upon the travel-time change of the critically refracted longitudinal wave (LCR wave) and the reflected longitudinal waves with the pressure. To evaluate the model, experiments are carried out to compare the proposed model with other existing models. The results show that the proposed model can improve the accuracy compared to models based on a single wave. PMID:27527183

  8. Full-wave effects on shear wave splitting

    NASA Astrophysics Data System (ADS)

    Lin, Yu-Pin; Zhao, Li; Hung, Shu-Huei

    2014-02-01

    Seismic anisotropy in the mantle plays an important role in our understanding of the Earth's internal dynamics, and shear wave splitting has always been a key observable in the investigation of seismic anisotropy. To date the interpretation of shear wave splitting in terms of anisotropy has been largely based on ray-theoretical modeling of a single vertically incident plane SKS or SKKS wave. In this study, we use sensitivity kernels of shear wave splitting to anisotropic parameters calculated by the normal-mode theory to demonstrate that the interference of SKS with other phases of similar arrival times, near-field effect, and multiple reflections in the crust lead to significant variations of SKS splitting with epicentral distance. The full-wave kernels not only widen the possibilities in the source-receiver geometry in making shear wave splitting measurements but also provide the capability for tomographic inversion to resolve vertical and lateral variations in the anisotropic structures.

  9. Multi-Rate Digital Control Systems with Simulation Applications. Volume I. Technical Report

    DTIC Science & Technology

    1980-09-01

    108 45. A Pseudo Differentiation Configuration ........................ 110 46. Bode Plot, Pseudo Differentiation ...symbolically in Fig. 7a and for 11 x 2 in Fig. 7b. (* notation on x2is used here to indicate an "unconven- tional" sampling operation.) 115 TXi ,A! T...the general multi-rate/multiple-order open-loop system of Fig. 21 have a sine wave input. In Fig 2L, = (GIRj) (114) CT/N = [GGRt]T/N ( 115 ) where a, B

  10. Amplitude-modulated ultrasound radiation force combined with phase-sensitive optical coherence tomography for shear wave elastography

    NASA Astrophysics Data System (ADS)

    Nguyen, Thu-Mai; Song, Shaozhen; Arnal, Bastien; Wong, Emily Y.; Shen, Tueng T.; Wang, Ruikang K.; O'Donnell, Matthew

    2015-03-01

    Tissue stiffness can be measured from the propagation speed of shear waves. Acoustic radiation force (ARF) can generate shear waves by focusing ultrasound in tissue for ~100 μs. Safety considerations and electronics abilities limit ultrasound pressures. We previously presented shear wave elastography combining ARF and phase-sensitive optical coherence tomography (PhS-OCT) [1]. Here, we use amplitude-modulated ARF to enhance shear wave signal-to-noise ratio (SNR) at low pressures. Experiments were performed on tissue-mimicking phantoms. ARF was applied using a single-element transducer, driven by a 7.5 MHz, 3-ms, sine wave modulated in amplitude by a linear-swept frequency (1 to 7 kHz). Pressures between 1 to 3 MPa were tested. Displacements were tracked using PhS-OCT and numerically compressed using pulse compression methods detailed in previous work [2]. SNR was compared to that of 200-μs bursts. Stiffness maps were reconstructed using time-of-flight computations. 200-μs bursts give barely detectable displacements at 1 MPa (3.7 dB SNR). Pulse compression gives 36.2 dB at 1.5 MPa. In all cases with detectable displacements, shear wave speeds were determined in 5%-gelatin and 10%-gelatin phantoms and compared to literature values. Applicability to ocular tissues (cornea, intraocular lens) is under investigation.

  11. Nonparametric estimation of the heterogeneity of a random medium using compound Poisson process modeling of wave multiple scattering.

    PubMed

    Le Bihan, Nicolas; Margerin, Ludovic

    2009-07-01

    In this paper, we present a nonparametric method to estimate the heterogeneity of a random medium from the angular distribution of intensity of waves transmitted through a slab of random material. Our approach is based on the modeling of forward multiple scattering using compound Poisson processes on compact Lie groups. The estimation technique is validated through numerical simulations based on radiative transfer theory.

  12. Inspiratory flow pattern in humans.

    PubMed

    Lafortuna, C L; Minetti, A E; Mognoni, P

    1984-10-01

    The theoretical estimation of the mechanical work of breathing during inspiration at rest is based on the common assumption that the inspiratory airflow wave is a sine function of time. Different analytical studies have pointed out that from an energetic point of view a rectangular wave is more economical than a sine wave. Visual inspection of inspiratory flow waves recorded during exercise in humans and various animals suggests that a trend toward a rectangular flow wave may be a possible systematic response of the respiratory system. To test this hypothesis, the harmonic content of inspiratory flow waves that were recorded in six healthy subjects at rest, during exercise hyperventilation, and during a maximum voluntary ventilation (MVV) maneuver were evaluated by a Fourier analysis, and the results were compared with those obtained on sinusoidal and rectangular models. The dynamic work inherent in the experimental waves and in the sine-wave model was practically the same at rest; during exercise hyperventilation and MVV, the experimental wave was approximately 16-20% more economical than the sinusoidal one. It was concluded that even though at rest the sinusoidal model is a reasonably good approximation of inspiratory flow, during exercise and MVV, a physiological controller is probably operating in humans that can select a more economical inspiratory pattern. Other peculiarities of airflow wave during hyperventilation and some optimization criteria are also discussed.

  13. Control of myogenesis by rodent SINE-containing lncRNAs

    PubMed Central

    Wang, Jiashi; Gong, Chenguang; Maquat, Lynne E.

    2013-01-01

    Staufen1-mediated mRNA decay (SMD) degrades mRNAs that harbor a Staufen1-binding site (SBS) in their 3′ untranslated regions (UTRs). Human SBSs can form by intermolecular base-pairing between a 3′ UTR Alu element and an Alu element within a long noncoding RNA (lncRNA) called a ½-sbsRNA. Since Alu elements are confined to primates, it was unclear how SMD occurs in rodents. Here we identify mouse mRNA 3′ UTRs and lncRNAs that contain a B1, B2, B4, or identifier (ID) element. We show that SMD occurs in mouse cells via mRNA–lncRNA base-pairing of partially complementary elements and that mouse ½-sbsRNA (m½-sbsRNA)-triggered SMD regulates C2C12 cell myogenesis. Our findings define new roles for lncRNAs as well as B and ID short interspersed elements (SINEs) in mice that undoubtedly influence many developmental and homeostatic pathways. PMID:23558772

  14. A parameter estimation algorithm for spatial sine testing - Theory and evaluation

    NASA Technical Reports Server (NTRS)

    Rost, R. W.; Deblauwe, F.

    1992-01-01

    This paper presents the theory and an evaluation of a spatial sine testing parameter estimation algorithm that uses directly the measured forced mode of vibration and the measured force vector. The parameter estimation algorithm uses an ARMA model and a recursive QR algorithm is applied for data reduction. In this first evaluation, the algorithm has been applied to a frequency response matrix (which is a particular set of forced mode of vibration) using a sliding frequency window. The objective of the sliding frequency window is to execute the analysis simultaneously with the data acquisition. Since the pole values and the modal density are obtained from this analysis during the acquisition, the analysis information can be used to help determine the forcing vectors during the experimental data acquisition.

  15. A note on a boundary sine-Gordon model at the free-Fermion point

    NASA Astrophysics Data System (ADS)

    Murgan, Rajan

    2018-02-01

    We investigate the free-Fermion point of a boundary sine-Gordon model with nondiagonal boundary interactions for the ground state using auxiliary functions obtained from T  -  Q equations of a corresponding inhomogeneous open spin-\\frac{1}{2} XXZ chain with nondiagonal boundary terms. In particular, we obtain the Casimir energy. Our result for the Casimir energy is shown to agree with the result from the TBA approach. The analytical result for the effective central charge in the ultraviolet (UV) limit is also verified from the plots of effective central charge for intermediate values of volume.

  16. Optical coherence tomography detection of shear wave propagation in inhomogeneous tissue equivalent phantoms and ex-vivo carotid artery samples

    PubMed Central

    Razani, Marjan; Luk, Timothy W.H.; Mariampillai, Adrian; Siegler, Peter; Kiehl, Tim-Rasmus; Kolios, Michael C.; Yang, Victor X.D.

    2014-01-01

    In this work, we explored the potential of measuring shear wave propagation using optical coherence elastography (OCE) in an inhomogeneous phantom and carotid artery samples based on a swept-source optical coherence tomography (OCT) system. Shear waves were generated using a piezoelectric transducer transmitting sine-wave bursts of 400 μs duration, applying acoustic radiation force (ARF) to inhomogeneous phantoms and carotid artery samples, synchronized with a swept-source OCT (SS-OCT) imaging system. The phantoms were composed of gelatin and titanium dioxide whereas the carotid artery samples were embedded in gel. Differential OCT phase maps, measured with and without the ARF, detected the microscopic displacement generated by shear wave propagation in these phantoms and samples of different stiffness. We present the technique for calculating tissue mechanical properties by propagating shear waves in inhomogeneous tissue equivalent phantoms and carotid artery samples using the ARF of an ultrasound transducer, and measuring the shear wave speed and its associated properties in the different layers with OCT phase maps. This method lays the foundation for future in-vitro and in-vivo studies of mechanical property measurements of biological tissues such as vascular tissues, where normal and pathological structures may exhibit significant contrast in the shear modulus. PMID:24688822

  17. On the Mathematical Modeling of Single and Multiple Scattering of Ultrasonic Guided Waves by Small Scatterers: A Structural Health Monitoring Measurement Model

    NASA Astrophysics Data System (ADS)

    Strom, Brandon William

    In an effort to assist in the paradigm shift from schedule based maintenance to conditioned based maintenance, we derive measurement models to be used within structural health monitoring algorithms. Our models are physics based, and use scattered Lamb waves to detect and quantify pitting corrosion. After covering the basics of Lamb waves and the reciprocity theorem, we develop a technique for the scattered wave solution. The first application is two-dimensional, and is employed in two different ways. The first approach integrates a traction distribution and replaces it by an equivalent force. The second approach is higher order and uses the actual traction distribution. We find that the equivalent force version of the solution technique holds well for small pits at low frequencies. The second application is three-dimensional. The equivalent force caused by the scattered wave of an arbitrary equivalent force is calculated. We obtain functions for the scattered wave displacements as a function of equivalent forces, equivalent forces as a function of incident wave, and scattered wave amplitudes as a function of incident amplitude. The third application uses self-consistency to derive governing equations for the scattered waves due to multiple corrosion pits. We decouple the implicit set of equations and solve explicitly by using a recursive series solution. Alternatively, we solve via an undetermined coefficient method which results in an interaction operator and solution via matrix inversion. The general solution is given for N pits including mode conversion. We show that the two approaches are equivalent, and give a solution for three pits. Various approximations are advanced to simplify the problem while retaining the leading order physics. As a final application, we use the multiple scattering model to investigate resonance of Lamb waves. We begin with a one-dimensional problem and progress to a three-dimensional problem. A directed graph enables interpretation of

  18. Effects of Pump Pulsation on Hydrodynamic Properties and Dissolution Profiles in Flow-Through Dissolution Systems (USP 4).

    PubMed

    Yoshida, Hiroyuki; Kuwana, Akemi; Shibata, Hiroko; Izutsu, Ken-Ichi; Goda, Yukihiro

    2016-06-01

    To clarify the effects of pump pulsation and flow-through cell (FTC) dissolution system settings on the hydrodynamic properties and dissolution profiles of model formulations. Two FTC systems with different cell temperature control mechanisms were used. Particle image velocimetry (PIV) was used to analyze the hydrodynamic properties of test solutions in the flow-through dissolution test cell. Two pulsation pumps (semi-sine, full-sine) and a non-pulsatile pump were used to study the effects of varied flows on the dissolution profiles of United States Pharmacopeia standard tablets. PIV analysis showed periodic changes in the aligned upward fluid flow throughout the dissolution cell that was designed to reduce the temperature gradient during pump pulsation (0.5 s/pulse). The maximum instantaneous flow from the semi-sine pump was higher than that of the full-sine pump under all conditions. The flow from the semi-sine wave pump showed faster dissolution of salicylic acid and prednisone tablets than those from other pumps. The semi-sine wave pump flow showed similar dissolution profiles in the two FTC systems. Variations in instantaneous fluid flow caused by pump pulsation that meets the requirements of pharmacopoeias are a factor that affects the dissolution profiles of tablets in FTC systems.

  19. BPS Z{sub N} string tensions, sine law and Casimir scaling, and integrable field theories

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Kneipp, Marco A. C.; International Centre for Theoretical Physics

    We consider a Yang-Mills-Higgs theory with spontaneous symmetry breaking of the gauge group G{yields}U(1){sup r}{yields}C{sub G}, with C{sub G} being the center of G. We study two vacua solutions of the theory which produce this symmetry breaking. We show that for one of these vacua, the theory in the Coulomb phase has the mass spectrum of particles and monopoles which is exactly the same as the mass spectrum of particles and solitons of two-dimensional affine Toda field theory, for suitable coupling constants. That result holds also for N=4 super Yang-Mills theories. On the other hand, in the Higgs phase, wemore » show that for each of the two vacua the ratio of the tensions of the BPS Z{sub N} strings satisfy either the Casimir scaling or the sine law scaling for G=SU(N). These results are extended to other gauge groups: for the Casimir scaling, the ratios of the tensions are equal to the ratios of the quadratic Casimir constant of specific representations; for the sine law scaling, the tensions are proportional to the components of the left Perron-Frobenius eigenvector of Cartan matrix K{sub ij} and the ratios of tensions are equal to the ratios of the soliton masses of affine Toda field theories.« less

  20. High-power free-electron maser with frequency multiplication operating in a shortwave part of the millimeter wave range

    NASA Astrophysics Data System (ADS)

    Bandurkin, I. V.; Kaminsky, A. K.; Perelstein, E. A.; Peskov, N. Yu.; Savilov, A. V.; Sedykh, S. N.

    2012-08-01

    The possibility of using frequency multiplication in order to obtain high-power short-wavelength radiation from a free-electron maser (FEM) with a Bragg resonator has been studied. Preliminary experiments with an LIU-3000 (JINR) linear induction accelerator demonstrate the operation of a frequency-multiplying FEM at megawatt power in the 6- and 4-mm wave bands on the second and third harmonic, respectively.

  1. Electron transport in graphene/graphene side-contact junction by plane-wave multiple-scattering method

    DOE PAGES

    Li, Xiang-Guo; Chu, Iek-Heng; Zhang, X. -G.; ...

    2015-05-28

    Electron transport in graphene is along the sheet but junction devices are often made by stacking different sheets together in a “side-contact” geometry which causes the current to flow perpendicular to the sheets within the device. Such geometry presents a challenge to first-principles transport methods. We solve this problem by implementing a plane-wave-based multiple-scattering theory for electron transport. In this study, this implementation improves the computational efficiency over the existing plane-wave transport code, scales better for parallelization over large number of nodes, and does not require the current direction to be along a lattice axis. As a first application, wemore » calculate the tunneling current through a side-contact graphene junction formed by two separate graphene sheets with the edges overlapping each other. We find that transport properties of this junction depend strongly on the AA or AB stacking within the overlapping region as well as the vacuum gap between two graphene sheets. Finally, such transport behaviors are explained in terms of carbon orbital orientation, hybridization, and delocalization as the geometry is varied.« less

  2. Hilbertian sine as an absolute measure of Bayesian inference in ISR, homeland security, medicine, and defense

    NASA Astrophysics Data System (ADS)

    Jannson, Tomasz; Wang, Wenjian; Hodelin, Juan; Forrester, Thomas; Romanov, Volodymyr; Kostrzewski, Andrew

    2016-05-01

    In this paper, Bayesian Binary Sensing (BBS) is discussed as an effective tool for Bayesian Inference (BI) evaluation in interdisciplinary areas such as ISR (and, C3I), Homeland Security, QC, medicine, defense, and many others. In particular, Hilbertian Sine (HS) as an absolute measure of BI, is introduced, while avoiding relativity of decision threshold identification, as in the case of traditional measures of BI, related to false positives and false negatives.

  3. Effect of surface-related Rayleigh and multiple waves on velocity reconstruction with time-domain elastic FWI

    NASA Astrophysics Data System (ADS)

    Fang, Jinwei; Zhou, Hui; Zhang, Qingchen; Chen, Hanming; Wang, Ning; Sun, Pengyuan; Wang, Shucheng

    2018-01-01

    It is critically important to assess the effectiveness of elastic full waveform inversion (FWI) algorithms when FWI is applied to real land seismic data including strong surface and multiple waves related to the air-earth boundary. In this paper, we review the realization of the free surface boundary condition in staggered-grid finite-difference (FD) discretization of elastic wave equation, and analyze the impact of the free surface on FWI results. To reduce inputs/outputs (I/O) operations in gradient calculation, we adopt the boundary value reconstruction method to rebuild the source wavefields during the backward propagation of the residual data. A time-domain multiscale inversion strategy is conducted by using a convolutional objective function, and a multi-GPU parallel programming technique is used to accelerate our elastic FWI further. Forward simulation and elastic FWI examples without and with considering the free surface are shown and analyzed, respectively. Numerical results indicate that no free surface incorporated elastic FWI fails to recover a good inversion result from the Rayleigh wave contaminated observed data. By contrast, when the free surface is incorporated into FWI, the inversion results become better. We also discuss the dependency of the Rayleigh waveform incorporated FWI on the accuracy of initial models, especially the accuracy of the shallow part of the initial models.

  4. Parameter Estimation for Gravitational-wave Bursts with the BayesWave Pipeline

    NASA Technical Reports Server (NTRS)

    Becsy, Bence; Raffai, Peter; Cornish, Neil; Essick, Reed; Kanner, Jonah; Katsavounidis, Erik; Littenberg, Tyson B.; Millhouse, Margaret; Vitale, Salvatore

    2017-01-01

    We provide a comprehensive multi-aspect study of the performance of a pipeline used by the LIGO-Virgo Collaboration for estimating parameters of gravitational-wave bursts. We add simulated signals with four different morphologies (sine-Gaussians (SGs), Gaussians, white-noise bursts, and binary black hole signals) to simulated noise samples representing noise of the two Advanced LIGO detectors during their first observing run. We recover them with the BayesWave (BW) pipeline to study its accuracy in sky localization, waveform reconstruction, and estimation of model-independent waveform parameters. BW localizes sources with a level of accuracy comparable for all four morphologies, with the median separation of actual and estimated sky locations ranging from 25.1deg to30.3deg. This is a reasonable accuracy in the two-detector case, and is comparable to accuracies of other localization methods studied previously. As BW reconstructs generic transient signals with SG wavelets, it is unsurprising that BW performs best in reconstructing SG and Gaussian waveforms. The BW accuracy in waveform reconstruction increases steeply with the network signal-to-noise ratio (S/N(sub net), reaching a 85% and 95% match between the reconstructed and actual waveform below S/N(sub net) approx. = 20 and S/N(sub net) approx. = 50, respectively, for all morphologies. The BW accuracy in estimating central moments of waveforms is only limited by statistical errors in the frequency domain, and is also affected by systematic errors in the time domain as BW cannot reconstruct low-amplitude parts of signals that are overwhelmed by noise. The figures of merit we introduce can be used in future characterizations of parameter estimation pipelines.

  5. A Short Interspersed Nuclear Element (SINE)-Based Real-Time PCR Approach to Detect and Quantify Porcine Component in Meat Products.

    PubMed

    Zhang, Chi; Fang, Xin; Qiu, Haopu; Li, Ning

    2015-01-01

    Real-time PCR amplification of mitochondria gene could not be used for DNA quantification, and that of single copy DNA did not allow an ideal sensitivity. Moreover, cross-reactions among similar species were commonly observed in the published methods amplifying repetitive sequence, which hindered their further application. The purpose of this study was to establish a short interspersed nuclear element (SINE)-based real-time PCR approach having high specificity for species detection that could be used in DNA quantification. After massive screening of candidate Sus scrofa SINEs, one optimal combination of primers and probe was selected, which had no cross-reaction with other common meat species. LOD of the method was 44 fg DNA/reaction. Further, quantification tests showed this approach was practical in DNA estimation without tissue variance. Thus, this study provided a new tool for qualitative detection of porcine component, which could be promising in the QC of meat products.

  6. Single-Input and Multiple-Output Surface Acoustic Wave Sensing for Damage Quantification in Piezoelectric Sensors.

    PubMed

    Pamwani, Lavish; Habib, Anowarul; Melandsø, Frank; Ahluwalia, Balpreet Singh; Shelke, Amit

    2018-06-22

    The main aim of the paper is damage detection at the microscale in the anisotropic piezoelectric sensors using surface acoustic waves (SAWs). A novel technique based on the single input and multiple output of Rayleigh waves is proposed to detect the microscale cracks/flaws in the sensor. A convex-shaped interdigital transducer is fabricated for excitation of divergent SAWs in the sensor. An angularly shaped interdigital transducer (IDT) is fabricated at 0 degrees and ±20 degrees for sensing the convex shape evolution of SAWs. A precalibrated damage was introduced in the piezoelectric sensor material using a micro-indenter in the direction perpendicular to the pointing direction of the SAW. Damage detection algorithms based on empirical mode decomposition (EMD) and principal component analysis (PCA) are implemented to quantify the evolution of damage in piezoelectric sensor material. The evolution of the damage was quantified using a proposed condition indicator (CI) based on normalized Euclidean norm of the change in principal angles, corresponding to pristine and damaged states. The CI indicator provides a robust and accurate metric for detection and quantification of damage.

  7. Compressed Sensing mm-Wave SAR for Non-Destructive Testing Applications Using Multiple Weighted Side Information.

    PubMed

    Becquaert, Mathias; Cristofani, Edison; Van Luong, Huynh; Vandewal, Marijke; Stiens, Johan; Deligiannis, Nikos

    2018-05-31

    This work explores an innovative strategy for increasing the efficiency of compressed sensing applied on mm-wave SAR sensing using multiple weighted side information. The approach is tested on synthetic and on real non-destructive testing measurements performed on a 3D-printed object with defects while taking advantage of multiple previous SAR images of the object with different degrees of similarity. The tested algorithm attributes autonomously weights to the side information at two levels: (1) between the components inside the side information and (2) between the different side information. The reconstruction is thereby almost immune to poor quality side information while exploiting the relevant components hidden inside the added side information. The presented results prove that, in contrast to common compressed sensing, good SAR image reconstruction is achieved at subsampling rates far below the Nyquist rate. Moreover, the algorithm is shown to be much more robust for low quality side information compared to coherent background subtraction.

  8. Optical solitons to the resonance nonlinear Schrödinger equation by Sine-Gordon equation method

    NASA Astrophysics Data System (ADS)

    Inc, Mustafa; Aliyu, Aliyu Isa; Yusuf, Abdullahi; Baleanu, Dumitru

    2018-01-01

    In this paper, we examined the optical solitons to the resonant nonlinear Schrödinger equation (R-NLSE) which describes the propagation of solitons through optical fibers. Three types of nonlinear media fibers are studied. They are; quadratic-cubic law, Kerr law and parabolic law. Dark, bright, dark-bright or combined optical and singular soliton solutions are derived using the sine-Gordon equation method (SGEM). The constraint conditions that naturally fall out of the solution structure which guarantee the existence of these solitons are also reported.

  9. Multi-reflective acoustic wave device

    DOEpatents

    Andle, Jeffrey C.

    2006-02-21

    An acoustic wave device, which utilizes multiple localized reflections of acoustic wave for achieving an infinite impulse response while maintaining high tolerance for dampening effects, is disclosed. The device utilized a plurality of electromechanically significant electrodes disposed on most of the active surface. A plurality of sensors utilizing the disclosed acoustic wave mode device are also described.

  10. Nonlinear aspects of infrasonic pressure transfer into the perilymph.

    PubMed

    Krukowski, B; Carlborg, B; Densert, O

    1980-06-01

    The perilymphatic pressure was studied in response to various low frequency pressure changes in the ear canal. The pressure transfer was analysed and found to be nonlinear in many aspects. The pressure response was found to contain two time constants representing the inner ear pressure regulating mechanisms. The time constants showed an asymmetry in response to positive and negative going inputs--the effects to some extent proportional to input levels. Further nonlinearities were found when infrasonic sine waves were applied to the ear. Harmonic distortion and modulation appeared. When short bursts of infrasound were introduced a clear d.c. shift was observed as a consequence of an asymmetry in the response to positive and negative going pressure inputs. A temporary change in mean perilymphatic pressure was thus achieved and continued throughout the duration of the signal. At very low frequencies a distinct phase shift was detected in the sine waves. This appeared as a phase lead, breaking the continuity of the output sine wave.

  11. The automatic extraction of pitch perturbation using microcomputers: some methodological considerations.

    PubMed

    Deem, J F; Manning, W H; Knack, J V; Matesich, J S

    1989-09-01

    A program for the automatic extraction of jitter (PAEJ) was developed for the clinical measurement of pitch perturbations using a microcomputer. The program currently includes 12 implementations of an algorithm for marking the boundary criteria for a fundamental period of vocal fold vibration. The relative sensitivity of these extraction procedures for identifying the pitch period was compared using sine waves. Data obtained to date provide information for each procedure concerning the effects of waveform peakedness and slope, sample duration in cycles, noise level of the analysis system with both direct and tape recorded input, and the influence of interpolation. Zero crossing extraction procedures provided lower jitter values regardless of sine wave frequency or sample duration. The procedures making use of positive- or negative-going zero crossings with interpolation provided the lowest measures of jitter with the sine wave stimuli. Pilot data obtained with normal-speaking adults indicated that jitter measures varied as a function of the speaker, vowel, and sample duration.

  12. Rogue Wave Modes for the Long Wave-Short Wave Resonance and the Derivative Nonlinear Schrödinger Models

    NASA Astrophysics Data System (ADS)

    Chan, Hiu Ning; Chow, Kwok Wing; Kedziora, David Jacob; Grimshaw, Roger Hamilton James; Ding, Edwin

    2014-11-01

    Rogue waves are unexpectedly large displacements of the water surface and will obviously pose threat to maritime activities. Recently, the formation of rogue waves is correlated with the onset of modulation instabilities of plane waves of the system. The long wave-short wave resonance and the derivative nonlinear Schrödinger models are considered. They are relevant in a two-layer fluid and a fourth order perturbation expansion of free surface waves respectively. Analytical solutions of rogue wave modes for the two models are derived by the Hirota bilinear method. Properties and amplitudes of these rogue wave modes are investigated. Conditions for modulation instability of the plane waves are shown to be precisely the requirements for the occurrence of rogue waves. In contrast with the nonlinear Schrödinger equation, rogue wave modes for the derivative nonlinear Schrödinger model exist even if the dispersion and cubic nonlinearity are of the opposite signs, provided that a sufficiently strong self-steepening nonlinearity is present. Extensions to the coupled case (multiple waveguides) will be discussed. This work is partially supported by the Research Grants Council General Research Fund Contract HKU 711713E.

  13. Binding of TFIIIC to sine elements controls the relocation of activity-dependent neuronal genes to transcription factories.

    PubMed

    Crepaldi, Luca; Policarpi, Cristina; Coatti, Alessandro; Sherlock, William T; Jongbloets, Bart C; Down, Thomas A; Riccio, Antonella

    2013-01-01

    In neurons, the timely and accurate expression of genes in response to synaptic activity relies on the interplay between epigenetic modifications of histones, recruitment of regulatory proteins to chromatin and changes to nuclear structure. To identify genes and regulatory elements responsive to synaptic activation in vivo, we performed a genome-wide ChIPseq analysis of acetylated histone H3 using somatosensory cortex of mice exposed to novel enriched environmental (NEE) conditions. We discovered that Short Interspersed Elements (SINEs) located distal to promoters of activity-dependent genes became acetylated following exposure to NEE and were bound by the general transcription factor TFIIIC. Importantly, under depolarizing conditions, inducible genes relocated to transcription factories (TFs), and this event was controlled by TFIIIC. Silencing of the TFIIIC subunit Gtf3c5 in non-stimulated neurons induced uncontrolled relocation to TFs and transcription of activity-dependent genes. Remarkably, in cortical neurons, silencing of Gtf3c5 mimicked the effects of chronic depolarization, inducing a dramatic increase of both dendritic length and branching. These findings reveal a novel and essential regulatory function of both SINEs and TFIIIC in mediating gene relocation and transcription. They also suggest that TFIIIC may regulate the rearrangement of nuclear architecture, allowing the coordinated expression of activity-dependent neuronal genes.

  14. Binding of TFIIIC to SINE Elements Controls the Relocation of Activity-Dependent Neuronal Genes to Transcription Factories

    PubMed Central

    Crepaldi, Luca; Policarpi, Cristina; Coatti, Alessandro; Sherlock, William T.; Jongbloets, Bart C.; Down, Thomas A.; Riccio, Antonella

    2013-01-01

    In neurons, the timely and accurate expression of genes in response to synaptic activity relies on the interplay between epigenetic modifications of histones, recruitment of regulatory proteins to chromatin and changes to nuclear structure. To identify genes and regulatory elements responsive to synaptic activation in vivo, we performed a genome-wide ChIPseq analysis of acetylated histone H3 using somatosensory cortex of mice exposed to novel enriched environmental (NEE) conditions. We discovered that Short Interspersed Elements (SINEs) located distal to promoters of activity-dependent genes became acetylated following exposure to NEE and were bound by the general transcription factor TFIIIC. Importantly, under depolarizing conditions, inducible genes relocated to transcription factories (TFs), and this event was controlled by TFIIIC. Silencing of the TFIIIC subunit Gtf3c5 in non-stimulated neurons induced uncontrolled relocation to TFs and transcription of activity-dependent genes. Remarkably, in cortical neurons, silencing of Gtf3c5 mimicked the effects of chronic depolarization, inducing a dramatic increase of both dendritic length and branching. These findings reveal a novel and essential regulatory function of both SINEs and TFIIIC in mediating gene relocation and transcription. They also suggest that TFIIIC may regulate the rearrangement of nuclear architecture, allowing the coordinated expression of activity-dependent neuronal genes. PMID:23966877

  15. Magic year for multiple myeloma therapeutics: Key takeaways from the ASH 2015 annual meeting.

    PubMed

    Zhang, Kejie; Desai, Aakash; Zeng, Dongfeng; Gong, Tiejun; Lu, Peihua; Wang, Michael

    2017-02-07

    Despite the availability of various anticancer agents, Multiple Myeloma (MM) remains incurable in most cases, along with high relapse rate in the patients treated with these agents. The year 2015 saw major advancements in our battle against multiple myeloma. In 2015, the U.S. Food and Drug Administration (FDA) approved three new therapies for multiple myeloma, namely Ixazomib (an oral proteasome inhibitor), Daratumumab and Elotuzumab (monoclonal antibodies against CD38 and SLAMF7 respectively). The purpose of this review is to provide a detailed analysis of these aforementioned breakthrough therapies and two other newer agents, Filanesib (kinesis spindle inhibitor) and selinexor (SINE inhibitor), presented at the 2015 annual meeting of American Society of Hematology (ASH). We also describe the role of agents targeting PD-1 axis and chimeric antigen receptor T (CAR-T) cells in the treatment of MM.

  16. Binocular contrast discrimination needs monocular multiplicative noise

    PubMed Central

    Ding, Jian; Levi, Dennis M.

    2016-01-01

    The effects of signal and noise on contrast discrimination are difficult to separate because of a singularity in the signal-detection-theory model of two-alternative forced-choice contrast discrimination (Katkov, Tsodyks, & Sagi, 2006). In this article, we show that it is possible to eliminate the singularity by combining that model with a binocular combination model to fit monocular, dichoptic, and binocular contrast discrimination. We performed three experiments using identical stimuli to measure the perceived phase, perceived contrast, and contrast discrimination of a cyclopean sine wave. In the absence of a fixation point, we found a binocular advantage in contrast discrimination both at low contrasts (<4%), consistent with previous studies, and at high contrasts (≥34%), which has not been previously reported. However, control experiments showed no binocular advantage at high contrasts in the presence of a fixation point or for observers without accommodation. We evaluated two putative contrast-discrimination mechanisms: a nonlinear contrast transducer and multiplicative noise (MN). A binocular combination model (the DSKL model; Ding, Klein, & Levi, 2013b) was first fitted to both the perceived-phase and the perceived-contrast data sets, then combined with either the nonlinear contrast transducer or the MN mechanism to fit the contrast-discrimination data. We found that the best model combined the DSKL model with early MN. Model simulations showed that, after going through interocular suppression, the uncorrelated noise in the two eyes became anticorrelated, resulting in less binocular noise and therefore a binocular advantage in the discrimination task. Combining a nonlinear contrast transducer or MN with a binocular combination model (DSKL) provides a powerful method for evaluating the two putative contrast-discrimination mechanisms. PMID:26982370

  17. Binocular contrast discrimination needs monocular multiplicative noise.

    PubMed

    Ding, Jian; Levi, Dennis M

    2016-01-01

    The effects of signal and noise on contrast discrimination are difficult to separate because of a singularity in the signal-detection-theory model of two-alternative forced-choice contrast discrimination (Katkov, Tsodyks, & Sagi, 2006). In this article, we show that it is possible to eliminate the singularity by combining that model with a binocular combination model to fit monocular, dichoptic, and binocular contrast discrimination. We performed three experiments using identical stimuli to measure the perceived phase, perceived contrast, and contrast discrimination of a cyclopean sine wave. In the absence of a fixation point, we found a binocular advantage in contrast discrimination both at low contrasts (<4%), consistent with previous studies, and at high contrasts (≥34%), which has not been previously reported. However, control experiments showed no binocular advantage at high contrasts in the presence of a fixation point or for observers without accommodation. We evaluated two putative contrast-discrimination mechanisms: a nonlinear contrast transducer and multiplicative noise (MN). A binocular combination model (the DSKL model; Ding, Klein, & Levi, 2013b) was first fitted to both the perceived-phase and the perceived-contrast data sets, then combined with either the nonlinear contrast transducer or the MN mechanism to fit the contrast-discrimination data. We found that the best model combined the DSKL model with early MN. Model simulations showed that, after going through interocular suppression, the uncorrelated noise in the two eyes became anticorrelated, resulting in less binocular noise and therefore a binocular advantage in the discrimination task. Combining a nonlinear contrast transducer or MN with a binocular combination model (DSKL) provides a powerful method for evaluating the two putative contrast-discrimination mechanisms.

  18. Quantum corrections to quasi-periodic solution of Sine-Gordon model and periodic solution of phi4 model

    NASA Astrophysics Data System (ADS)

    Kwiatkowski, G.; Leble, S.

    2014-03-01

    Analytical form of quantum corrections to quasi-periodic solution of Sine-Gordon model and periodic solution of phi4 model is obtained through zeta function regularisation with account of all rest variables of a d-dimensional theory. Qualitative dependence of quantum corrections on parameters of the classical systems is also evaluated for a much broader class of potentials u(x) = b2f(bx) + C with b and C as arbitrary real constants.

  19. Gravitational wave-Gauge field oscillations

    NASA Astrophysics Data System (ADS)

    Caldwell, R. R.; Devulder, C.; Maksimova, N. A.

    2016-09-01

    Gravitational waves propagating through a stationary gauge field transform into gauge field waves and back again. When multiple families of flavor-space locked gauge fields are present, the gravitational and gauge field waves exhibit novel dynamics. At high frequencies, the system behaves like coupled oscillators in which the gravitational wave is the central pacemaker. Due to energy conservation and exchange among the oscillators, the wave amplitudes lie on a multidimensional sphere, reminiscent of neutrino flavor oscillations. This phenomenon has implications for cosmological scenarios based on flavor-space locked gauge fields.

  20. A study on single lane-change manoeuvres for determining rearward amplification of multi-trailer articulated heavy vehicles with active trailer steering systems

    NASA Astrophysics Data System (ADS)

    Wang, Qiushi; He, Yuping

    2016-01-01

    The Society of Automotive Engineers issued a test procedure, SAE-J2179, to determine the rearward amplification (RA) of multi-trailer articulated heavy vehicles (MTAHVs). Built upon the procedure, the International Organization for Standardization released the test manoeuvres, ISO-14791, for evaluating directional performance of MTAHVs. For the RA measures, ISO-14791 recommends two single lane-change manoeuvres: (1) an open-loop procedure with a single sine-wave steering input; and (2) a closed-loop manoeuvre with a single sine-wave lateral acceleration input. For an articulated vehicle with active trailer steering (ATS), the RA measure in lateral acceleration under the open-loop manoeuvre was not in good agreement with that under the closed-loop manoeuvre. This observation motivates the research on the applicability of the two manoeuvres for the RA measures of MTAHVs with ATS. It is reported that transient response under the open-loop manoeuvre often leads to asymmetric curve of tractor lateral acceleration [Winkler CB, Fancher PS, Bareket Z, Bogard S, Johnson G, Karamihas S, Mink C. Heavy vehicle size and weight - test procedures for minimum safety performance standards. Final technical report, NHTSA, US DOT, contract DTNH22-87-D-17174, University of Michigan Transportation Research Institute, Report No. UMTRI-92-13; 1992]. To explore the effect of the transient response, a multiple cycle sine-wave steering input (MCSSI) manoeuvre is proposed. Simulation demonstrates that the steady-state RA measures of an MTAHV with and without ATS under the MCSSI manoeuvre are in excellent agreement with those under the closed-loop manoeuvre. It is indicated that between the two manoeuvres by ISO-14791, the closed-loop manoeuvre is more applicable for determining the RA measures of MTAHVs with ATS.

  1. (RTO) Characterization of the Time-dependent Behaviour of Dielectric Barrier Discharge Plasma Actuators

    DTIC Science & Technology

    2014-06-19

    excited by a sine -wave signal with peak- to-peak amplitudes between 7.2 kV and 10 kV, and frequencies of 2.5 kHz and 4 kHz. The results indicate that the...side length of 0.68 m, made of transparent PMMA, to isolate it from ambient disturbances. The plasma actuator was excited by a sine -wave signal, which... Portugal , 2008. 6Hanson, R., Houser, N., and Lavoie, P., “Dielectric material degradation monitoring of dielectric barrier discharge plasma actuators

  2. Rayleigh Wave and Shear Wave Tomography of Northeastern China: Results Coconstrained by Multiple Datasets

    NASA Astrophysics Data System (ADS)

    Zhou, T.; Chen, J.; Han, J.; Tian, Y.; Wu, M.; Yang, Y.; Ning, J.

    2014-12-01

    We investigate crustal and upper mantle phase velocity structures beneath NorthEastern China (NEC, 40°-54°N, 112°-135°E), a tectonically active region with continental volcanicity divided by active faults. Rayleigh wave phase velocity is obtained respectively by Ambient Noise Method (ANM, Lin et al., GJI, 2009), Two Station Method (TSM, Meier et al., GJI, 2004) and Two Plane Wave Method (TPWM, Yang and Forsyth, JGR, 2005), assuring good frequency coverage. Two-year' events with magnitude Ms>5.5 and epicentral distance Δ>30°recorded by NECESSArray and some permanent stations of CEA are together used in TPWM and TSM, while 1 s continuous seismic observations in the same period are employed in ANM. The period of Rayleigh wave phase velocity spans from 6 s to 150 s, i.e., from 6 s to 30 s (ANM); 30 s to 100 s (TPWM) and 30 s to 150 s (TSM). Shear wave velocity structure of the research region is obtained by Weighted Least Squares Inversion, in which the weight is adopted as function of data quality. Our results not only display close relation with tectonics of this region, such as mountains, sedimentary basins, faults, but also reveal variation feature of crustal thickness. Moreover, our results clearly show that all volcanos in this region have their roots — low velocity zones, among them the roots of Changbai, Jingbohu, Wudalianchi are obviously connected, while the biggest one of Daxinganling is separated. This feature might be result of an early intense eruption in western NEC and a late weak one in eastern NEC.

  3. Instrument to synchronize Thomson scattering diagnostic measurements with MHD acitivity in a tokamak

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Wintenberg, A.L.

    1985-04-01

    An instrument to synchronize the firing of a ruby laser for a Thomson scattering diagnostic with plasma oscillations was designed, developed, and evaluated. The instrument will fire the laser at a user-selected phase of an input sine or sawtooth wave with an accuracy of +-15/sup 0/. Allowable frequencies range from 20 to 500 Hz for a sawtooth and from 1 to 30 kHz for a sine wave. The instrument also allows synchronization with a sine wave to be enabled by a preselected sawtooth phase. The instrument uses analog signal processing circuits to separate the signal components, remove unwanted components, andmore » produce zero-phase synchronization pulses. The instrument measures the period between zero-phase pulses in order to produce phase synchronization pulses delayed a fraction of the period from the zero-phase pulses. The laser is fired by the phase synchronization pulse. Unwanted signal components are attenuated by bandpass filters. A digitally controlled self-adjusting bandpass filter for sine processing. The instrument was used to investigate the variation of the electron temperature profile with the phase of the x-ray signal from an Impurity Studies Experiment (ISX-B) plasma exhibiting magnetohydrodynamic (MHD) activity.« less

  4. Extracorporeal shock wave therapy for injection site panniculitis in multiple sclerosis patients.

    PubMed

    Stieger, Marco; Schmid, Jean-Paul; Yawalkar, Nikhil; Hunziker, Thomas

    2015-01-01

    Painful cutaneous injection site reactions may hamper treatment with interferon β (IFN-β) and glatiramer acetate (GA) in multiple sclerosis (MS) patients. To maintain therapy adherence, efficient therapeutic modalities for these subcutaneous inflammatory lesions are urgently needed. We tested the application of local extracorporeal shock wave therapy (ESWT). We applied 5 sessions of ESWT to 8 patients suffering from MS who had developed painful panniculitis at the injection sites of either IFN-β or GA. Clinical outcomes, i.e. pain reduction and regression of induration, were assessed 3 and 6 months after completion of the ESWT using a visual analogue score. All patients showed both significant pain reduction and reduction of the skin induration in the treated lesions, while in untreated control lesions there was no improvement. ESWT proved to be a non-invasive, safe and efficient physical treatment modality for injection-induced painful cutaneous side effects of disease-modifying drugs in MS. © 2014 S. Karger AG, Basel.

  5. Coherent Waves in Seismic Researches

    NASA Astrophysics Data System (ADS)

    Emanov, A.; Seleznev, V. S.

    2013-05-01

    Development of digital processing algorithms of seismic wave fields for the purpose of useful event picking to study environment and other objects is the basis for the establishment of new seismic techniques. In the submitted paper a fundamental property of seismic wave field coherence is used. The authors extended conception of coherence types of observed wave fields and devised a technique of coherent component selection from observed wave field. Time coherence and space coherence are widely known. In this paper conception "parameter coherence" has been added. The parameter by which wave field is coherent can be the most manifold. The reason is that the wave field is a multivariate process described by a set of parameters. Coherence in the first place means independence of linear connection in wave field of parameter. In seismic wave fields, recorded in confined space, in building-blocks and stratified mediums time coherent standing waves are formed. In prospecting seismology at observation systems with multiple overlapping head waves are coherent by parallel correlation course or, in other words, by one measurement on generalized plane of observation system. For detail prospecting seismology at observation systems with multiple overlapping on basis of coherence property by one measurement of area algorithms have been developed, permitting seismic records to be converted to head wave time sections which have neither reflected nor other types of waves. Conversion in time section is executed on any specified observation base. Energy storage of head waves relative to noise on basis of multiplicity of observation system is realized within area of head wave recording. Conversion on base below the area of wave tracking is performed with lack of signal/noise ratio relative to maximum of this ratio, fit to observation system. Construction of head wave time section and dynamic plots a basis of automatic processing have been developed, similar to CDP procedure in method of

  6. High cleanliness globe valve with sine mechanism drive

    NASA Astrophysics Data System (ADS)

    Luo, Hu

    2018-06-01

    This paper gives a new type of quick-opening globe valve for life support pneumatic control system of the safety cabin at underground coal mine. The valve adopts the sine mechanism to transmit the rotating of the handle in the range of 90° to the reciprocating motion of the spool. The mechanism implements the quick-opening function of the valve through controlling the contact and separation between the O-ring and the end face of the valve. Since there is no relative sliding between the sealing interfaces, the valve solute uncontrollable disadvantage wear particles which produced by package ball valve, to ensure high cleanliness in flow path. Traditional transmission mechanism has a reinforcement effect and reduce handle open torque. By the finite element method, the relationship between the contact force and the compression of O-ring is analyzed to provide the boundary condition for the calculation of the rotational torque. Meanwhile the velocity field and pressure field along the flow path are simulated. The caliber size of the valve and the flow resistance coefficient are obtained. There is higher cleanliness, more reliable sealing, smaller handle open torque advantage compared with existing packing ball valve. The above work presents a new technical approach for the design of pneumatic control valve of the safety cabin.

  7. Micro-Doppler analysis of multiple frequency continuous wave radar signatures

    NASA Astrophysics Data System (ADS)

    Anderson, Michael G.; Rogers, Robert L.

    2007-04-01

    Micro-Doppler refers to Doppler scattering returns produced by non rigid-body motion. Micro-Doppler gives rise to many detailed radar image features in addition to those associated with bulk target motion. Targets of different classes (for example, humans, animals, and vehicles) produce micro-Doppler images that are often distinguishable even by nonexpert observers. Micro-Doppler features have great potential for use in automatic target classification algorithms. Although the potential benefit of using micro-Doppler in classification algorithms is high, relatively little experimental (non-synthetic) micro-Doppler data exists. Much of the existing experimental data comes from highly cooperative targets (human or vehicle targets directly approaching the radar). This research involved field data collection and analysis of micro-Doppler radar signatures from non-cooperative targets. The data was collected using a low cost Xband multiple frequency continuous wave (MFCW) radar with three transmit frequencies. The collected MFCW radar signatures contain data from humans, vehicles, and animals. The presented data includes micro-Doppler signatures previously unavailable in the literature such as crawling humans and various animal species. The animal micro-Doppler signatures include deer, dog, and goat datasets. This research focuses on the analysis of micro-Doppler from noncooperative targets approaching the radar at various angles, maneuvers, and postures.

  8. Interplanetary shocks, Plasma waves and turbulence, Kinetic waves and instabilities, STEREO spacecraft

    NASA Astrophysics Data System (ADS)

    Cohen, Z.; Breneman, A. W.; Cattell, C. A.; Davis, L.; Grul, P.; Kersten, K.; Wilson, L. B., III

    2017-12-01

    Determining the role of plasma waves in providing energy dissipation at shock waves is of long-standing interest. Interplanetary (IP) shocks serve as a large database of low Mach number shocks. We examine electric field waveforms captured by the Time Domain Sampler (TDS) on the STEREO spacecraft during the ramps of IP shocks, with emphasis on captures lasting 2.1 seconds. Previous work has used captures of shorter duration (66 and 131 ms on STEREO, and 17 ms on WIND), which allowed for observation of waves with maximum (minimum) frequencies of 125 kHz (15 Hz), 62.5 kHz (8 Hz), and 60 kHz (59 Hz), respectively. The maximum frequencies are comparable to 2-8 times the plasma frequency in the solar wind, enabling observation of Langmuir waves, ion acoustic, and some whistler-mode waves. The 2 second captures resolve lower frequencies ( few Hz), which allows us to analyze packet structure of the whistler-mode waves and some ion acoustic waves. The longer capture time also improves the resolvability of simultaneous wave modes and of waves with frequencies on the order of 10s of Hz. Langmuir waves, however, cannot be identified at this sampling rate, since the plasma frequency is usually higher than 3.9 kHz. IP shocks are identified from multiple databases (Helsinki heliospheric shock database at http://ipshocks.fi, and the STEREO level 3 shock database at ftp://stereoftp.nascom.nasa.gov/pub/ins_data/impact/level3/). Our analysis focuses on TDS captures in shock ramp regions, with ramp durations determined from magnetic field data taken at 8 Hz. Software is used to identify multiple wave modes in any given capture and classify waves as Langmuir, ion acoustic, whistler, lower hybrid, electron cyclotron drift instability, or electrostatic solitary waves. Relevant frequencies are determined from density and magnetic field data collected in situ. Preliminary results suggest that large amplitude (∼ 5 mV/m) ion acoustic waves are most prevalent in the ramp, in agreement with

  9. Resonant generation of internal waves on the soft sea bed by a surface water wave

    NASA Astrophysics Data System (ADS)

    Wen, Feng

    1995-08-01

    The nonlinear response of an initially flat sea bed to a monochromatic surface progressive wave was studied using the multiple scale perturbation method. Two opposite-traveling subliminal internal ``mud'' waves are selectively excited and form a resonant triad with the surface wave. The amplitudes of the internal waves grow on a time scale much longer than the period of the surface wave. It was found that the sea bed response is critically dependent on the density ratio of water and soil, depth of water, and depth and viscosity of the saturated soil. The result of instability analysis is in qualitative agreement with the result of a wave flume experiment.

  10. Study of Wave-Particle Interactions for Whistler Mode Waves at Oblique Angles by Utilizing the Gyroaveraging Method

    NASA Astrophysics Data System (ADS)

    Hsieh, Yi-Kai; Omura, Yoshiharu

    2017-10-01

    We investigate the properties of whistler mode wave-particle interactions at oblique wave normal angles to the background magnetic field. We find that electromagnetic energy of waves at frequencies below half the electron cyclotron frequency can flow nearly parallel to the ambient magnetic field. We thereby confirm that the gyroaveraging method, which averages the cyclotron motion to the gyrocenter and reduces the simulation from two-dimensional to one-dimensional, is valid for oblique wave-particle interaction. Multiple resonances appear for oblique propagation but not for parallel propagation. We calculate the possible range of resonances with the first-order resonance condition as a function of electron kinetic energy and equatorial pitch angle. To reveal the physical process and the efficiency of electron acceleration by multiple resonances, we assume a simple uniform wave model with constant amplitude and frequency in space and time. We perform test particle simulations with electrons starting at specific equatorial pitch angles and kinetic energies. The simulation results show that multiple resonances contribute to acceleration and pitch angle scattering of energetic electrons. Especially, we find that electrons with energies of a few hundred keV can be accelerated efficiently to a few MeV through the n = 0 Landau resonance.

  11. Sine-squared shifted pulses for recoupling interactions in solid-state NMR

    NASA Astrophysics Data System (ADS)

    Jain, Mukul G.; Rajalakshmi, G.; Equbal, Asif; Mote, Kaustubh R.; Agarwal, Vipin; Madhu, P. K.

    2017-06-01

    Rotational-Echo DOuble-Resonance (REDOR) is a versatile experiment for measuring internuclear distance between two heteronuclear spins in solid-state NMR. At slow to intermediate magic-angle spinning (MAS) frequencies, the measurement of distances between strongly coupled spins is challenging due to rapid dephasing of magnetisation. This problem can be remedied by employing the pulse-shifted version of REDOR known as Shifted-REDOR (S-REDOR) that scales down the recoupled dipolar coupling. In this study, we propose a new variant of the REDOR sequence where the positions of the π pulses are determined by a sine-squared function. This new variant has scaling properties similar to S-REDOR. We use theory, numerical simulations, and experiments to compare the dipolar recoupling efficiencies and the experimental robustness of the three REDOR schemes. The proposed variant has advantages in terms of radiofrequency field requirements at fast MAS frequencies.

  12. Non-invasive prediction of catheter ablation outcome in persistent atrial fibrillation by fibrillatory wave amplitude computation in multiple electrocardiogram leads.

    PubMed

    Zarzoso, Vicente; Latcu, Decebal G; Hidalgo-Muñoz, Antonio R; Meo, Marianna; Meste, Olivier; Popescu, Irina; Saoudi, Nadir

    2016-12-01

    Catheter ablation (CA) of persistent atrial fibrillation (AF) is challenging, and reported results are capable of improvement. A better patient selection for the procedure could enhance its success rate while avoiding the risks associated with ablation, especially for patients with low odds of favorable outcome. CA outcome can be predicted non-invasively by atrial fibrillatory wave (f-wave) amplitude, but previous works focused mostly on manual measures in single electrocardiogram (ECG) leads only. To assess the long-term prediction ability of f-wave amplitude when computed in multiple ECG leads. Sixty-two patients with persistent AF (52 men; mean age 61.5±10.4years) referred for CA were enrolled. A standard 1-minute 12-lead ECG was acquired before the ablation procedure for each patient. F-wave amplitudes in different ECG leads were computed by a non-invasive signal processing algorithm, and combined into a mutivariate prediction model based on logistic regression. During an average follow-up of 13.9±8.3months, 47 patients had no AF recurrence after ablation. A lead selection approach relying on the Wald index pointed to I, V1, V2 and V5 as the most relevant ECG leads to predict jointly CA outcome using f-wave amplitudes, reaching an area under the curve of 0.854, and improving on single-lead amplitude-based predictors. Analysing the f-wave amplitude in several ECG leads simultaneously can significantly improve CA long-term outcome prediction in persistent AF compared with predictors based on single-lead measures. Copyright © 2016 Elsevier Masson SAS. All rights reserved.

  13. Low-frequency sine wave hard-limiting technique

    NASA Technical Reports Server (NTRS)

    Anderson, T. O.

    1977-01-01

    Circuit includes serial-in/parallel-out shift register and weighting network that are used to eliminate effects of noise and other nonrepetitive circuit transients. Register and weighting network average decisions from section of signal where decisions are more dependable or where differences between two consecutive samples are larger.

  14. Comparison of Modeling Methods to Determine Liver-to-blood Inocula and Parasite Multiplication Rates During Controlled Human Malaria Infection

    PubMed Central

    Douglas, Alexander D.; Edwards, Nick J.; Duncan, Christopher J. A.; Thompson, Fiona M.; Sheehy, Susanne H.; O'Hara, Geraldine A.; Anagnostou, Nicholas; Walther, Michael; Webster, Daniel P.; Dunachie, Susanna J.; Porter, David W.; Andrews, Laura; Gilbert, Sarah C.; Draper, Simon J.; Hill, Adrian V. S.; Bejon, Philip

    2013-01-01

    Controlled human malaria infection is used to measure efficacy of candidate malaria vaccines before field studies are undertaken. Mathematical modeling using data from quantitative polymerase chain reaction (qPCR) parasitemia monitoring can discriminate between vaccine effects on the parasite's liver and blood stages. Uncertainty regarding the most appropriate modeling method hinders interpretation of such trials. We used qPCR data from 267 Plasmodium falciparum infections to compare linear, sine-wave, and normal-cumulative-density-function models. We find that the parameters estimated by these models are closely correlated, and their predictive accuracy for omitted data points was similar. We propose that future studies include the linear model. PMID:23570846

  15. Shear Wave Velocity and Site Amplification Factors for 25 Strong-Motion Instrument Stations Affected by the M5.8 Mineral, Virginia, Earthquake of August 23, 2011

    USGS Publications Warehouse

    Kayen, Robert E.; Carkin, Brad A.; Corbett, Skye C.; Zangwill, Aliza; Estevez, Ivan; Lai, Lena

    2015-01-01

    Vertical one-dimensional shear wave velocity (Vs) profiles are presented for 25 strong-motion instrument sites along the Mid-Atlantic eastern seaboard, Piedmont region, and Appalachian region, which surround the epicenter of the M5.8 Mineral, Virginia, Earthquake of August 23, 2011. Testing was performed at sites in Pennsylvania, Maryland, West Virginia, Virginia, the District of Columbia, North Carolina, and Tennessee. The purpose of the study is to determine the detailed site velocity profile, the average velocity in the upper 30 meters of the profile (VS,30), the average velocity for the entire profile (VS,Z), and the National Earthquake Hazards Reduction Program (NEHRP) site classification. The Vs profiles are estimated using a non-invasive continuous-sine-wave method for gathering the dispersion characteristics of surface waves. A large trailer-mounted active source was used to shake the ground during the testing and produce the surface waves. Shear wave velocity profiles were inverted from the averaged dispersion curves using three independent methods for comparison, and the root-mean square combined coefficient of variation (COV) of the dispersion and inversion calculations are estimated for each site.

  16. The Capacity Gain of Orbital Angular Momentum Based Multiple-Input-Multiple-Output System

    PubMed Central

    Zhang, Zhuofan; Zheng, Shilie; Chen, Yiling; Jin, Xiaofeng; Chi, Hao; Zhang, Xianmin

    2016-01-01

    Wireless communication using electromagnetic wave carrying orbital angular momentum (OAM) has attracted increasing interest in recent years, and its potential to increase channel capacity has been explored widely. In this paper, we compare the technique of using uniform linear array consist of circular traveling-wave OAM antennas for multiplexing with the conventional multiple-in-multiple-out (MIMO) communication method, and numerical results show that the OAM based MIMO system can increase channel capacity while communication distance is long enough. An equivalent model is proposed to illustrate that the OAM multiplexing system is equivalent to a conventional MIMO system with a larger element spacing, which means OAM waves could decrease the spatial correlation of MIMO channel. In addition, the effects of some system parameters, such as OAM state interval and element spacing, on the capacity advantage of OAM based MIMO are also investigated. Our results reveal that OAM waves are complementary with MIMO method. OAM waves multiplexing is suitable for long-distance line-of-sight (LoS) communications or communications in open area where the multi-path effect is weak and can be used in massive MIMO systems as well. PMID:27146453

  17. Nonlinear modeling of wave-topography interactions, shear instabilities and shear induced wave breaking using vortex method

    NASA Astrophysics Data System (ADS)

    Guha, Anirban

    2017-11-01

    Theoretical studies on linear shear instabilities as well as different kinds of wave interactions often use simple velocity and/or density profiles (e.g. constant, piecewise) for obtaining good qualitative and quantitative predictions of the initial disturbances. Moreover, such simple profiles provide a minimal model to obtain a mechanistic understanding of shear instabilities. Here we have extended this minimal paradigm into nonlinear domain using vortex method. Making use of unsteady Bernoulli's equation in presence of linear shear, and extending Birkhoff-Rott equation to multiple interfaces, we have numerically simulated the interaction between multiple fully nonlinear waves. This methodology is quite general, and has allowed us to simulate diverse problems that can be essentially reduced to the minimal system with interacting waves, e.g. spilling and plunging breakers, stratified shear instabilities (Holmboe, Taylor-Caulfield, stratified Rayleigh), jet flows, and even wave-topography interaction problem like Bragg resonance. We found that the minimal models capture key nonlinear features (e.g. wave breaking features like cusp formation and roll-ups) which are observed in experiments and/or extensive simulations with smooth, realistic profiles.

  18. "Wave" signal-smoothing and mercury-removing device for laser ablation quadrupole and multiple collector ICPMS analysis: application to lead isotope analysis.

    PubMed

    Hu, Zhaochu; Zhang, Wen; Liu, Yongsheng; Gao, Shan; Li, Ming; Zong, Keqing; Chen, Haihong; Hu, Shenghong

    2015-01-20

    A novel "wave" signal-smoothing and mercury-removing device has been developed for laser ablation quadrupole and multiple collector ICPMS analysis. With the wave stabilizer that has been developed, the signal stability was improved by a factor of 6.6-10 and no oscillation of the signal intensity was observed at a repetition rate of 1 Hz. Another advantage of the wave stabilizer is that the signal decay time is similar to that without the signal-smoothing device (increased by only 1-2 s for a signal decay of approximately 4 orders of magnitude). Most of the normalized elemental signals (relative to those without the stabilizer) lie within the range of 0.95-1.0 with the wave stabilizer. Thus, the wave stabilizer device does not significantly affect the aerosol transport efficiency. These findings indicate that this device is well-suited for routine optimization of ICPMS, as well as low repetition rate laser ablation analysis, which provides smaller elemental fractionation and better spatial resolution. With the wave signal-smoothing and mercury-removing device, the mercury gas background is reduced by 1 order of magnitude. More importantly, the (202)Hg signal intensity produced in the sulfide standard MASS-1 by laser ablation is reduced from 256 to 0.7 mV by the use of the wave signal-smoothing and mercury-removing device. This result suggests that the mercury is almost completely removed from the sample aerosol particles produced by laser ablation with the operation of the wave mercury-removing device. The wave mercury-removing device that we have designed is very important for Pb isotope ratio and accessory mineral U-Pb dating analysis, where removal of the mercury from the background gas and sample aerosol particles is highly desired. The wave signal-smoothing and mercury-removing device was applied successfully to the determination of the (206)Pb/(204)Pb isotope ratio in samples with low Pb content and/or high Hg content.

  19. Pulse-spreading harmonic complex as an alternative carrier for vocoder simulations of cochlear implants.

    PubMed

    Mesnildrey, Quentin; Hilkhuysen, Gaston; Macherey, Olivier

    2016-02-01

    Noise- and sine-carrier vocoders are often used to acoustically simulate the information transmitted by a cochlear implant (CI). However, sine-waves fail to mimic the broad spread of excitation produced by a CI and noise-bands contain intrinsic modulations that are absent in CIs. The present study proposes pulse-spreading harmonic complexes (PSHCs) as an alternative acoustic carrier in vocoders. Sentence-in-noise recognition was measured in 12 normal-hearing subjects for noise-, sine-, and PSHC-vocoders. Consistent with the amount of intrinsic modulations present in each vocoder condition, the average speech reception threshold obtained with the PSHC-vocoder was higher than with sine-vocoding but lower than with noise-vocoding.

  20. Classification of homoclinic rogue wave solutions of the nonlinear Schrödinger equation

    NASA Astrophysics Data System (ADS)

    Osborne, A. R.

    2014-01-01

    Certain homoclinic solutions of the nonlinear Schrödinger (NLS) equation, with spatially periodic boundary conditions, are the most common unstable wave packets associated with the phenomenon of oceanic rogue waves. Indeed the homoclinic solutions due to Akhmediev, Peregrine and Kuznetsov-Ma are almost exclusively used in scientific and engineering applications. Herein I investigate an infinite number of other homoclinic solutions of NLS and show that they reduce to the above three classical homoclinic solutions for particular spectral values in the periodic inverse scattering transform. Furthermore, I discuss another infinity of solutions to the NLS equation that are not classifiable as homoclinic solutions. These latter are the genus-2N theta function solutions of the NLS equation: they are the most general unstable spectral solutions for periodic boundary conditions. I further describe how the homoclinic solutions of the NLS equation, for N = 1, can be derived directly from the theta functions in a particular limit. The solutions I address herein are actual spectral components in the nonlinear Fourier transform theory for the NLS equation: The periodic inverse scattering transform. The main purpose of this paper is to discuss a broader class of rogue wave packets1 for ship design, as defined in the Extreme Seas program. The spirit of this research came from D. Faulkner (2000) who many years ago suggested that ship design procedures, in order to take rogue waves into account, should progress beyond the use of simple sine waves. 1An overview of other work in the field of rogue waves is given elsewhere: Osborne 2010, 2012 and 2013. See the books by Olagnon and colleagues 2000, 2004 and 2008 for the Brest meetings. The books by Kharif et al. (2008) and Pelinovsky et al. (2010) are excellent references.

  1. Wave resource variability: Impacts on wave power supply over regional to international scales

    NASA Astrophysics Data System (ADS)

    Smith, Helen; Fairley, Iain; Robertson, Bryson; Abusara, Mohammad; Masters, Ian

    2017-04-01

    The intermittent, irregular and variable nature of the wave energy resource has implications for the supply of wave-generated electricity into the grid. Intermittency of renewable power may lead to frequency and voltage fluctuations in the transmission and distribution networks. A matching supply of electricity must be planned to meet the predicted demand, leading to a need for gas-fired and back-up generating plants to supplement intermittent supplies, and potentially limiting the integration of intermittent power into the grid. Issues relating to resource intermittency and their mitigation through the development of spatially separated sites have been widely researched in the wind industry, but have received little attention to date in the less mature wave industry. This study analyses the wave resource over three different spatial scales to investigate the potential impacts of the temporal and spatial resource variability on the grid supply. The primary focus is the Southwest UK, a region already home to multiple existing and proposed wave energy test sites. Concurrent wave buoy data from six locations, supported by SWAN wave model hindcast data, are analysed to assess the correlation of the resource across the region and the variation in wave power with direction. Power matrices for theoretical nearshore and offshore devices are used to calculate the maximum step change in generated power across the region as the number of deployment sites is increased. The step change analysis is also applied across national and international spatial scales using output from the European Centre for Medium-range Weather Forecasting (ECMWF) ERA-Interim hindcast model. It is found that the deployment of multiple wave energy sites, whether on a regional, national or international scale, results in both a reduction in step changes in power and reduced times of zero generation, leading to an overall smoothing of the wave-generated electrical power. This has implications for the

  2. Cortical travelling waves: mechanisms and computational principles

    PubMed Central

    Muller, Lyle; Chavane, Frédéric; Reynolds, John

    2018-01-01

    Multichannel recording technologies have revealed travelling waves of neural activity in multiple sensory, motor and cognitive systems. These waves can be spontaneously generated by recurrent circuits or evoked by external stimuli. They travel along brain networks at multiple scales, transiently modulating spiking and excitability as they pass. Here, we review recent experimental findings that have found evidence for travelling waves at single-area (mesoscopic) and whole-brain (macroscopic) scales. We place these findings in the context of the current theoretical understanding of wave generation and propagation in recurrent networks. During the large low-frequency rhythms of sleep or the relatively desynchronized state of the awake cortex, travelling waves may serve a variety of functions, from long-term memory consolidation to processing of dynamic visual stimuli. We explore new avenues for experimental and computational understanding of the role of spatiotemporal activity patterns in the cortex. PMID:29563572

  3. Nonlinear dynamics of resonant electrons interacting with coherent Langmuir waves

    NASA Astrophysics Data System (ADS)

    Tobita, Miwa; Omura, Yoshiharu

    2018-03-01

    We study the nonlinear dynamics of resonant particles interacting with coherent waves in space plasmas. Magnetospheric plasma waves such as whistler-mode chorus, electromagnetic ion cyclotron waves, and hiss emissions contain coherent wave structures with various discrete frequencies. Although these waves are electromagnetic, their interaction with resonant particles can be approximated by equations of motion for a charged particle in a one-dimensional electrostatic wave. The equations are expressed in the form of nonlinear pendulum equations. We perform test particle simulations of electrons in an electrostatic model with Langmuir waves and a non-oscillatory electric field. We solve equations of motion and study the dynamics of particles with different values of inhomogeneity factor S defined as a ratio of the non-oscillatory electric field intensity to the wave amplitude. The simulation results demonstrate deceleration/acceleration, thermalization, and trapping of particles through resonance with a single wave, two waves, and multiple waves. For two-wave and multiple-wave cases, we describe the wave-particle interaction as either coherent or incoherent based on the probability of nonlinear trapping.

  4. Averaging peak-to-peak voltage detector for absolute mass determination of single particles with quadrupole ion traps

    NASA Astrophysics Data System (ADS)

    Peng, Wen-Ping; Lee, Yuan T.; Ting, Joseph W.; Chang, Huan-Cheng

    2005-02-01

    A sine wave that controls a quadrupole ion trap is generated from a low voltage source, boosted to high voltage through a transformer. Since not even the best transformers can keep a flat amplitude response with respect to frequency, knowing the accurate peak-to-peak value of the sine wave is paramount when the frequency is varied. We have developed an averaging peak-to-peak voltage detector for such measurements and demonstrated that the device is an essential tool to make possible high-precision mass determination of single charged microparticles with masses greater than 1×1011u. Tests of the detector with sine waves from a FLUKE 5720A standard source in the neighborhood of 1400Vpp and frequencies ranging from 100to700Hz showed a measurement accuracy better than 10ppm. The detector settled within 5s after each reset to 5 digits of DVM rock-steady reading, and the calibration against the same source after 3weeks of continuous use of the circuit produced a mere overall 1ppm difference.

  5. Clustering Multiple Sclerosis Subgroups with Multifractal Methods and Self-Organizing Map Algorithm

    NASA Astrophysics Data System (ADS)

    Karaca, Yeliz; Cattani, Carlo

    Magnetic resonance imaging (MRI) is the most sensitive method to detect chronic nervous system diseases such as multiple sclerosis (MS). In this paper, Brownian motion Hölder regularity functions (polynomial, periodic (sine), exponential) for 2D image, such as multifractal methods were applied to MR brain images, aiming to easily identify distressed regions, in MS patients. With these regions, we have proposed an MS classification based on the multifractal method by using the Self-Organizing Map (SOM) algorithm. Thus, we obtained a cluster analysis by identifying pixels from distressed regions in MR images through multifractal methods and by diagnosing subgroups of MS patients through artificial neural networks.

  6. Middle Atmosphere Cooperation/Summer in Northern Europe (MAC/SINE) and MAC/Epsilon

    NASA Technical Reports Server (NTRS)

    Thrane, E. V.

    1989-01-01

    Two major international campaigns dedicated to the study of middle atmosphere dynamics in high latitudes were successfully completed in 1987. MAC/SINE (Middle Atmosphere Cooperation/Summer in Northern Europe) was carried out during the period 7 June to 19 July, whereas MAC/Epsilon took place in the period 12 October to 15 November. In both campaigns a large number of ground based and rocket techniques were used in a concerted effort to map the dynamical structure of the middle atmosphere over Northern Europe. Although the analysis of the observations has only just started, it is clear that a large and unique data set was obtained, which is believed will provide new insight into the dynamical processes in this interesting region of the atmosphere. A brief overview of the campaigns, their scientific aims, organization and structure is presented.

  7. WAVE2 is regulated by multiple phosphorylation events within its VCA domain.

    PubMed

    Pocha, Shirin M; Cory, Giles O

    2009-01-01

    The (Wiskott-Aldrich Syndrome Protein)-family verprolin homologous protein (WAVE) family of proteins occupies a pivotal position in the cell, converting extracellular signals into the formation of branched filamentous (F) actin structures. WAVE proteins contain a verprolin central acidic (VCA) domain at their C-terminus, responsible for binding to and activating the Arp2/3 complex, which in-turn nucleates the formation of new actin filaments. Here we identify five Casein Kinase 2 (CK2) phosphorylation sites within the VCA domain of WAVE2, serines 482, 484, 488, 489, and 497. Phosphorylation of these sites is required for a high affinity interaction with the Arp2/3 complex. Phosphorylation of ser 482 and 484 specifically inhibits the activation of the Arp2/3 complex by the WAVE2 VCA domain, but has no effect on the affinity for the Arp2/3 complex when the other phosphorylation sites are occupied. We demonstrate phosphorylation of all five sites on endogenous WAVE2 and show that their mutation to non-phosphorylatable alanine residues inhibits WAVE2 function in vivo, inhibiting cell ruffling and disrupting the integrity of the leading edge of migrating cells. (c) 2008 Wiley-Liss, Inc.

  8. Effects of Different Waveforms on the Performance of Active Capillary Dielectric Barrier Discharge Ionization Mass Spectrometry

    NASA Astrophysics Data System (ADS)

    Dumlao, Morphy C.; Xiao, Dan; Zhang, Daming; Fletcher, John; Donald, William A.

    2017-04-01

    Active capillary dielectric barrier discharge ionization (DBDI) is emerging as a compact, low-cost, and robust method to form intact ions of small molecules for detection in near real time by portable mass spectrometers. Here, we demonstrate that by using a 10 kHz, 2.5 kVp-p high-voltage square-wave alternating current plasma, active capillary DBDI can consume less than 1 μW of power. In contrast, the power consumed using a sine and triangle alternating current waveform is more than two orders of magnitude higher than that for the square waveform to obtain a similar voltage for plasma generation. Moreover, the plasma obtained using a square waveform can be significantly more homogenous than that obtained using sine and triangle waveforms. Protonated dimethyl methylphosphonate (DMMP) and deprotonated perfluorooctanoic acid (PFOA) can be detected at about the same or higher abundances using square-wave DBDI mass spectrometry compared with the use of sine and triangle waveforms. By use of benzylammonium thermometer ions, the extent of internal energy deposition using square, sine, or triangle waveform excited plasmas are essentially the same at the optimum voltages for ion detection. Using an H-bridge circuit driving a transformer optimized to reduce losses, square-wave active capillary DBDI can be continuously powered for 50 h by common 9 V-battery (PP3).

  9. Wind farm electrical system

    DOEpatents

    Erdman, William L.; Lettenmaier, Terry M.

    2006-07-04

    An approach to wind farm design using variable speed wind turbines with low pulse number electrical output. The output of multiple wind turbines are aggregated to create a high pulse number electrical output at a point of common coupling with a utility grid network. Power quality at each individual wind turbine falls short of utility standards, but the aggregated output at the point of common coupling is within acceptable tolerances for utility power quality. The approach for aggregating low pulse number electrical output from multiple wind turbines relies upon a pad mounted transformer at each wind turbine that performs phase multiplication on the output of each wind turbine. Phase multiplication converts a modified square wave from the wind turbine into a 6 pulse output. Phase shifting of the 6 pulse output from each wind turbine allows the aggregated output of multiple wind turbines to be a 24 pulse approximation of a sine wave. Additional filtering and VAR control is embedded within the wind farm to take advantage of the wind farm's electrical impedence characteristics to further enhance power quality at the point of common coupling.

  10. An enhanced sine dwell method as applied to the Galileo core structure modal survey

    NASA Technical Reports Server (NTRS)

    Smith, Kenneth S.; Trubert, Marc

    1990-01-01

    An incremental modal survey performed in 1988 on the core structure of the Galileo spacecraft with its adapters with the purpose of assessing the dynamics of the new portions of the structure is considered. Emphasis is placed on the enhancements of the sine dwell method employed in the test. For each mode, response data is acquired at 32 frequencies in a narrow band enclosing the resonance, utilizing the SWIFT technique. It is pointed out that due to the simplicity of the data processing involved, the diagnostic and modal-parameter data is available within several minutes after data acquisition; however, compared with straight curve-fitting approaches, the method requires more time for data acquisition.

  11. Endogenous Cortical Oscillations Constrain Neuromodulation by Weak Electric Fields

    PubMed Central

    Schmidt, Stephen L.; Iyengar, Apoorva K.; Foulser, A. Alban; Boyle, Michael R.; Fröhlich, Flavio

    2014-01-01

    Background Transcranial alternating current stimulation (tACS) is a non-invasive brain stimulation modality that may modulate cognition by enhancing endogenous neocortical oscillations with the application of sine-wave electric fields. Yet, the role of endogenous network activity in enabling and shaping the effects of tACS has remained unclear. Objective We combined optogenetic stimulation and multichannel slice electrophysiology to elucidate how the effect of weak sine-wave electric field depends on the ongoing cortical oscillatory activity. We hypothesized that the structure of the response to stimulation depended on matching the stimulation frequency to the endogenous cortical oscillation. Methods We studied the effect of weak sine-wave electric fields on oscillatory activity in mouse neocortical slices. Optogenetic control of the network activity enabled the generation of in vivo like cortical oscillations for studying the temporal relationship between network activity and sine-wave electric field stimulation. Results Weak electric fields enhanced endogenous oscillations but failed to induce a frequency shift of the ongoing oscillation for stimulation frequencies that were not matched to the endogenous oscillation. This constraint on the effect of electric field stimulation imposed by endogenous network dynamics was limited to the case of weak electric fields targeting in vivo-like network dynamics. Together, these results suggest that the key mechanism of tACS may be enhancing but not overriding of intrinsic network dynamics. Conclusion Our results contribute to understanding the inconsistent tACS results from human studies and propose that stimulation precisely adjusted in frequency to the endogenous oscillations is key to rational design of non-invasive brain stimulation paradigms. PMID:25129402

  12. The Joint CCSDS-SFCG Modulation Study--A Comparison of Modulation Schemes

    NASA Technical Reports Server (NTRS)

    Martin, W. L.; Nguyen, T. M.

    1994-01-01

    This paper compares the various modulation schemes, namely, PCM/PSK/PM, PCM/PM and BPSK. The subcarrier wave form for PCM/PSK/PM can be either square wave or sine wave, and the data format for PCM/PM and BPSK can be wither NRZ or Bi-phase.

  13. Deconstruction of spatial integrity in visual stimulus detected by modulation of synchronized activity in cat visual cortex.

    PubMed

    Zhou, Zhiyi; Bernard, Melanie R; Bonds, A B

    2008-04-02

    Spatiotemporal relationships among contour segments can influence synchronization of neural responses in the primary visual cortex. We performed a systematic study to dissociate the impact of spatial and temporal factors in the signaling of contour integration via synchrony. In addition, we characterized the temporal evolution of this process to clarify potential underlying mechanisms. With a 10 x 10 microelectrode array, we recorded the simultaneous activity of multiple cells in the cat primary visual cortex while stimulating with drifting sine-wave gratings. We preserved temporal integrity and systematically degraded spatial integrity of the sine-wave gratings by adding spatial noise. Neural synchronization was analyzed in the time and frequency domains by conducting cross-correlation and coherence analyses. The general association between neural spike trains depends strongly on spatial integrity, with coherence in the gamma band (35-70 Hz) showing greater sensitivity to the change of spatial structure than other frequency bands. Analysis of the temporal dynamics of synchronization in both time and frequency domains suggests that spike timing synchronization is triggered nearly instantaneously by coherent structure in the stimuli, whereas frequency-specific oscillatory components develop more slowly, presumably through network interactions. Our results suggest that, whereas temporal integrity is required for the generation of synchrony, spatial integrity is critical in triggering subsequent gamma band synchronization.

  14. An absorptive single-pole four-throw switch using multiple-contact MEMS switches and its application to a monolithic millimeter-wave beam-forming network

    NASA Astrophysics Data System (ADS)

    Lee, Sanghyo; Kim, Jong-Man; Kim, Yong-Kweon; Kwon, Youngwoo

    2009-01-01

    In this paper, a new absorptive single-pole four-throw (SP4T) switch based on multiple-contact switching is proposed and integrated with a Butler matrix to demonstrate a monolithic beam-forming network at millimeter waves (mm waves). In order to simplify the switching driving circuit and reduce the number of unit switches in an absorptive SP4T switch, the individual switches were replaced with long-span multiple-contact switches using stress-free single-crystalline-silicon MEMS technology. This approach improves the mechanical stability as well as the manufacturing yield, thereby allowing successful integration into a monolithic beam former. The fabricated absorptive SP4T MEMS switch shows insertion loss less than 1.3 dB, return losses better than 11 dB at 30 GHz and wideband isolation performance higher than 39 dB from 20 to 40 GHz. The absorptive SP4T MEMS switch is integrated with a 4 × 4 Butler matrix on a single chip to implement a monolithic beam-forming network, directing beam into four distinct angles. Array factors from the measured data show that the proposed absorptive SPnT MEMS switch can be effectively used for high-performance mm-wave beam-switching systems. This work corresponds to the first demonstration of a monolithic beam-forming network using switched beams.

  15. WAVE2 is regulated by multiple phosphorylation events within its VCA domain

    PubMed Central

    Pocha, Shirin M; Cory, Giles O

    2009-01-01

    The (Wiskott-Aldrich Syndrome Protein)-family verprolin homologous protein (WAVE) family of proteins occupies a pivotal position in the cell, converting extracellular signals into the formation of branched filamentous (F) actin structures. WAVE proteins contain a verprolin central acidic (VCA) domain at their C-terminus, responsible for binding to and activating the Arp2/3 complex, which in-turn nucleates the formation of new actin filaments. Here we identify five Casein Kinase 2 (CK2) phosphorylation sites within the VCA domain of WAVE2, serines 482, 484, 488, 489, and 497. Phosphorylation of these sites is required for a high affinity interaction with the Arp2/3 complex. Phosphorylation of ser 482 and 484 specifically inhibits the activation of the Arp2/3 complex by the WAVE2 VCA domain, but has no effect on the affinity for the Arp2/3 complex when the other phosphorylation sites are occupied. We demonstrate phosphorylation of all five sites on endogenous WAVE2 and show that their mutation to non-phosphorylatable alanine residues inhibits WAVE2 function in vivo, inhibiting cell ruffling and disrupting the integrity of the leading edge of migrating cells. Cell Motil. Cytoskeleton 2008. © 2008 Wiley-Liss, Inc. PMID:19012317

  16. Observations of discrete magnetosonic waves off the magnetic equator

    DOE PAGES

    Zhima, Zeren; Chen, Lunjin; Fu, Huishan; ...

    2015-11-23

    Fast mode magnetosonic waves are typically confined close to the magnetic equator and exhibit harmonic structures at multiples of the local, equatorial proton cyclotron frequency. Here, we report observations of magnetosonic waves well off the equator at geomagnetic latitudes from -16.5°to -17.9° and L shell ~2.7–4.6. The observed waves exhibit discrete spectral structures with multiple frequency spacings. The predominant frequency spacings are ~6 and 9 Hz, neither of which is equal to the local proton cyclotron frequency. Backward ray tracing simulations show that the feature of multiple frequency spacings is caused by propagation from two spatially narrow equatorial source regionsmore » located at L ≈ 4.2 and 3.7. The equatorial proton cyclotron frequencies at those two locations match the two observed frequency spacings. Finally, our analysis provides the first observations of the harmonic nature of magnetosonic waves well away from the equatorial region and suggests that the propagation from multiple equatorial sources contributes to these off-equatorial magnetosonic emissions with varying frequency spacings.« less

  17. Pseudo-incompressible, finite-amplitude gravity waves: wave trains and stability

    NASA Astrophysics Data System (ADS)

    Schlutow, Mark; Klein, Rupert

    2017-04-01

    Based on weak asymptotic WKB-like solutions for two-dimensional atmospheric gravity waves (GWs) traveling wave solutions (wave trains) are derived and analyzed with respect to stability. A systematic multiple-scale analysis using the ratio of the dominant wavelength and the scale height as a scale separation parameter is applied on the fully compressible Euler equations. A distinguished limit favorable for GWs close to static instability, reveals that pseudo-incompressible rather than Boussinesq theory applies. A spectral expansion including a mean flow, combined with the additional WKB assumption of slowly varying phases and amplitudes, is used to find general weak asymptotic solutions. This ansatz allows for arbitrarily strong, non-uniform stratification and holds even for finite-amplitude waves. It is deduced that wave trains as leading order solutions can only exist if either some non-uniform background stratification is given but the wave train propagates only horizontally or if the wave train velocity vector is given but the background is isothermal. For the first case, general analytical solutions are obtained that may be used to model mountain lee waves. For the second case with the additional assumption of horizontal periodicity, upward propagating wave train fronts were found. These wave train fronts modify the mean flow beyond the non-acceleration theorem. Stability analysis reveal that they are intrinsically modulationally unstable. The range of validity for the scale separation parameter was tested with fully nonlinear simulations. Even for large values an excellent agreement with the theory was found.

  18. Re-examination of radiofrequency mass spectrometers: Center Director's Discretionary Fund

    NASA Technical Reports Server (NTRS)

    Carruth, M. R., Jr.

    1989-01-01

    The three-stage, two-cycle, Bennett mass spectrometers in use in space and ground experiments today are of the same physical configuration as developed by Bennett in 1950. Sine-wave radiofrequency (RF) is also still used. The literature indicates that the electronics and physical manufacturing capabilities of 1950 technology may have limited the use of other improvements at that time. Therefore, a study, experimental and analytical, was undertaken to examine previously rejected RF approaches as well as new ones. The results of this study indicate there are other approaches which use fewer grids and square wave or a combination of square-wave and sine-wave RF. In regard to suppression of harmonics, none performed better than the three-stage, two-cycle, Bennett mass spectrometer. Use of square-wave RF in the Bennett approach can provide a slightly more compact configuration but no increase in throughput.

  19. A comparison between the pathophysiology of multiple sclerosis and normal pressure hydrocephalus: is pulse wave encephalopathy a component of MS?

    PubMed

    Bateman, Grant A; Lechner-Scott, Jeannette; Lea, Rodney A

    2016-09-22

    It has been suggested there is a chronic neurodegenerative disorder, underlying the pathophysiology of multiple sclerosis (MS), which is distinct from the more obvious immune-mediated attack on the white matter. Limited data exists indicating there is an alteration in pulse wave propagation within the craniospinal cavity in MS, similar to the findings in normal pressure hydrocephalus (NPH). It is hypothesized MS may harbor pulse wave encephalopathy. The purpose of this study is to compare blood flow and pulse wave measurements in MS patients with a cohort of NPH patients and control subjects, to test this hypothesis. Twenty patients with MS underwent magnetic resonance (MR) flow quantification techniques. Mean blood flow and stroke volume were measured in the arterial inflow and venous out flow from the sagittal (SSS) and straight sinus (ST). The arteriovenous delay (AVD) was defined. The results were compared with both age-matched controls and NPH patients. In MS there was a 35 % reduction in arteriovenous delay and a 5 % reduction in the percentage of the arterial inflow returning via the sagittal sinus compared to age matched controls. There was an alteration in pulse wave propagation, with a 26 % increase in arterial stroke volume but 30 % reduction in SSS and ST stroke volume. The AVD and blood flow changes were in the same direction to those of NPH patients. There are blood flow and pulsation propagation changes in MS patients which are similar to those of NPH patients. The findings would be consistent with an underlying pulse wave encephalopathy component in MS.

  20. Magnetopause surface fluctuations observed by Voyager 1

    NASA Technical Reports Server (NTRS)

    Lepping, R. P.; Burlaga, L. F.

    1979-01-01

    Moving out of the dawnside of the earth's magnetosphere, Voyager 1 crossed the magnetopause apparently seven times, despite the high spacecraft speed of 11 km/sec. Normals to the magnetopause and their associated error cones were estimated for each of the crossings using a minimum variance analysis of the internal magnetic field. The oscillating nature of the ecliptic plane component of these normals indicates that most of the multiple crossings were due to a wave-like surface disturbance moving tailward along the magnetopause. The wave, which was aperiodic, was modeled as a sequence of sine waves. The amplitude, wavelength, and speed were determined for two pairs of intervals from the measured slopes, occurrence times, and relative positions of six magnetopause crossings. The magnetopause thickness was estimated to lie in the range 300 to 700 km with higher values possible. The estimated amplitude of these waves was obviously small compared to their wavelengths.

  1. Propagation of gravity waves across the tropopause

    NASA Astrophysics Data System (ADS)

    Bense, Vera; Spichtinger, Peter

    2015-04-01

    The tropopause region is characterised by strong gradients in various atmospheric quantities that exhibit different properties in the troposphere compared to the stratosphere. The temperature lapse rate typically changes from negative to near-zero values resulting in a strong increase in stability. Accordingly, the buoyancy frequency often undergoes a jump at the tropopause. Analysis of radiosounding data also shows the existence of a strong inversion layer (tropopause inversion layer, TIL) characterised by a strong maximum in buoyancy frequency just above the tropopause, see e.g. Birner et al. (2002). Additionally, the magnitude of the vertical wind shear of the horizontal wind maximizes at the tropopause and the region also exhibits characteristical gradients of trace gases. Vertically propagating gravity waves can be excited in the troposphere by several mechanisms, e.g. by flow over topography (e.g. Durran, 1990), by jets and fronts (for a recent review: Plougonven and Zhang, 1990) or by convection (e.g. Clark et al., 1986). When these waves enter the tropopause region, their properties can be changed drastically by the changing stratification and strong wind shear. Within this work, the EULAG (Eulerian/semi-Lagrangian fluid solver, see e.g. Smolarkiewicz and Margolin, 1997) model is used to investigate the impact of the tropopause on vertically propagating gravity waves excited by flows over topography. The choice of topography (sine-shaped mountains, bell-shaped mountain) along with horizontal wind speed and tropospheric value of buoyancy frequency determine the spectrum of waves (horizontal and vertical wavelengths) that is excited in the tropsphere. In order to analyse how these spectra change for several topographies when a tropopause is present, we investigate different idealized cases in a two-dimensional domain. By varying the vertical profiles of buoyancy frequency (step-wise vs. continuos change, including TIL) and wind shear, the tropopause

  2. Optimised frequency modulation for continuous-wave optical magnetic resonance sensing using nitrogen-vacancy ensembles.

    PubMed

    El-Ella, Haitham A R; Ahmadi, Sepehr; Wojciechowski, Adam M; Huck, Alexander; Andersen, Ulrik L

    2017-06-26

    Magnetometers based on ensembles of nitrogen-vacancy centres are a promising platform for continuously sensing static and low-frequency magnetic fields. Their combination with phase-sensitive (lock-in) detection creates a highly versatile sensor with a sensitivity that is proportional to the derivative of the optical magnetic resonance lock-in spectrum, which is in turn dependant on the lock-in modulation parameters. Here we study the dependence of the lock-in spectral slope on the modulation of the spin-driving microwave field. Given the presence of the intrinsic nitrogen hyperfine spin transitions, we experimentally show that when the ratio between the hyperfine linewidth and their separation is ≳ 1/4, square-wave based frequency modulation generates the steepest slope at modulation depths exceeding the separation of the hyperfine lines, compared to sine-wave based modulation. We formulate a model for calculating lock-in spectra which shows excellent agreement with our experiments, and which shows that an optimum slope is achieved when the linewidth/separation ratio is ≲ 1/4 and the modulation depth is less then the resonance linewidth, irrespective of the modulation function used.

  3. Ray tracing of multiple transmitted/reflected/converted waves in 2-D/3-D layered anisotropic TTI media and application to crosswell traveltime tomography

    NASA Astrophysics Data System (ADS)

    Bai, Chao-Ying; Huang, Guo-Jiao; Li, Xiao-Ling; Zhou, Bing; Greenhalgh, Stewart

    2013-11-01

    To overcome the deficiency of some current grid-/cell-based ray tracing algorithms, which are only able to handle first arrivals or primary reflections (or conversions) in anisotropic media, we have extended the functionality of the multistage irregular shortest-path method to 2-D/3-D tilted transversely isotropic (TTI) media. The new approach is able to track multiple transmitted/reflected/converted arrivals composed of any kind of combinations of transmissions, reflections and mode conversions. The basic principle is that the seven parameters (five elastic parameters plus two polar angles defining the tilt of the symmetry axis) of the TTI media are sampled at primary nodes, and the group velocity values at secondary nodes are obtained by tri-linear interpolation of the primary nodes across each cell, from which the group velocities of the three wave modes (qP, qSV and qSH) are calculated. Finally, we conduct grid-/cell-based wave front expansion to trace multiple transmitted/reflected/converted arrivals from one region to the next. The results of calculations in uniform anisotropic media indicate that the numerical results agree with the analytical solutions except in directions of SV-wave triplications, at which only the lowest velocity value is selected at the singularity points by the multistage irregular shortest-path anisotropic ray tracing method. This verifies the accuracy of the methodology. Several simulation results show that the new method is able to efficiently and accurately approximate situations involving continuous velocity variations and undulating discontinuities, and that it is suitable for any combination of multiple transmitted/reflected/converted arrival tracking in TTI media of arbitrary strength and tilt. Crosshole synthetic traveltime tomographic tests have been performed, which highlight the importance of using such code when the medium is distinctly anisotropic.

  4. Multiple scattering of waves in random media: Application to the study of the city-site effect in Mexico City area.

    NASA Astrophysics Data System (ADS)

    Ishizawa, O. A.; Clouteau, D.

    2007-12-01

    Long-duration, amplifications and spatial response's variability of the seismic records registered in Mexico City during the September 1985 earthquake cannot only be explained by the soil velocity model. We will try to explain these phenomena by studying the extent of the effect of buildings' diffracted wave fields during an earthquake. The main question is whether the presence of a large number of buildings can significantly modify the seismic wave field. We are interested in the interaction between the incident wave field propagating in a stratified half- space and a large number of structures at the free surface, i.e., the coupled city-site effect. We study and characterize the seismic wave propagation regimes in a city using the theory of wave propagation in random media. In the coupled city-site system, the buildings are modeled as resonant scatterers uniformly distributed at the surface of a deterministic, horizontally layered elastic half-space representing the soil. Based on the mean-field and the field correlation equations, we build a theoretical model which takes into account the multiple scattering of seismic waves and allows us to describe the coupled city-site system behavior in a simple and rapid way. The results obtained for the configurationally averaged field quantities are validated by means of 3D results for the seismic response of a deterministic model. The numerical simulations of this model are computed with MISS3D code based on classical Soil-Structure Interaction techniques and on a variational coupling between Boundary Integral Equations for a layered soil and a modal Finite Element approach for the buildings. This work proposes a detailed numerical and a theoretical analysis of the city-site interaction (CSI) in Mexico City area. The principal parameters in the study of the CSI are the buildings resonant frequency distribution, the soil characteristics of the site, the urban density and position of the buildings in the city, as well as

  5. Electrostatic turbulence in the earth's central plasma sheet produced by multiple-ring ion distributions

    NASA Technical Reports Server (NTRS)

    Huba, J. D.; Chen, J.; Anderson, R. R.

    1992-01-01

    Attention is given to a mechanism to generate a broad spectrum of electrostatic turbulence in the quiet time central plasma sheet (CPS) plasma. It is shown theoretically that multiple-ring ion distributions can generate short-wavelength (less than about 1), electrostatic turbulence with frequencies less than about kVj, where Vj is the velocity of the jth ring. On the basis of a set of parameters from measurements made in the CPS, it is found that electrostatic turbulence can be generated with wavenumbers in the range of 0.02 and 1.0, with real frequencies in the range of 0 and 10, and with linear growth rates greater than 0.01 over a broad range of angles relative to the magnetic field (5-90 deg). These theoretical results are compared with wave data from ISEE 1 using an ion distribution function exhibiting multiple-ring structures observed at the same time. The theoretical results in the linear regime are found to be consistent with the wave data.

  6. Energy propagation by transverse waves in multiple flux tube systems using filling factors

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Van Doorsselaere, T.; Gijsen, S. E.; Andries, J.

    2014-11-01

    In the last few years, it has been found that transverse waves are present at all times in coronal loops or spicules. Their energy has been estimated with an expression derived for bulk Alfvén waves in homogeneous media, with correspondingly uniform wave energy density and flux. The kink mode, however, is localized in space with the energy density and flux dependent on the position in the cross-sectional plane. The more relevant quantities for the kink mode are the integrals of the energy density and flux over the cross-sectional plane. The present paper provides an approximation to the energy propagated bymore » kink modes in an ensemble of flux tubes by means of combining the analysis of single flux tube kink oscillations with a filling factor for the tube cross-sectional area. This finally allows one to compare the expressions for energy flux of Alfvén waves with an ensemble of kink waves. We find that the correction factor for the energy in kink waves, compared to the bulk Alfvén waves, is between f and 2f, where f is the density filling factor of the ensemble of flux tubes.« less

  7. Interaction of a shock wave with multiple spheres suspended in different arrangements

    NASA Astrophysics Data System (ADS)

    Zhang, Li-Te; Sui, Zhen-Zhen; Shi, Hong-Hui

    2018-03-01

    In this study, the unsteady drag force, Fd, drag coefficient, Cd, and the relevant dynamic behaviors of waves caused by the interaction between a planar incident shock wave and a multi-sphere model are investigated by using imbedded accelerometers and a high-speed Schlieren system. The shock wave is produced in a horizontal 200 mm inner diameter circular shock tube with a 2000 mm × 200 mm × 200 mm transparent test section. The time history of Cd is obtained based on band-block and low-pass Fast Fourier Transformation filtering combined with Savitzky-Golay polynomial smoothing for the measured acceleration. The effects of shock Mach number, Ms, geometry of multi-sphere model, nondimensional distance between sphere centers, H, and channel blockage are analyzed. We find that all time histories of Cd have a similar double-peak shaped main structure. It is due to wave reflection, diffraction, interference, and convergence at different positions of the spheres. The peak Fd increases, whereas the peak Cd decreases monotonically with increasing Ms. The increase of shock strength due to shock focusing by upstream spheres increases the peak Fd of downstream spheres. Both the increase in sphere number and the decrease in distance between spheres promote wave interference between neighboring spheres. As long as the wave interference times are shorter than the peak times, the peak Fd and Cd are higher compared to a single sphere.

  8. A pseudo energy-invariant method for relativistic wave equations with Riesz space-fractional derivatives

    NASA Astrophysics Data System (ADS)

    Macías-Díaz, J. E.; Hendy, A. S.; De Staelen, R. H.

    2018-03-01

    In this work, we investigate a general nonlinear wave equation with Riesz space-fractional derivatives that generalizes various classical hyperbolic models, including the sine-Gordon and the Klein-Gordon equations from relativistic quantum mechanics. A finite-difference discretization of the model is provided using fractional centered differences. The method is a technique that is capable of preserving an energy-like quantity at each iteration. Some computational comparisons against solutions available in the literature are performed in order to assess the capability of the method to preserve the invariant. Our experiments confirm that the technique yields good approximations to the solutions considered. As an application of our scheme, we provide simulations that confirm, for the first time in the literature, the presence of the phenomenon of nonlinear supratransmission in Riesz space-fractional Klein-Gordon equations driven by a harmonic perturbation at the boundary.

  9. Direction dependent Love and Rayleigh wave noise characteristics using multiple arrays across Europe

    NASA Astrophysics Data System (ADS)

    Juretzek, Carina; Perleth, Magdalena; Hadziioannou, Celine

    2016-04-01

    Seismic noise has become an important signal source for tomography and monitoring purposes. Better understanding of the noise field characteristics is crucial to further improve noise applications. Our knowledge about common and different origins of Love and Rayleigh waves in the microseism band is still limited. This applies in particular for constraints on source locations and source mechanisms of Love waves. Here, 3-component beamforming is used to distinguish between the different polarized wave types in the primary and secondary microseism noise field recorded at several arrays across Europe. We compare characteristics of Love and Rayleigh wave noise, such as source directions and frequency content. Further, Love to Rayleigh wave ratios are measured and a dependence on direction is found, especially in the primary microseism band. Estimates of the kinetic energy density ratios propose a dominance of coherent Love waves in the primary, but not in the secondary microseism band. The seasonality of the noise field characteristics is examined by using a full year of data in 2013 and is found to be stable.

  10. Modeling of Shock Waves with Multiple Phase Transitions in Condensed Materials

    NASA Astrophysics Data System (ADS)

    Missonnier, Marc; Heuzé, Olivier

    2006-07-01

    When a shock wave crosses a solid material and subjects it to solid-solid or solid-liquid phase transition, related phenomena occur: shock splitting, and the corresponding released shock wave after reflection. Modelling of these phenomena raises physical and numerical issues. After shock loading, such materials can reach different kinds of states: single-phase states, binary-phase states, and triple points. The thermodynamic path can be studied and easily understood in the (V,E) or (V,S) planes. In the case of 3 phase tin (β,γ, and liquid) submitted to shock waves, seven states can occur: β,γ, liquid, β-γ, β-liquid, γ-liquid, and β-γ-liquid. After studying the thermodynamic properties with a complete 3-phase Equation of State, we show the existence of these seven states with a hydrodynamic simulation.

  11. Integrated Millimeter-Wave Frequency Multiplers

    NASA Astrophysics Data System (ADS)

    Schoenthal, Gerhard S.; Deaver, B. S.; Crowe, T. W.; Bishop, W. L.; Saini, K.; Bradley, R. F.

    2001-11-01

    Many of the molecules of interest to radio astronomers and atmospheric chemists resonate at frequencies in the millimeter and submillimeter wavelength bands. To measure the spectra of these molecules scientists rely on heterodyne receivers that convert the high frequency signal to the GHz band where it is readily amplified and analyzed. One of the challenges of developing suitable receiver systems is the development of compact, reliable and affordable sources of local oscillator power at frequencies in excess of 100 GHz. One useful solution is to use GaAs Schottky diodes, in their varactor mode, to generate high frequency harmonics of lower frequency sources such as Gunn oscillators. As a part of a multi-national radio astronomy project, the Atacama Millimeter Large Array (ALMA), we have designed and fabricated a broadband frequency tripler with an output centered at 240 GHz. It is integrated on a quartz substrate to greatly reduce the parasitic capacitance and thereby improve electrical performance. The integrated circuit was designed to require no oxides or ohmic contacts, thereby easing fabrication. This talk will discuss the novel millimeter-wave integrated circuit fabrication process and the initial results.

  12. How does a planet excite multiple spiral arms?

    NASA Astrophysics Data System (ADS)

    Bae, Jaehan; Zhu, Zhaohuan

    2018-01-01

    Protoplanetary disk simulations show that a single planet excites multiple spiral arms in the background disk, potentially supported by the multi-armed spirals revealed with recent high-resolution observations in some disks. The existence of multiple spiral arms is of importance in many aspects. It is empirically found that the arm-to-arm separation increases as a function of the planetary mass, so one can use the morphology of observed spiral arms to infer the mass of unseen planets. In addition, a spiral arm opens a radial gap as it steepens into a shock, so when a planet excites multiple spiral arms it can open multiple gaps in the disk. Despite the important implications, however, the formation mechanism of multiple spiral arms has not been fully understood by far.In this talk, we explain how a planet excites multiple spiral arms. The gravitational potential of a planet can be decomposed into a Fourier series, a sum of individual azimuthal modes having different azimuthal wavenumbers. Using a linear wave theory, we first demonstrate that appropriate sets of Fourier decomposed waves can be in phase, raising a possibility that constructive interference among the waves can produce coherent structures - spiral arms. More than one spiral arm can form since such constructive interference can occur at different positions in the disk for different sets of waves. We then verify this hypothesis using a suite of two-dimensional hydrodynamic simulations. Finally, we present non-linear behavior in the formation of multiple spiral arms.

  13. Rogue Waves and Lump Solitons of the (3+1)-Dimensional Generalized B-type Kadomtsev-Petviashvili Equation for Water Waves

    NASA Astrophysics Data System (ADS)

    Sun, Yan; Tian, Bo; Liu, Lei; Chai, Han-Peng; Yuan, Yu-Qiang

    2017-12-01

    In this paper, the (3+1)-dimensional generalized B-type Kadomtsev-Petviashvili equation for water waves is investigated. Through the Hirota method and Kadomtsev-Petviashvili hierarchy reduction, we obtain the first-order, higher-order, multiple rogue waves and lump solitons based on the solutions in terms of the Gramian. The first-order rogue waves are the line rogue waves which arise from the constant background and then disappear into the constant background again, while the first-order lump solitons propagate stably. Interactions among several first-order rogue waves which are described by the multiple rogue waves are presented. Elastic interactions of several first-order lump solitons are also presented. We find that the higher-order rogue waves and lump solitons can be treated as the superpositions of several first-order ones, while the interaction between the second-order lump solitons is inelastic. Supported by the National Natural Science Foundation of China under Grant Nos. 11772017, 11272023, and 11471050, by the Open Fund of State Key Laboratory of Information Photonics and Optical Communications (Beijing University of Posts and Telecommunications), China (IPOC: 2017ZZ05), and by the Fundamental Research Funds for the Central Universities of China under Grant No. 2011BUPTYB02

  14. The Influence of Multiple Nested Layer Waviness on the Compression Strength of Double Nested Wave Formations in a Carbon Fiber Composite Laminate

    NASA Astrophysics Data System (ADS)

    Khan, Z. M.; Adams, D. O.; Anas, S.

    2016-01-01

    As advanced composite materials having superior physical and mechanical properties are being developed, the optimization of their processing techniques is eagerly sought. One of the most common defects arising during processing of structural composites is layer waviness. The layer waviness is more pronounced in thick-section flat and cylindrical laminates, which are extensively used in large wind turbine blades, submersibles, and space platforms. The layer waviness undulates the entire layer of a multidirectional laminate in the throughthe-thickness direction, leading to a gross deterioration of its compressive strength. This research investigates the influence of multiple layer waviness in a double nest formation on the compression strength of a composite laminate. Different wave fractions of wavy 0° layers were fabricated in an IM/8551-7 carbon-epoxy composite laminate on a steel mold by using a single-step fabrication procedure. The test laminates were cured on a heated press according to the specific curing cycle of epoxy. Their static compression testing was performed using a NASA short block compression fixture on an MTS servohydraulic machine. The purpose of these tests was to determine the effects of multiple layer wave regions on the compression strength of the composite laminate. The experimental and analytical results obtained revealed that the reduction in the compression strength of composite laminate was constant after the fraction of the wavy 0° layers exceeded 35%. This analysis indicated that the percentage of the 0° wavy layer may be used to estimate the reduction in the compression strength of a double nested wave formation in a composite laminate.

  15. Ultrasonic Imaging in Solids Using Wave Mode Beamforming.

    PubMed

    di Scalea, Francesco Lanza; Sternini, Simone; Nguyen, Thompson Vu

    2017-03-01

    This paper discusses some improvements to ultrasonic synthetic imaging in solids with primary applications to nondestructive testing of materials and structures. Specifically, the study proposes new adaptive weights applied to the beamforming array that are based on the physics of the propagating waves, specifically the displacement structure of the propagating longitudinal (L) mode and shear (S) mode that are naturally coexisting in a solid. The wave mode structures can be combined with the wave geometrical spreading to better filter the array (in a matched filter approach) and improve its focusing ability compared to static array weights. This paper also proposes compounding, or summing, images obtained from the different wave modes to further improve the array gain without increasing its physical aperture. The wave mode compounding can be performed either incoherently or coherently, in analogy with compounding multiple frequencies or multiple excitations. Numerical simulations and experimental testing demonstrate the potential improvements obtainable by the wave structure adaptive weights compared to either static weights in conventional delay-and-sum focusing, or adaptive weights based on geometrical spreading alone in minimum-variance distortionless response focusing.

  16. Emotional intelligence: the Sine Qua Non for a clinical leadership toolbox.

    PubMed

    Rao, Paul R

    2006-01-01

    Over the past decade, it has become increasingly clear that although IQ and technical skills are important, emotional intelligence is the Sine Qua Non of leadership. According to Goleman [Goleman, D. (1998). What makes a leader? Harvard Business Review, 93-102] "effective leaders are alike in one crucial way: they all have a high degree of emotional intelligence...and can also be linked to strong performance." The original five dimensions of EIQ are described and applied to both supervisory and clinical scenarios. As a result of reading this work, you will be able to: (1) define and provide an illustration of each of the five components of emotional intelligence (EIQ); (2) outline the relationship of EIQ to success in your profession and your personal life; (3) create a strategic action plan to enhance each dimension of EIQ in your daily life; (4) list at least three real-life experiences that could have resulted a favorable outcome with an improved EIQ; (5) complete a self-evaluation of your EIQ.

  17. A Miniature Magnetic-Force-Based Three-Axis AC Magnetic Sensor with Piezoelectric/Vibrational Energy-Harvesting Functions.

    PubMed

    Hung, Chiao-Fang; Yeh, Po-Chen; Chung, Tien-Kan

    2017-02-08

    In this paper, we demonstrate a miniature magnetic-force-based, three-axis, AC magnetic sensor with piezoelectric/vibrational energy-harvesting functions. For magnetic sensing, the sensor employs a magnetic-mechanical-piezoelectric configuration (which uses magnetic force and torque, a compact, single, mechanical mechanism, and the piezoelectric effect) to convert x -axis and y -axis in-plane and z -axis magnetic fields into piezoelectric voltage outputs. Under the x -axis magnetic field (sine-wave, 100 Hz, 0.2-3.2 gauss) and the z -axis magnetic field (sine-wave, 142 Hz, 0.2-3.2 gauss), the voltage output with the sensitivity of the sensor are 1.13-26.15 mV with 8.79 mV/gauss and 1.31-8.92 mV with 2.63 mV/gauss, respectively. In addition, through this configuration, the sensor can harness ambient vibrational energy, i.e., possessing piezoelectric/vibrational energy-harvesting functions. Under x -axis vibration (sine-wave, 100 Hz, 3.5 g) and z -axis vibration (sine-wave, 142 Hz, 3.8 g), the root-mean-square voltage output with power output of the sensor is 439 mV with 0.333 μW and 138 mV with 0.051 μW, respectively. These results show that the sensor, using this configuration, successfully achieves three-axis magnetic field sensing and three-axis vibration energy-harvesting. Due to these features, the three-axis AC magnetic sensor could be an important design reference in order to develop future three-axis AC magnetic sensors, which possess energy-harvesting functions, for practical industrial applications, such as intelligent vehicle/traffic monitoring, processes monitoring, security systems, and so on.

  18. Transition of spiral calcium waves between multiple stable patterns can be triggered by a single calcium spark in a fire-diffuse-fire model

    PubMed Central

    Tang, Ai-Hui; Wang, Shi-Qiang

    2009-01-01

    Spiral patterns have been found in various nonequilibrium systems. The Ca2+-induced Ca2+ release system in single cardiac cells is unique for highly discrete reaction elements, each giving rise to a Ca2+ spark upon excitation. We imaged the spiral Ca2+ waves in isolated cardiac cells and numerically studied the effect of system excitability on spiral patterns using a two-dimensional fire-diffuse-fire model. We found that under certain conditions, the system was able to display multiple stable patterns of spiral waves, each exhibiting different periods and distinct routines of spiral tips. Transition between these different patterns could be triggered by an internal fluctuation in the form of a single Ca2+ spark. PMID:19792039

  19. Transition of spiral calcium waves between multiple stable patterns can be triggered by a single calcium spark in a fire-diffuse-fire model.

    PubMed

    Tang, Ai-Hui; Wang, Shi-Qiang

    2009-09-01

    Spiral patterns have been found in various nonequilibrium systems. The Ca(2+)-induced Ca(2+) release system in single cardiac cells is unique for highly discrete reaction elements, each giving rise to a Ca(2+) spark upon excitation. We imaged the spiral Ca(2+) waves in isolated cardiac cells and numerically studied the effect of system excitability on spiral patterns using a two-dimensional fire-diffuse-fire model. We found that under certain conditions, the system was able to display multiple stable patterns of spiral waves, each exhibiting different periods and distinct routines of spiral tips. Transition between these different patterns could be triggered by an internal fluctuation in the form of a single Ca(2+) spark.

  20. Fourier Analysis and the Rhythm of Conversation.

    ERIC Educational Resources Information Center

    Dabbs, James M., Jr.

    Fourier analysis, a common technique in engineering, breaks down a complex wave form into its simple sine wave components. Communication researchers have recently suggested that this technique may provide an index of the rhythm of conversation, since vocalizing and pausing produce a complex wave form pattern of alternation between two speakers. To…

  1. New optical solitons of space-time conformable fractional perturbed Gerdjikov-Ivanov equation by sine-Gordon equation method

    NASA Astrophysics Data System (ADS)

    Yaşar, Elif; Yıldırım, Yakup; Yaşar, Emrullah

    2018-06-01

    This paper devotes to conformable fractional space-time perturbed Gerdjikov-Ivanov (GI) equation which appears in nonlinear fiber optics and photonic crystal fibers (PCF). We consider the model with full nonlinearity in order to give a generalized flavor. The sine-Gordon equation approach is carried out to model equation for retrieving the dark, bright, dark-bright, singular and combined singular optical solitons. The constraint conditions are also reported for guaranteeing the existence of these solitons. We also present some graphical simulations of the solutions for better understanding the physical phenomena of the behind the considered model.

  2. Chirp resonance spectroscopy of single lipid-coated microbubbles using an "acoustical camera".

    PubMed

    Renaud, G; Bosch, J G; van der Steen, A F W; de Jong, N

    2012-12-01

    An acoustical method was developed to study the resonance of single lipid-coated microbubbles. The response of 127 SonoVue microbubbles to a swept sine excitation between 0.5 and 5.5 MHz with a peak acoustic pressure amplitude of 70 kPa was measured by means of a 25 MHz probing wave. The relative amplitude modulation in the signal scattered in response to the probing wave is approximately equal to the radial strain induced by the swept sine excitation. An average damping coefficient of 0.33 and an average resonance frequency of 2.5 MHz were measured. Microbubbles experienced an average peak radial strain of 20%.

  3. Retrobulbar optic neuritis and rhegmatogenous retinal detachment in a fourteen-year-old girl with retinitis pigmentosa sine pigmento.

    PubMed

    Hatta, M; Hayasaka, S; Kato, T; Kadoi, C

    2000-01-01

    A 14-year-old girl complained of a sudden decrease in right visual acuity. The patient had night blindness, a mottled retina but no pigments, extinguished scotopic electroretinographic response, central scotoma in the right eye and rhegmatogenous retinal detachment. She had initially received laser photocoagulation around the retinal tear and then corticosteroid therapy, cryoretinopexy and segmental buckling. Her right visual acuity increased to 1.0. The association of retinitis pigmentosa sine pigmento, retrobulbar optic neuritis and rhegmatogenous retinal detachment, as demonstrated in our patient, may be uncommon. Copyright 2000 S. Karger AG, Basel

  4. Apparatus for Teaching Physics.

    ERIC Educational Resources Information Center

    Gottlieb, Herbert H., Ed.

    1979-01-01

    Describes the following laboratory equipment: Biophysics modules to perform bioelectronic investigations of the human body; a large sine wave analog for large audience demonstrations; a resonance tube for measurement of speed of sound; and the snooperscope, a gadget to demonstrate infrared waves. (GA)

  5. One-Dimensional Full Wave Simulation of Equatorial Magnetosonic Wave Propagation in an Inhomogeneous Magnetosphere

    NASA Astrophysics Data System (ADS)

    Liu, Xu; Chen, Lunjin; Yang, Lixia; Xia, Zhiyang; Malaspina, David M.

    2018-01-01

    The effect of the plasmapause on equatorially radially propagating fast magnetosonic (MS) waves in the Earth's dipole magnetic field is studied by using finite difference time domain method. We run 1-D simulation for three different density profiles: (1) no plasmapause, (2) with a plasmapause, and (3) with a plasmapause accompanied with fine-scale density irregularity. We find that (1) without plasmapause the radially inward propagating MS wave can reach ionosphere and continuously propagate to lower altitude if no damping mechanism is considered. The wave properties follow the cold plasma dispersion relation locally along its trajectory. (2) For simulation with a plasmapause with a scale length of 0.006 RE compared to wavelength, only a small fraction of the MS wave power is reflected by the plasmapause. WKB approximation is generally valid for such plasmapause. (3) The multiple fine-scale density irregularities near the outer edge of plasmapause can effectively block the MS wave propagation, resulting in a terminating boundary for MS waves near the plasmapause.

  6. Improved Multiple-DOF SAW Piezoelectric Motors

    NASA Technical Reports Server (NTRS)

    Bar-Cohen, Yoseph; Bao, Xiaoqi; Hull, Anthony; Wright, John

    2003-01-01

    Surface-acoustic-wave (SAW) piezoelectric motors of a proposed type would be capable of operating in multiple degrees of freedom (DOFs) simultaneously and would be amenable to integration into diverse structures and mechanisms. These motors would be compact and structurally simple and would not contain bearings or lead screws. One example of a particularly useful motor of this type would be a two-dimensional- translation stage. Another such example would be a self-actuated spherical joint that could be made to undergo controlled, simultaneous rotations about two orthogonal axes: Such a motor could serve as a mechanism for aiming an "eyeball" camera or as a compact transducer in, and an integral part of, a joint in a robot arm. The multiple-DOF SAW piezoelectric motors as now proposed would be successors to the ones reported in "Multiple-DOF Surface-Acoustic-Wave Piezoelectric Motors" (NPO-20735), NASA Tech Briefs, Vol. 24, No. 12 (December 2000), page 5b. The basic principle of operation of a multiple-DOF SAW piezoelectric motor is a straightforward extension of that of single-DOF SAW piezoelectric motors, which have been reported in several previous NASA Tech Briefs articles: For example, in the case of a linear SAW piezoelectric motor, piezoelectric transducers at opposite ends of a stator excite surface acoustic waves that travel along the surface of the stator. An object (denoted the slider) is pressed against the stator with sufficient pressure (in practice .300 MPa) that it remains in frictional contact with the stator at all times. The slider rides the crests of the waves and is thereby made to move along the surface of the stator. The direction of motion (forward or backward) is controlled by selecting the relative phase of waves generated by the two piezoelectric transducers. The speed increases with the amplitude of the waves and thus with the magnitude of the voltage applied to the transducers.

  7. A RAB3GAP1 SINE Insertion in Alaskan Huskies with Polyneuropathy, Ocular Abnormalities, and Neuronal Vacuolation (POANV) Resembling Human Warburg Micro Syndrome 1 (WARBM1)

    PubMed Central

    Wiedmer, Michaela; Oevermann, Anna; Borer-Germann, Stephanie E.; Gorgas, Daniela; Shelton, G. Diane; Drögemüller, Michaela; Jagannathan, Vidhya; Henke, Diana; Leeb, Tosso

    2015-01-01

    We observed a hereditary phenotype in Alaskan Huskies that was characterized by polyneuropathy with ocular abnormalities and neuronal vacuolation (POANV). The affected dogs developed a progressive severe ataxia, which led to euthanasia between 8 and 16 months of age. The pedigrees were consistent with a monogenic autosomal recessive inheritance. We localized the causative genetic defect to a 4 Mb interval on chromosome 19 by a combined linkage and homozygosity mapping approach. Whole genome sequencing of one affected dog, an obligate carrier, and an unrelated control revealed a 218-bp SINE insertion into exon 7 of the RAB3GAP1 gene. The SINE insertion was perfectly associated with the disease phenotype in a cohort of 43 Alaskan Huskies, and it was absent from 541 control dogs of diverse other breeds. The SINE insertion induced aberrant splicing and led to a transcript with a greatly altered exon 7. RAB3GAP1 loss-of-function variants in humans cause Warburg Micro Syndrome 1 (WARBM1), which is characterized by additional developmental defects compared to canine POANV, whereas Rab3gap1-deficient mice have a much milder phenotype than either humans or dogs. Thus, the RAB3GAP1 mutant Alaskan Huskies provide an interesting intermediate phenotype that may help to better understand the function of RAB3GAP1 in development. Furthermore, the identification of the presumed causative genetic variant will enable genetic testing to avoid the nonintentional breeding of affected dogs. PMID:26596647

  8. Frequency Response Evaluation of Multiple Accelerometers Using a Modal Data Acquisition System

    DTIC Science & Technology

    1988-01-01

    Computedi PCB @80 HZ 49mv/g 1@500 HZ 9.3mv/g lImp-sine Ifrom Imp-sine SN (2)V/g figureIV/g figure jV/g l(V/ gpk )xl.414(2)1 857 1 1.17 42 1 1.17 3 1.20 1.20...per g rms, V/ gpk = volts rms per g peak. 15 II Laboratory Transfer Function Procedures - 1. Setup and Power up equipment. a. Setup equipment per

  9. WindWaveFloat (WWF): Final Scientific Report

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Alla Weinstein; Roddier, Dominique; Banister, Kevin

    2012-03-30

    Principle Power Inc. and National Renewable Energy Lab (NREL) have completed a contract to assess the technical and economic feasibility of integrating wave energy converters into the WindFloat, resulting in a new concept called the WindWaveFloat (WWF). The concentration of several devices on one platform could offer a potential for both economic and operational advantages. Wind and wave energy converters can share the electrical cable and power transfer equipment to transport the electricity to shore. Access to multiple generation devices could be simplified, resulting in cost saving at the operational level. Overall capital costs may also be reduced, provided thatmore » the design of the foundation can be adapted to multiple devices with minimum modifications. Finally, the WindWaveFloat confers the ability to increase energy production from individual floating support structures, potentially leading to a reduction in levelized energy costs, an increase in the overall capacity factor, and greater stability of the electrical power delivered to the grid. The research conducted under this grant investigated the integration of several wave energy device types into the WindFloat platform. Several of the resulting system designs demonstrated technical feasibility, but the size and design constraints of the wave energy converters (technical and economic) make the WindWaveFloat concept economically unfeasible at this time. Not enough additional generation could be produced to make the additional expense associated with wave energy conversion integration into the WindFloat worthwhile.« less

  10. Initiation of Insensitive High Explosives Using Multiple Wave Interactions

    NASA Astrophysics Data System (ADS)

    Francois, Elizabeth

    Insensitive High Explosives (IHEs) increase safety in many types of weapons. However, the safety comes at the cost of performance. Initiation of IHE requires large boosters and powerful detonators as well. Multipoint initiation is being utilized to exploit explosive wave interactions to create overdriven states, greatly facilitating the initiation of IHEs. This presentation will focus on recent explosive experiments where the minimum spot size for single-point initiation in PBX 9502 was determined. Below this threshold, PBX 9502 could not be initiated. This was then expanded to three initiation points, which were smaller this threshold. Measurements of the velocity and pressure of the wave interactions were measured using Photon Doppler Velocimetry (PDV). Initiation was observed, and the resulting pressures at the double and triple points were found to be above the CJ state for PBX 9502. Further testing will be performed using cutback experiments to isolate the overdriven state, and quantify the duration of the phenomenon.

  11. Initiation of Insensitive High Explosives Using Multiple Wave Interactions

    NASA Astrophysics Data System (ADS)

    Francois, Elizabeth; Burritt, Rosmary; Biss, Matt; Bowden, Patrick

    2017-06-01

    Insensitive High Explosives (IHEs) increase safety in many types of weapons. However, the safety comes at the cost of performance. Initiation of IHE requires large boosters and powerful detonators as well. Multipoint initiation is being utilized to exploit explosive wave interactions to create overdriven states, greatly facilitating the initiation of IHEs. This presentation will build from recent explosive experiments where the minimum spot size for single-point initiation in PBX 9502 was determined. Below this threshold, PBX 9502 could not be initiated. This was then expanded to three initiation points, which were smaller this threshold. Measurements of the velocity and pressure of the wave interactions were measured using Photon Doppler Velocimetry (PDV). Initiation was observed, and the resulting pressures at the double and triple points were found to be above the CJ state for PBX 9502. Based on these results, further tests were conducted to isolate and measure the longevity and pressure of this phenomenon using cut-back tests. All results will be presented and discussed.

  12. Neural timing signal for precise tactile timing judgments

    PubMed Central

    Watanabe, Junji; Nishida, Shin'ya

    2016-01-01

    The brain can precisely encode the temporal relationship between tactile inputs. While behavioural studies have demonstrated precise interfinger temporal judgments, the underlying neural mechanism remains unknown. Computationally, two kinds of neural responses can act as the information source. One is the phase-locked response to the phase of relatively slow inputs, and the other is the response to the amplitude change of relatively fast inputs. To isolate the contributions of these components, we measured performance of a synchrony judgment task for sine wave and amplitude-modulation (AM) wave stimuli. The sine wave stimulus was a low-frequency sinusoid, with the phase shifted in the asynchronous stimulus. The AM wave stimulus was a low-frequency sinusoidal AM of a 250-Hz carrier, with only the envelope shifted in the asynchronous stimulus. In the experiment, three stimulus pairs, two synchronous ones and one asynchronous one, were sequentially presented to neighboring fingers, and participants were asked to report which one was the asynchronous pair. We found that the asynchrony of AM waves could be detected as precisely as single impulse pair, with the threshold asynchrony being ∼20 ms. On the other hand, the asynchrony of sine waves could not be detected at all in the range from 5 to 30 Hz. Our results suggest that the timing signal for tactile judgments is provided not by the stimulus phase information but by the envelope of the response of the high-frequency-sensitive Pacini channel (PC), although they do not exclude a possible contribution of the envelope of non-PCs. PMID:26843600

  13. Traveling waves in the discrete fast buffered bistable system.

    PubMed

    Tsai, Je-Chiang; Sneyd, James

    2007-11-01

    We study the existence and uniqueness of traveling wave solutions of the discrete buffered bistable equation. Buffered excitable systems are used to model, among other things, the propagation of waves of increased calcium concentration, and discrete models are often used to describe the propagation of such waves across multiple cells. We derive necessary conditions for the existence of waves, and, under some restrictive technical assumptions, we derive sufficient conditions. When the wave exists it is unique and stable.

  14. On Multiple Hall-Like Electron Currents and Tripolar Guide Magnetic Field Perturbations During Kelvin-Helmholtz Waves

    NASA Astrophysics Data System (ADS)

    Sturner, Andrew P.; Eriksson, Stefan; Nakamura, Takuma; Gershman, Daniel J.; Plaschke, Ferdinand; Ergun, Robert E.; Wilder, Frederick D.; Giles, Barbara; Pollock, Craig; Paterson, William R.; Strangeway, Robert J.; Baumjohann, Wolfgang; Burch, James L.

    2018-02-01

    Two magnetopause current sheet crossings with tripolar guide magnetic field signatures were observed by multiple Magnetosphere Multiscale (MMS) spacecraft during Kelvin-Helmholtz wave activity. The two out-of-plane magnetic field depressions of the tripolar guide magnetic field are largely supported by the observed in-plane electron currents, which are reminiscent of two clockwise Hall current loop systems. A comparison with a three-dimensional kinetic simulation of Kelvin-Helmholtz waves and vortex-induced reconnection suggests that MMS likely encountered the two Hall magnetic field depressions on either side of a magnetic reconnection X-line. Moreover, MMS observed an out-of-plane current reversal and a corresponding in-plane magnetic field rotation at the center of one of the current sheets, suggesting the presence of two adjacent flux ropes. The region inside one of the ion-scale flux ropes was characterized by an observed decrease of the total magnetic field, a strong axial current, and significant enhancements of electron density and parallel electron temperature. The flux rope boundary was characterized by currents opposite this axial current, strong in-plane and converging electric fields, parallel electric fields, and weak electron-frame Joule dissipation. These return current region observations may reflect a need to support the axial current rather than representing local reconnection signatures in the absence of any exhausts.

  15. A full-wave Helmholtz model for continuous-wave ultrasound transmission.

    PubMed

    Huttunen, Tomi; Malinen, Matti; Kaipio, Jari P; White, Phillip Jason; Hynynen, Kullervo

    2005-03-01

    A full-wave Helmholtz model of continuous-wave (CW) ultrasound fields may offer several attractive features over widely used partial-wave approximations. For example, many full-wave techniques can be easily adjusted for complex geometries, and multiple reflections of sound are automatically taken into account in the model. To date, however, the full-wave modeling of CW fields in general 3D geometries has been avoided due to the large computational cost associated with the numerical approximation of the Helmholtz equation. Recent developments in computing capacity together with improvements in finite element type modeling techniques are making possible wave simulations in 3D geometries which reach over tens of wavelengths. The aim of this study is to investigate the feasibility of a full-wave solution of the 3D Helmholtz equation for modeling of continuous-wave ultrasound fields in an inhomogeneous medium. The numerical approximation of the Helmholtz equation is computed using the ultraweak variational formulation (UWVF) method. In addition, an inverse problem technique is utilized to reconstruct the velocity distribution on the transducer which is used to model the sound source in the UWVF scheme. The modeling method is verified by comparing simulated and measured fields in the case of transmission of 531 kHz CW fields through layered plastic plates. The comparison shows a reasonable agreement between simulations and measurements at low angles of incidence but, due to mode conversion, the Helmholtz model becomes insufficient for simulating ultrasound fields in plates at large angles of incidence.

  16. Evolution of Two Short Interspersed Elements in Callorhinchus milii (Chondrichthyes, Holocephali) and Related Elements in Sharks and the Coelacanth

    PubMed Central

    Plazzi, Federico; Mantovani, Barbara

    2017-01-01

    Abstract Short interspersed elements (SINEs) are non-autonomous retrotransposons. Although they usually show fast evolutionary rates, in some instances highly conserved domains (HCDs) have been observed in elements with otherwise divergent sequences and from distantly related species. Here, we document the life history of two HCD-SINE families in the elephant shark Callorhinchus milii, one specific to the holocephalan lineage (CmiSINEs) and another one (SacSINE1-CM) with homologous elements in sharks and the coelacanth (SacSINE1s, LmeSINE1s). The analyses of their relationships indicated that these elements share the same 3′-tail, which would have allowed both elements to rise to high copy number by exploiting the C. milii L2-2_CM long interspersed element (LINE) enzymes. Molecular clock analysis on SINE activity in C. milii genome evidenced two replication bursts occurring right after two major events in the holocephalan evolution: the end-Permian mass extinction and the radiation of modern Holocephali. Accordingly, the same analysis on the coelacanth homologous elements, LmeSINE1, identified a replication wave close to the split age of the two extant Latimeria species. The genomic distribution of the studied SINEs pointed out contrasting results: some elements were preferentially sorted out from gene regions, but accumulated in flanking regions, while others appear more conserved within genes. Moreover, data from the C. milii transcriptome suggest that these SINEs could be involved in miRNA biogenesis and may be targets for miRNA-based regulation. PMID:28505260

  17. ANALYTICAL SOLUTION FOR WAVES IN PLANETS WITH ATMOSPHERIC SUPERROTATION. II. LAMB, SURFACE, AND CENTRIFUGAL WAVES

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Peralta, J.; López-Valverde, M. A.; Imamura, T.

    2014-07-01

    This paper is the second in a two-part study devoted to developing tools for a systematic classification of the wide variety of atmospheric waves expected on slowly rotating planets with atmospheric superrotation. Starting with the primitive equations for a cyclostrophic regime, we have deduced the analytical solution for the possible waves, simultaneously including the effect of the metric terms for the centrifugal force and the meridional shear of the background wind. In those cases where the conditions for the method of the multiple scales in height are met, these wave solutions are also valid when vertical shear of the backgroundmore » wind is present. A total of six types of waves have been found and their properties were characterized in terms of the corresponding dispersion relations and wave structures. In this second part, we study the waves' solutions when several atmospheric approximations are applied: Lamb, surface, and centrifugal waves. Lamb and surface waves are found to be quite similar to those in a geostrophic regime. By contrast, centrifugal waves turn out to be a special case of Rossby waves that arise in atmospheres in cyclostrophic balance. Finally, we use our results to identify the nature of the waves behind atmospheric periodicities found in polar and lower latitudes of Venus's atmosphere.« less

  18. Relative sideband amplitudes versus modulation index for common functions using frequency and phase modulation. [for design and testing of communication system

    NASA Technical Reports Server (NTRS)

    Stocklin, F.

    1973-01-01

    The equations defining the amplitude of sidebands resulting from either frequency modulation or phase modulation by either square wave, sine wave, sawtooth or triangular modulating functions are presented. Spectral photographs and computer generated tables of modulation index vs. relative sideband amplitudes are also included.

  19. Mechanical Waves Conceptual Survey: Its Modification and Conversion to a Standard Multiple-Choice Test

    ERIC Educational Resources Information Center

    Barniol, Pablo; Zavala, Genaro

    2016-01-01

    In this article we present several modifications of the mechanical waves conceptual survey, the most important test to date that has been designed to evaluate university students' understanding of four main topics in mechanical waves: propagation, superposition, reflection, and standing waves. The most significant changes are (i) modification of…

  20. Acoustically mediated long-range interaction among multiple spherical particles exposed to a plane standing wave

    NASA Astrophysics Data System (ADS)

    Zhang, Shenwei; Qiu, Chunyin; Wang, Mudi; Ke, Manzhu; Liu, Zhengyou

    2016-11-01

    In this work, we study the acoustically mediated interaction forces among multiple well-separated spherical particles trapped in the same node or antinode plane of a standing wave. An analytical expression of the acoustic interaction force is derived, which is accurate even for the particles beyond the Rayleigh limit. Interestingly, the multi-particle system can be decomposed into a series of independent two-particle systems described by pairwise interactions. Each pairwise interaction is a long-range interaction, as characterized by a soft oscillatory attenuation (at the power exponent of n = -1 or -2). The vector additivity of the acoustic interaction force, which is not well expected considering the nonlinear nature of the acoustic radiation force, is greatly useful for exploring a system consisting of a large number of particles. The capability of self-organizing a big particle cluster can be anticipated through such acoustically controllable long-range interaction.

  1. Internal Gravity Waves Forced by an Isolated Mountain

    NASA Astrophysics Data System (ADS)

    Nikitina, L.; Campbell, L.

    2009-12-01

    Density-stratified fluid flow over topography such as mountains, hills and ridges may give rise to internal gravity waves which transport and distribute energy away from their source and have profound effects on the general circulation of the atmosphere and ocean. Much of our knowledge of internal gravity wave dynamics has been acquired from theoretical studies involving mathematical analyses of simplified forms of the governing equations, as well as numerical simulations at varying levels of approximation. In this study, both analytical and numerical methods are used to examine the nonlinear dynamics of gravity waves forced by an isolated mountain. The topography is represented by a lower boundary condition on a two-dimensional rectangular domain and the waves are represented as a perturbation to the background shear flow, thus allowing the use of weakly-nonlinear and multiple-scale asymptotic analyzes. The waves take the form of a packet, localized in the horizontal direction and comprising a continuous spectrum of horizontal wavenumbers centered at zero. For horizontally-localized wave packets, such as those forced by a mountain range with multiple peaks, there are generally two horizontal scales, the fast (short) scale which is defined by the oscillations within the packet and the slow (large) scale which is defined by the horizontal extent of the packet. In the case of an isolated mountain that we examine here, the multiple-scaling procedure is simplified by the absence of a fast spatial scale. The problem is governed by two small parameters that define the height and width of the mountain and approximate solutions are derived in terms of these parameters. Numerical solutions are also carried out to simulate nonlinear critical-level interactions such as the transfer of energy to the background flow by the wave packet, wave reflection and static instability and, eventually, wave breaking leading to turbulence. It is found that for waves forced by an isolated

  2. Temporal evolutions and stationary waves for dissipative Benjamin-Ono equation

    NASA Astrophysics Data System (ADS)

    Feng, Bao-Feng; Kawahara, Takuji

    2000-05-01

    Initial value problems as well as stationary solitary and periodic waves are investigated for dissipative Benjamin-Ono (DBO) equation. Multi-hump stationary waves and their structures are identified numerically and the stability regions of stationary periodic waves are also examined numerically. These results elucidate a close relation between irregular behaviours in the initial value problem and the multiplicity of stationary waves.

  3. A semi-analytical method for near-trapped mode and fictitious frequencies of multiple scattering by an array of elliptical cylinders in water waves

    NASA Astrophysics Data System (ADS)

    Chen, Jeng-Tzong; Lee, Jia-Wei

    2013-09-01

    In this paper, we focus on the water wave scattering by an array of four elliptical cylinders. The null-field boundary integral equation method (BIEM) is used in conjunction with degenerate kernels and eigenfunctions expansion. The closed-form fundamental solution is expressed in terms of the degenerate kernel containing the Mathieu and the modified Mathieu functions in the elliptical coordinates. Boundary densities are represented by using the eigenfunction expansion. To avoid using the addition theorem to translate the Mathieu functions, the present approach can solve the water wave problem containing multiple elliptical cylinders in a semi-analytical manner by introducing the adaptive observer system. Regarding water wave problems, the phenomena of numerical instability of fictitious frequencies may appear when the BIEM/boundary element method (BEM) is used. Besides, the near-trapped mode for an array of four identical elliptical cylinders is observed in a special layout. Both physical (near-trapped mode) and mathematical (fictitious frequency) resonances simultaneously appear in the present paper for a water wave problem by an array of four identical elliptical cylinders. Two regularization techniques, the combined Helmholtz interior integral equation formulation (CHIEF) method and the Burton and Miller approach, are adopted to alleviate the numerical resonance due to fictitious frequency.

  4. Palaeomagnetism in the Sines massif (SW Iberia) revisited: evidences for Late Cretaceous hydrothermal alteration and associated partial remagnetization

    NASA Astrophysics Data System (ADS)

    Ribeiro, P.; Silva, P. F.; Moita, P.; Kratinová, Z.; Marques, F. O.; Henry, B.

    2013-10-01

    This study revisits the palaeomagnetism of the Sines massif (˜76 Ma) in the southwestern Iberian Margin (Portugal). The palaeomagnetic analysis was complemented by a comprehensive study of the magnetic mineralogy by means of rock magnetic measurements and petrographic observations. The overall dispersion of palaeomagnetic directions (declination ranging between ˜N0° and ˜N50°) and their migration observed during stepwise demagnetizations have revealed the superposition of remanence components. We interpret this complex palaeomagnetic behaviour as related to the regional hydrothermalism associated with the last stages of Late Cretaceous magmatic activity. This environment favoured mineralogical alteration and a partial chemical remagnetization, giving in most samples a composite magnetization, which has been erroneously interpreted as the primary one in a previous study, then leading to a questionable model for Cretaceous Iberia rotation. Nonetheless, for some samples a single component has been isolated. Interesting rock magnetic properties and microscopic observations point to a well-preserved magnetic mineralogy for these samples, with magnetite clearly of primary origin. The associated ChRM mean direction (D/I = 3.9°/46.5°, α95 = 1.7°, N = 31 samples) then represents the true primary magnetization of the Sines massif. This new palaeomagnetic direction and the corresponding palaeomagnetic pole (long = 332.0°, lat = -79.5°, A95 = 1.7°) agrees with those from the other palaeomagnetic works for the same period and region (e.g. the Sintra and Monchique massifs), yielding a lack of significant rotation of Iberia relative to stable Europe since the uppermost Late Cretaceous (Campanian-Maastrichtian).

  5. Reverberant shear wave fields and estimation of tissue properties

    NASA Astrophysics Data System (ADS)

    Parker, Kevin J.; Ormachea, Juvenal; Zvietcovich, Fernando; Castaneda, Benjamin

    2017-02-01

    The determination of shear wave speed is an important subject in the field of elastography, since elevated shear wave speeds can be directly linked to increased stiffness of tissues. MRI and ultrasound scanners are frequently used to detect shear waves and a variety of estimators are applied to calculate the underlying shear wave speed. The estimators can be relatively simple if plane wave behavior is assumed with a known direction of propagation. However, multiple reflections from organ boundaries and internal inhomogeneities and mode conversions can create a complicated field in time and space. Thus, we explore the mathematics of multiple component shear wave fields and derive the basic properties, from which efficient estimators can be obtained. We approach this problem from the historic perspective of reverberant fields, a conceptual framework used in architectural acoustics and related fields. The framework can be recast for the alternative case of shear waves in a bounded elastic media, and the expected value of displacement patterns in shear reverberant fields are derived, along with some practical estimators of shear wave speed. These are applied to finite element models and phantoms to illustrate the characteristics of reverberant fields and provide preliminary confirmation of the overall framework.

  6. A Miniature Magnetic-Force-Based Three-Axis AC Magnetic Sensor with Piezoelectric/Vibrational Energy-Harvesting Functions

    PubMed Central

    Hung, Chiao-Fang; Yeh, Po-Chen; Chung, Tien-Kan

    2017-01-01

    In this paper, we demonstrate a miniature magnetic-force-based, three-axis, AC magnetic sensor with piezoelectric/vibrational energy-harvesting functions. For magnetic sensing, the sensor employs a magnetic–mechanical–piezoelectric configuration (which uses magnetic force and torque, a compact, single, mechanical mechanism, and the piezoelectric effect) to convert x-axis and y-axis in-plane and z-axis magnetic fields into piezoelectric voltage outputs. Under the x-axis magnetic field (sine-wave, 100 Hz, 0.2–3.2 gauss) and the z-axis magnetic field (sine-wave, 142 Hz, 0.2–3.2 gauss), the voltage output with the sensitivity of the sensor are 1.13–26.15 mV with 8.79 mV/gauss and 1.31–8.92 mV with 2.63 mV/gauss, respectively. In addition, through this configuration, the sensor can harness ambient vibrational energy, i.e., possessing piezoelectric/vibrational energy-harvesting functions. Under x-axis vibration (sine-wave, 100 Hz, 3.5 g) and z-axis vibration (sine-wave, 142 Hz, 3.8 g), the root-mean-square voltage output with power output of the sensor is 439 mV with 0.333 μW and 138 mV with 0.051 μW, respectively. These results show that the sensor, using this configuration, successfully achieves three-axis magnetic field sensing and three-axis vibration energy-harvesting. Due to these features, the three-axis AC magnetic sensor could be an important design reference in order to develop future three-axis AC magnetic sensors, which possess energy-harvesting functions, for practical industrial applications, such as intelligent vehicle/traffic monitoring, processes monitoring, security systems, and so on. PMID:28208693

  7. Get the LED Out.

    ERIC Educational Resources Information Center

    Jewett, John W., Jr.

    1991-01-01

    Describes science demonstrations with light-emitting diodes that include electrical concepts of resistance, direct and alternating current, sine wave versus square wave, series and parallel circuits, and Faraday's Law; optics concepts of real and virtual images, photoresistance, and optical communication; and modern physics concepts of spectral…

  8. Simulation of breaking waves using the high-order spectral method with laboratory experiments: Wave-breaking onset

    NASA Astrophysics Data System (ADS)

    Seiffert, Betsy R.; Ducrozet, Guillaume; Bonnefoy, Félicien

    2017-11-01

    This study investigates a wave-breaking onset criteria to be implemented in the non-linear potential flow solver HOS-NWT. The model is a computationally efficient, open source code, which solves for the free surface in a numerical wave tank using the High-Order Spectral (HOS) method. The goal of this study is to determine the best method to identify the onset of random single and multiple breaking waves over a large domain at the exact time they occur. To identify breaking waves, a breaking onset criteria based on the ratio of local energy flux velocity to the local crest velocity, introduced by Barthelemy et al. (2017) is selected. The breaking parameter is uniquely applied in the numerical model in that calculations of the breaking onset criteria ratio are not made only at the location of the wave crest, but at every point in the domain and at every time step. This allows the model to calculate the onset of a breaking wave the moment it happens, and without knowing anything about the wave a priori. The application of the breaking criteria at every point in the domain and at every time step requires the phase velocity to be calculated instantaneously everywhere in the domain and at every time step. This is achieved by calculating the instantaneous phase velocity using the Hilbert transform and dispersion relation. A comparison between more traditional crest-tracking techniques shows the calculation of phase velocity using Hilbert transform at the location of the breaking wave crest provides a good approximation of crest velocity. The ability of the selected wave breaking criteria to predict single and multiple breaking events in two dimensions is validated by a series of large-scale experiments. Breaking waves are generated by energy focusing and modulational instability methods, with a wide range of primary frequencies. Steep irregular waves which lead to breaking waves, and irregular waves with an energy focusing wave superimposed are also generated. This set of

  9. Sinusoidal transform coding

    NASA Technical Reports Server (NTRS)

    Mcaulay, Robert J.; Quatieri, Thomas F.

    1988-01-01

    It has been shown that an analysis/synthesis system based on a sinusoidal representation of speech leads to synthetic speech that is essentially perceptually indistinguishable from the original. Strategies for coding the amplitudes, frequencies and phases of the sine waves have been developed that have led to a multirate coder operating at rates from 2400 to 9600 bps. The encoded speech is highly intelligible at all rates with a uniformly improving quality as the data rate is increased. A real-time fixed-point implementation has been developed using two ADSP2100 DSP chips. The methods used for coding and quantizing the sine-wave parameters for operation at the various frame rates are described.

  10. Comparison of Gravity Wave Temperature Variances from Ray-Based Spectral Parameterization of Convective Gravity Wave Drag with AIRS Observations

    NASA Technical Reports Server (NTRS)

    Choi, Hyun-Joo; Chun, Hye-Yeong; Gong, Jie; Wu, Dong L.

    2012-01-01

    The realism of ray-based spectral parameterization of convective gravity wave drag, which considers the updated moving speed of the convective source and multiple wave propagation directions, is tested against the Atmospheric Infrared Sounder (AIRS) onboard the Aqua satellite. Offline parameterization calculations are performed using the global reanalysis data for January and July 2005, and gravity wave temperature variances (GWTVs) are calculated at z = 2.5 hPa (unfiltered GWTV). AIRS-filtered GWTV, which is directly compared with AIRS, is calculated by applying the AIRS visibility function to the unfiltered GWTV. A comparison between the parameterization calculations and AIRS observations shows that the spatial distribution of the AIRS-filtered GWTV agrees well with that of the AIRS GWTV. However, the magnitude of the AIRS-filtered GWTV is smaller than that of the AIRS GWTV. When an additional cloud top gravity wave momentum flux spectrum with longer horizontal wavelength components that were obtained from the mesoscale simulations is included in the parameterization, both the magnitude and spatial distribution of the AIRS-filtered GWTVs from the parameterization are in good agreement with those of the AIRS GWTVs. The AIRS GWTV can be reproduced reasonably well by the parameterization not only with multiple wave propagation directions but also with two wave propagation directions of 45 degrees (northeast-southwest) and 135 degrees (northwest-southeast), which are optimally chosen for computational efficiency.

  11. Numerical modeling of planetary-scale waves on Jupiter

    NASA Astrophysics Data System (ADS)

    Cosentino, Richard; Morales-Juberias, Raul; Simon, Amy

    2014-11-01

    The atmosphere of Jupiter has multiple alternating east-wind wind jets with different cloud morphologies some of which can be explained by the presence of atmospheric waves. One jet feature observed by Cassini and HST at 30N, called the Jovian Ribbon for its similarity to Saturn's Ribbon, displays chaotic cloud morphology caused by multiple wave components with dominating planetary scale wave-numbers ranging from 13 to 30. Both the cloud morphology and the dominant wave numbers observed change as a function of time and correlate to changes in the jet's speed. The average speed of the westward jet where this Jovian Ribbon is found is small compared to other notable jets that display wave behavior, namely the high velocity eastward jets at 7N (hot spots) and 7S (chevrons). We present the results of numerical simulations that show how attributes like jet speed, location, vertical shear and other background properties of the atmosphere (e.g. static stability) contribute to the development and evolution of wave structures in jets similar to those observed. Additionally, we explore the effects of local convective events and other atmospheric disturbances such as spots, on the morphology of these jets and waves. This work was supported by NASA PATM grant number NNX14AH47G. Computing resources for this research were provided by NMT and Yellowstone at CISL.

  12. A Statistical Tool for Examining Heat Waves and Other Extreme Phenomena Arising from Multiple Factors

    NASA Astrophysics Data System (ADS)

    Cooley, D. S.; Castillo, F.; Thibaud, E.

    2017-12-01

    A 2015 heatwave in Pakistan is blamed for over a thousand deaths. This event consisted of several days of very high temperatures and unusually high humidity for this region. However, none of these days exceeded the threshold for "extreme danger" in terms of the heat index. The heat index is a univariate function of both temperature and humidity which is universally applied at all locations regardless of local climate. Understanding extremes which arise from multiple factors is challenging. In this paper we will present a tool for examining bivariate extreme behavior. The tool, developed in the statistical software R, draws isolines of equal exceedance probability. These isolines can be understood as bivariate "return levels". The tool is based on a dependence framework specific for extremes, is semiparametric, and is able to extrapolate isolines beyond the range of the data. We illustrate this tool using the Pakistan heat wave data and other bivariate data.

  13. Dynamic Spectral Structure Specifies Vowels for Adults and Children

    PubMed Central

    Nittrouer, Susan; Lowenstein, Joanna H.

    2014-01-01

    The dynamic specification account of vowel recognition suggests that formant movement between vowel targets and consonant margins is used by listeners to recognize vowels. This study tested that account by measuring contributions to vowel recognition of dynamic (i.e., time-varying) spectral structure and coarticulatory effects on stationary structure. Adults and children (four-and seven-year-olds) were tested with three kinds of consonant-vowel-consonant syllables: (1) unprocessed; (2) sine waves that preserved both stationary coarticulated and dynamic spectral structure; and (3) vocoded signals that primarily preserved that stationary, but not dynamic structure. Sections of two lengths were removed from syllable middles: (1) half the vocalic portion; and (2) all but the first and last three pitch periods. Adults performed accurately with unprocessed and sine-wave signals, as long as half the syllable remained; their recognition was poorer for vocoded signals, but above chance. Seven-year-olds performed more poorly than adults with both sorts of processed signals, but disproportionately worse with vocoded than sine-wave signals. Most four-year-olds were unable to recognize vowels at all with vocoded signals. Conclusions were that both dynamic and stationary coarticulated structures support vowel recognition for adults, but children attend to dynamic spectral structure more strongly because early phonological organization favors whole words. PMID:25536845

  14. Power conditioning system for energy sources

    DOEpatents

    Mazumder, Sudip K [Chicago, IL; Burra, Rajni K [Chicago, IL; Acharya, Kaustuva [Chicago, IL

    2008-05-13

    Apparatus for conditioning power generated by an energy source includes an inverter for converting a DC input voltage from the energy source to a square wave AC output voltage, and a converter for converting the AC output voltage from the inverter to a sine wave AC output voltage.

  15. Josephson junctions of multiple superconducting wires

    NASA Astrophysics Data System (ADS)

    Deb, Oindrila; Sengupta, K.; Sen, Diptiman

    2018-05-01

    We study the spectrum of Andreev bound states and Josephson currents across a junction of N superconducting wires which may have s - or p -wave pairing symmetries and develop a scattering matrix based formalism which allows us to address transport across such junctions. For N ≥3 , it is well known that Berry curvature terms contribute to the Josephson currents; we chart out situations where such terms can have relatively large effects. For a system of three s -wave or three p -wave superconductors, we provide analytic expressions for the Andreev bound-state energies and study the Josephson currents in response to a constant voltage applied across one of the wires; we find that the integrated transconductance at zero temperature is quantized to integer multiples of 4 e2/h , where e is the electron charge and h =2 π ℏ is Planck's constant. For a sinusoidal current with frequency ω applied across one of the wires in the junction, we find that Shapiro plateaus appear in the time-averaged voltage across that wire for any rational fractional multiple (in contrast to only integer multiples in junctions of two wires) of 2 e /(ℏ ω ) . We also use our formalism to study junctions of two p -wave and one s -wave wires. We find that the corresponding Andreev bound-state energies depend on the spin of the Bogoliubov quasiparticles; this produces a net magnetic moment in such junctions. The time variation of these magnetic moments may be controlled by an external voltage applied across the junction. We discuss experiments which may test our theory.

  16. Evolution of Two Short Interspersed Elements in Callorhinchus milii (Chondrichthyes, Holocephali) and Related Elements in Sharks and the Coelacanth.

    PubMed

    Luchetti, Andrea; Plazzi, Federico; Mantovani, Barbara

    2017-06-01

    Short interspersed elements (SINEs) are non-autonomous retrotransposons. Although they usually show fast evolutionary rates, in some instances highly conserved domains (HCDs) have been observed in elements with otherwise divergent sequences and from distantly related species. Here, we document the life history of two HCD-SINE families in the elephant shark Callorhinchus milii, one specific to the holocephalan lineage (CmiSINEs) and another one (SacSINE1-CM) with homologous elements in sharks and the coelacanth (SacSINE1s, LmeSINE1s). The analyses of their relationships indicated that these elements share the same 3'-tail, which would have allowed both elements to rise to high copy number by exploiting the C. milii L2-2_CM long interspersed element (LINE) enzymes. Molecular clock analysis on SINE activity in C. milii genome evidenced two replication bursts occurring right after two major events in the holocephalan evolution: the end-Permian mass extinction and the radiation of modern Holocephali. Accordingly, the same analysis on the coelacanth homologous elements, LmeSINE1, identified a replication wave close to the split age of the two extant Latimeria species. The genomic distribution of the studied SINEs pointed out contrasting results: some elements were preferentially sorted out from gene regions, but accumulated in flanking regions, while others appear more conserved within genes. Moreover, data from the C. milii transcriptome suggest that these SINEs could be involved in miRNA biogenesis and may be targets for miRNA-based regulation. © The Author 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

  17. Rogue waves in multiple-solitons-inelastic collisions — The complex Sharma-Tasso-Olver equation

    NASA Astrophysics Data System (ADS)

    Abdel-Gawad, H. I.; Tantawy, M.

    2018-03-01

    Very recently, a mechanism to the formation of rogue waves (RWs) has been proposed by the authors. In this paper, the formation of RWs in case of the complex Sharma-Tasso-Olver (STO) equation is studied. In the STO equation, one, two and three-soliton solutions are obtained. Due to the inelastic collisions, these soliton waves are fused to one. Under the free parameters constraint this behavior do occurs. The mechanism of formation of RWs is due to the collisions of solitons and multi-periodic waves (like spectral band). These RWs as giant waves, which may be very sharp or chaotic are similar to RWs in laser. The work is done here by using the generalized unified method (GUM).

  18. Spiraling Light with Magnetic Metamaterial Quarter-Wave Turbines.

    PubMed

    Zeng, Jinwei; Luk, Ting S; Gao, Jie; Yang, Xiaodong

    2017-09-19

    Miniaturized quarter-wave plate devices empower spin to orbital angular momentum conversion and vector polarization formation, which serve as bridges connecting conventional optical beam and structured light. Enabling the manipulability of additional dimensions as the complex polarization and phase of light, quarter-wave plate devices are essential for exploring a plethora of applications based on orbital angular momentum or vector polarization, such as optical sensing, holography, and communication. Here we propose and demonstrate the magnetic metamaterial quarter-wave turbines at visible wavelength to produce radially and azimuthally polarized vector vortices from circularly polarized incident beam. The magnetic metamaterials function excellently as quarter-wave plates at single wavelength and maintain the quarter-wave phase retardation in broadband, while the turbine blades consist of multiple polar sections, each of which contains homogeneously oriented magnetic metamaterial gratings near azimuthal or radial directions to effectively convert circular polarization to linear polarization and induce phase shift under Pancharatnum-Berry's phase principle. The perspective concept of multiple polar sections of magnetic metamaterials can extend to other analogous designs in the strongly coupled nanostructures to accomplish many types of light phase-polarization manipulation and structured light conversion in the desired manner.

  19. Short-crested waves in the surf zone

    NASA Astrophysics Data System (ADS)

    Wei, Zhangping; Dalrymple, Robert A.; Xu, Munan; Garnier, Roland; Derakhti, Morteza

    2017-05-01

    This study investigates short-crested waves in the surf zone by using the mesh-free Smoothed Particle Hydrodynamics model, GPUSPH. The short-crested waves are created by generating intersecting wave trains in a numerical wave basin with a beach. We first validate the numerical model for short-crested waves by comparison with large-scale laboratory measurements. Then short-crested wave breaking over a planar beach is studied comprehensively. We observe rip currents as discussed in Dalrymple (1975) and undertow created by synchronous intersecting waves. The wave breaking of the short-crested wavefield created by the nonlinear superposition of intersecting waves and wave-current interaction result in the formation of isolated breakers at the ends of breaking wave crests. Wave amplitude diffraction at these isolated breakers gives rise to an increase in the alongshore wave number in the inner surf zone. Moreover, 3-D vortices and multiple circulation cells with a rotation frequency much lower than the incident wave frequency are observed across the outer surf zone to the beach. Finally, we investigate vertical vorticity generation under short-crested wave breaking and find that breaking of short-crested waves generates vorticity as pointed out by Peregrine (1998). Vorticity generation is not only observed under short-crested waves with a limited number of wave components but also under directional wave spectra.

  20. Remote-Controlled Rotorcraft Blade Vibration and Modal Analysis at Low Frequencies

    DTIC Science & Technology

    2016-02-01

    modal analysis, remote-controlled helicopter , remote-controlled rotorcraft, HUMS for rotorcraft 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF...Experimental Setup 1 4. Results 4 4.1 Rotor Blade Acceleration 4 4.2 Modal Analysis: Using an Impact Hammer 7 4.3 Dynamic Response Revisited 8 5... Rotor blade response to shaker outputting 1-V sine wave at 100 Hz ....5 Fig. 6 Rotor blade response to shaker outputting 1-V sine sweep from 20- to 100

  1. New methods for engineering site characterization using reflection and surface wave seismic survey

    NASA Astrophysics Data System (ADS)

    Chaiprakaikeow, Susit

    This study presents two new seismic testing methods for engineering application, a new shallow seismic reflection method and Time Filtered Analysis of Surface Waves (TFASW). Both methods are described in this dissertation. The new shallow seismic reflection was developed to measure reflection at a single point using two to four receivers, assuming homogeneous, horizontal layering. It uses one or more shakers driven by a swept sine function as a source, and the cross-correlation technique to identify wave arrivals. The phase difference between the source forcing function and the ground motion due to the dynamic response of the shaker-ground interface was corrected by using a reference geophone. Attenuated high frequency energy was also recovered using the whitening in frequency domain. The new shallow seismic reflection testing was performed at the crest of Porcupine Dam in Paradise, Utah. The testing used two horizontal Vibroseis sources and four receivers for spacings between 6 and 300 ft. Unfortunately, the results showed no clear evidence of the reflectors despite correction of the magnitude and phase of the signals. However, an improvement in the shape of the cross-correlations was noticed after the corrections. The results showed distinct primary lobes in the corrected cross-correlated signals up to 150 ft offset. More consistent maximum peaks were observed in the corrected waveforms. TFASW is a new surface (Rayleigh) wave method to determine the shear wave velocity profile at a site. It is a time domain method as opposed to the Spectral Analysis of Surface Waves (SASW) method, which is a frequency domain method. This method uses digital filtering to optimize bandwidth used to determine the dispersion curve. Results from testings at three different sites in Utah indicated good agreement with the dispersion curves measured using both TFASW and SASW methods. The advantage of TFASW method is that the dispersion curves had less scatter at long wavelengths as a

  2. Improving wave forecasting by integrating ensemble modelling and machine learning

    NASA Astrophysics Data System (ADS)

    O'Donncha, F.; Zhang, Y.; James, S. C.

    2017-12-01

    Modern smart-grid networks use technologies to instantly relay information on supply and demand to support effective decision making. Integration of renewable-energy resources with these systems demands accurate forecasting of energy production (and demand) capacities. For wave-energy converters, this requires wave-condition forecasting to enable estimates of energy production. Current operational wave forecasting systems exhibit substantial errors with wave-height RMSEs of 40 to 60 cm being typical, which limits the reliability of energy-generation predictions thereby impeding integration with the distribution grid. In this study, we integrate physics-based models with statistical learning aggregation techniques that combine forecasts from multiple, independent models into a single "best-estimate" prediction of the true state. The Simulating Waves Nearshore physics-based model is used to compute wind- and currents-augmented waves in the Monterey Bay area. Ensembles are developed based on multiple simulations perturbing input data (wave characteristics supplied at the model boundaries and winds) to the model. A learning-aggregation technique uses past observations and past model forecasts to calculate a weight for each model. The aggregated forecasts are compared to observation data to quantify the performance of the model ensemble and aggregation techniques. The appropriately weighted ensemble model outperforms an individual ensemble member with regard to forecasting wave conditions.

  3. Continuously phase-modulated standing surface acoustic waves for separation of particles and cells in microfluidic channels containing multiple pressure nodes

    NASA Astrophysics Data System (ADS)

    Lee, Junseok; Rhyou, Chanryeol; Kang, Byungjun; Lee, Hyungsuk

    2017-04-01

    This paper describes continuously phase-modulated standing surface acoustic waves (CPM-SSAW) and its application for particle separation in multiple pressure nodes. A linear change of phase in CPM-SSAW applies a force to particles whose magnitude depends on their size and contrast factors. During continuous phase modulation, we demonstrate that particles with a target dimension are translated in the direction of moving pressure nodes, whereas smaller particles show oscillatory movements. The rate of phase modulation is optimized for separation of target particles from the relationship between mean particle velocity and period of oscillation. The developed technique is applied to separate particles of a target dimension from the particle mixture. Furthermore, we also demonstrate human keratinocyte cells can be separated in the cell and bead mixture. The separation technique is incorporated with a microfluidic channel spanning multiple pressure nodes, which is advantageous over separation in a single pressure node in terms of throughput.

  4. Nonlinear attenuation of S-waves and Love waves within ambient rock

    NASA Astrophysics Data System (ADS)

    Sleep, Norman H.; Erickson, Brittany A.

    2014-04-01

    obtain scaling relationships for nonlinear attenuation of S-waves and Love waves within sedimentary basins to assist numerical modeling. These relationships constrain the past peak ground velocity (PGV) of strong 3-4 s Love waves from San Andreas events within Greater Los Angeles, as well as the maximum PGV of future waves that can propagate without strong nonlinear attenuation. During each event, the shaking episode cracks the stiff, shallow rock. Over multiple events, this repeated damage in the upper few hundred meters leads to self-organization of the shear modulus. Dynamic strain is PGV divided by phase velocity, and dynamic stress is strain times the shear modulus. The frictional yield stress is proportional to depth times the effective coefficient of friction. At the eventual quasi-steady self-organized state, the shear modulus increases linearly with depth allowing inference of past typical PGV where rock over the damaged depth range barely reaches frictional failure. Still greater future PGV would cause frictional failure throughout the damaged zone, nonlinearly attenuating the wave. Assuming self-organization has taken place, estimated maximum past PGV within Greater Los Angeles Basins is 0.4-2.6 m s-1. The upper part of this range includes regions of accumulating sediments with low S-wave velocity that may have not yet compacted, rather than having been damaged by strong shaking. Published numerical models indicate that strong Love waves from the San Andreas Fault pass through Whittier Narrows. Within this corridor, deep drawdown of the water table from its currently shallow and preindustrial levels would nearly double PGV of Love waves reaching Downtown Los Angeles.

  5. Pattern masking: the importance of remote spatial frequencies and their phase alignment.

    PubMed

    Huang, Pi-Chun; Maehara, Goro; May, Keith A; Hess, Robert F

    2012-02-16

    To assess the effects of spatial frequency and phase alignment of mask components in pattern masking, target threshold vs. mask contrast (TvC) functions for a sine-wave grating (S) target were measured for five types of mask: a sine-wave grating (S), a square-wave grating (Q), a missing fundamental square-wave grating (M), harmonic complexes consisting of phase-scrambled harmonics of a square wave (Qp), and harmonic complexes consisting of phase-scrambled harmonics of a missing fundamental square wave (Mp). Target and masks had the same fundamental frequency (0.46 cpd) and the target was added in phase with the fundamental frequency component of the mask. Under monocular viewing conditions, the strength of masking depends on phase relationships among mask spatial frequencies far removed from that of the target, at least 3 times the target frequency, only when there are common target and mask spatial frequencies. Under dichoptic viewing conditions, S and Q masks produced similar masking to each other and the phase-scrambled masks (Qp and Mp) produced less masking. The results suggest that pattern masking is spatial frequency broadband in nature and sensitive to the phase alignments of spatial components.

  6. Multiple Ions Resonant Heating and Acceleration by Alfven/cyclotron Fluctuations in the Solar Wind

    NASA Astrophysics Data System (ADS)

    Xie, H.; Ofman, L.

    2003-12-01

    We study the interaction between protons, and multiple minor ions (O5+, He++) and a given cyclotron resonant spectra in coronal hole plasma. One-dimensional hybrid simulations are performed in initially homogeneous, collisionless, magnetized plasma with waves propagating parallel to the background magnetic field. The self-consistent hybrid simulations are used to study how multiple minor species may affect the resonance interaction between a spectrum of waves and the solar wind protons. The results of the simulations provide a clear picture of wave-particle interaction under various coronal conditions, which can explain 1) how multiple minor ions affect the resonant heating and the temperature anisotropy of the solar wind protons by a given wave spectrum; 2) how energy is distributed and transferred among waves and different ion species; 3) the growth and damping of different beam microinstability modes, including both inward and outward waves; 4) the formation of proton double-peak distribution in the solar wind.

  7. Vestibular evoked myogenic potential findings in multiple sclerosis.

    PubMed

    Escorihuela García, Vicente; Llópez Carratalá, Ignacio; Orts Alborch, Miguel; Marco Algarra, Jaime

    2013-01-01

    Multiple sclerosis is an inflammatory disease involving the occurrence of demyelinating, chronic neurodegenerative lesions in the central nervous system. We studied vestibular evoked myogenic potentials (VEMPs) in this pathology, to allow us to evaluate the saccule, inferior vestibular nerve and vestibular-spinal pathway non-invasively. There were 23 patients diagnosed with multiple sclerosis who underwent VEMP recordings, comparing our results with a control group consisting of 35 healthy subjects. We registered p13 and n23 wave latencies, interaural amplitude difference and asymmetry ratio between both ears. Subjects also underwent an otoscopy and audiometric examination. The prolongation of p13 and n23 wave latencies was the most notable characteristic, with a mean p13 wave latency of 19.53 milliseconds and a mean latency of 30.06 milliseconds for n23. In contrast, the asymmetry index showed no significant differences with our control group. In case of multiple sclerosis, the prolongation of the p13 and n23 VEMP wave latencies is a feature that has been attributed to slowing of conduction by demyelination of the vestibular-spinal pathway. In this regard, alteration of the response or lack thereof in these potentials has a locator value of injury to the lower brainstem. Copyright © 2013 Elsevier España, S.L. All rights reserved.

  8. Frequency shift of the Bragg and Non-Bragg backscattering from periodic water wave

    NASA Astrophysics Data System (ADS)

    Wen, Biyang; Li, Ke

    2016-08-01

    Doppler effect is used to measure the relative speed of a moving target with respect to the radar, and is also used to interpret the frequency shift of the backscattering from the ocean wave according to the water-wave phase velocity. The widely known relationship between the Doppler shift and the water-wave phase velocity was deduced from the scattering measurements data collected from actual sea surface, and has not been verified under man-made conditions. Here we show that this ob- served frequency shift of the scattering data from the Bragg and Non-Bragg water wave is not the Doppler shift corresponding to the water-wave phase velocity as commonly believed, but is the water-wave frequency and its integral multiple frequency. The power spectrum of the backscatter from the periodic water wave consists of serials discrete peaks, which is equally spaced by water wave frequency. Only when the water-wave length is the integer multiples of the Bragg wave, and the radar range resolution is infinite, does the frequency shift of the backscattering mathematically equal the Doppler shift according to the water-wave phase velocity.

  9. Generating multiple orbital angular momentum vortex beams using a metasurface in radio frequency domain

    NASA Astrophysics Data System (ADS)

    Yu, Shixing; Li, Long; Shi, Guangming; Zhu, Cheng; Shi, Yan

    2016-06-01

    In this paper, an electromagnetic metasurface is designed, fabricated, and experimentally demonstrated to generate multiple orbital angular momentum (OAM) vortex beams in radio frequency domain. Theoretical formula of compensated phase-shift distribution is deduced and used to design the metasurface to produce multiple vortex radio waves in different directions with different OAM modes. The prototype of a practical configuration of square-patch metasurface is designed, fabricated, and measured to validate the theoretical analysis at 5.8 GHz. The simulated and experimental results verify that multiple OAM vortex waves can be simultaneously generated by using a single electromagnetic metasurface. The proposed method paves an effective way to generate multiple OAM vortex waves in radio and microwave wireless communication applications.

  10. Surface-Wave Pulse Routing around Sharp Right Angles

    NASA Astrophysics Data System (ADS)

    Gao, Z.; Xu, H.; Gao, F.; Zhang, Y.; Luo, Y.; Zhang, B.

    2018-04-01

    Surface-plasmon polaritons (SPPs), or localized electromagnetic surface waves propagating on a metal-dielectric interface, are deemed promising information carriers for future subwavelength terahertz and optical photonic circuitry. However, surface waves fundamentally suffer from scattering loss when encountering sharp corners in routing and interconnection of photonic signals. Previous approaches enabling scattering-free surface-wave guidance around sharp corners are limited to either volumetric waveguide environments or extremely narrow bandwidth, being unable to guide a surface-wave pulse (SPP wave packet) on an on-chip platform. Here, in a surface-wave band-gap crystal implemented on a single metal surface, we demonstrate in time-domain routing a surface-wave pulse around multiple sharp right angles without perceptible scattering. Our work not only offers a solution to on-chip surface-wave pulse routing along an arbitrary path, but it also provides spatiotemporal information on the interplay between surface-wave pulses and sharp corners, both of which are desirable in developing high-performance large-scale integrated photonic circuits.

  11. PCR and magnetic bead-mediated target capture for the isolation of short interspersed nucleotide elements in fishes.

    PubMed

    Liu, Dong; Zhu, Guoli; Tang, Wenqiao; Yang, Jinquan; Guo, Hongyi

    2012-01-01

    Short interspersed nucleotide elements (SINEs), a type of retrotransposon, are widely distributed in various genomes with multiple copies arranged in different orientations, and cause changes to genes and genomes during evolutionary history. This can provide the basis for determining genome diversity, genetic variation and molecular phylogeny, etc. SINE DNA is transcribed into RNA by polymerase III from an internal promoter, which is composed of two conserved boxes, box A and box B. Here we present an approach to isolate novel SINEs based on these promoter elements. Box A of a SINE is obtained via PCR with only one primer identical to box B (B-PCR). Box B and its downstream sequence are acquired by PCR with one primer corresponding to box A (A-PCR). The SINE clone produced by A-PCR is selected as a template to label a probe with biotin. The full-length SINEs are isolated from the genomic pool through complex capture using the biotinylated probe bound to magnetic particles. Using this approach, a novel SINE family, Cn-SINE, from the genomes of Coilia nasus, was isolated. The members are 180-360 bp long. Sequence homology suggests that Cn-SINEs evolved from a leucine tRNA gene. This is the first report of a tRNA(Leu)-related SINE obtained without the use of a genomic library or inverse PCR. These results provide new insights into the origin of SINEs.

  12. PCR and Magnetic Bead-Mediated Target Capture for the Isolation of Short Interspersed Nucleotide Elements in Fishes

    PubMed Central

    Liu, Dong; Zhu, Guoli; Tang, Wenqiao; Yang, Jinquan; Guo, Hongyi

    2012-01-01

    Short interspersed nucleotide elements (SINEs), a type of retrotransposon, are widely distributed in various genomes with multiple copies arranged in different orientations, and cause changes to genes and genomes during evolutionary history. This can provide the basis for determining genome diversity, genetic variation and molecular phylogeny, etc. SINE DNA is transcribed into RNA by polymerase III from an internal promoter, which is composed of two conserved boxes, box A and box B. Here we present an approach to isolate novel SINEs based on these promoter elements. Box A of a SINE is obtained via PCR with only one primer identical to box B (B-PCR). Box B and its downstream sequence are acquired by PCR with one primer corresponding to box A (A-PCR). The SINE clone produced by A-PCR is selected as a template to label a probe with biotin. The full-length SINEs are isolated from the genomic pool through complex capture using the biotinylated probe bound to magnetic particles. Using this approach, a novel SINE family, Cn-SINE, from the genomes of Coilia nasus, was isolated. The members are 180–360 bp long. Sequence homology suggests that Cn-SINEs evolved from a leucine tRNA gene. This is the first report of a tRNALeu-related SINE obtained without the use of a genomic library or inverse PCR. These results provide new insights into the origin of SINEs. PMID:22408437

  13. Earthquake early warning using P-waves that appear after initial S-waves

    NASA Astrophysics Data System (ADS)

    Kodera, Y.

    2017-12-01

    As measures for underprediction for large earthquakes with finite faults and overprediction for multiple simultaneous earthquakes, Hoshiba (2013), Hoshiba and Aoki (2015), and Kodera et al. (2016) proposed earthquake early warning (EEW) methods that directly predict ground motion by computing the wave propagation of observed ground motion. These methods are expected to predict ground motion with a high accuracy even for complicated scenarios because these methods do not need source parameter estimation. On the other hand, there is room for improvement in their rapidity because they predict strong motion prediction mainly based on the observation of S-waves and do not explicitly use P-wave information available before the S-waves. In this research, we propose a real-time P-wave detector to incorporate P-wave information into these wavefield-estimation approaches. P-waves within a few seconds from the P-onsets are commonly used in many existing EEW methods. In addition, we focus on P-waves that may appear in the later part of seismic waves. Kurahashi and Irikura (2013) mentioned that P-waves radiated from strong motion generation areas (SMGAs) were recognizable after S-waves of the initial rupture point in the 2011 off the Pacific coast of Tohoku earthquake (Mw 9.0) (the Tohoku-oki earthquake). Detecting these P-waves would enhance the rapidity of prediction for the peak ground motion generated by SMGAs. We constructed a real-time P-wave detector that uses a polarity analysis. Using acceleration records in boreholes of KiK-net (band-pass filtered around 0.5-10 Hz with site amplification correction), the P-wave detector performed the principal component analysis with a sliding window of 4 s and calculated P-filter values (e.g. Ross and Ben-Zion, 2014). The application to the Tohoku-oki earthquake (Mw 9.0) showed that (1) peaks of P-filter that corresponded to SMGAs appeared in several stations located near SMGAs and (2) real-time seismic intensities (Kunugi et al

  14. Lamb Wave Tomography for Corrosion Mapping

    NASA Technical Reports Server (NTRS)

    Hinders, Mark K.; McKeon, James C. P.

    1999-01-01

    As the world-wide civil aviation fleet continues to age, methods for accurately predicting the presence of structural flaws-such as hidden corrosion-that compromise airworthiness become increasingly necessary. Ultrasonic guided waves, Lamb waves, allow large sections of aircraft structures to be rapidly inspected. However, extracting quantitative information from Lamb wave data has always involved highly trained personnel with a detailed knowledge of mechanical-waveguide physics. Our work focuses on using a variety of different tomographic reconstruction techniques to graphically represent the Lamb wave data in images that can be easily interpreted by technicians. Because the velocity of Lamb waves depends on thickness, we can convert the travel times of the fundamental Lamb modes into a thickness map of the inspection region. In this paper we show results for the identification of single or multiple back-surface corrosion areas in typical aluminum aircraft skin structures.

  15. Millimeter-wave monolithic diode-grid frequency multiplier

    NASA Technical Reports Server (NTRS)

    Maserjian, Joseph (Inventor)

    1990-01-01

    A semiconductor diode structure useful for harmonic generation of millimeter or submillimeter wave radiation from a fundamental input wave is fabricated on a GaAs substrate. A heavily doped layer of n(sup ++) GaAs is produced on the substrate and then a layer of intrinsic GaAs on said heavily doped layer on top of which a sheet of heavy doping (++) is produced. A thin layer of intrinsic GaAs grown over the sheet is capped with two metal contacts separated by a gap to produce two diodes connected back to back through the n(sup ++) layer for multiplication of frequency by an odd multiple. If only one metal contact caps the thin layer of intrinsic GaAs, the second diode contact is produced to connect to the n(sup ++) layer for multiplication of frequency by an even number. The odd or even frequency multiple is selected by a filter. A phased array of diodes in a grid will increase the power of the higher frequency generated.

  16. Wave Current Interactions and Wave-blocking Predictions Using NHWAVE Model

    DTIC Science & Technology

    2013-03-01

    Navier-Stokes equation. In this approach, as with previous modeling techniques, there is difficulty in simulating the free surface that inhibits accurate...hydrostatic, free - surface , rotational flows in multiple dimensions. It is useful in predicting transformations of surface waves and rapidly varied...Stelling, G., and M. Zijlema, 2003: An accurate and efficient finite-differencing algorithm for non-hydrostatic free surface flow with application to

  17. Biophysical control of the growth of Agrobacterium tumefaciens using extremely low frequency electromagnetic waves at resonance frequency.

    PubMed

    Fadel, M Ali; El-Gebaly, Reem H; Mohamed, Shaimaa A; Abdelbacki, Ashraf M M

    2017-12-09

    Isolated Agrobacterium tumefaciens was exposed to different extremely low frequencies of square amplitude modulated waves (QAMW) from two generators to determine the resonance frequency that causes growth inhibition. The carrier was 10 MHz sine wave with amplitude ±10 Vpp which was modulated by a second wave generator with a modulation depth of ± 2Vpp and constant field strength of 200 V/m at 28 °C. The exposure of A. tumefaciens to 1.0 Hz QAMW for 90 min inhibited the bacterial growth by 49.2%. In addition, the tested antibiotics became more effective against A. tumefaciens after the exposure. Furthermore, results of DNA, dielectric relaxation and TEM showed highly significant molecular and morphological changes due to the exposure to 1.0 Hz QAMW for 90 min. An in-vivo study has been carried out on healthy tomato plants to test the pathogenicity of A. tumefaciens before and after the exposure to QAMW at the inhibiting frequency. Symptoms of crown gall and all pathological symptoms were more aggressive in tomato plants treated with non-exposed bacteria, comparing with those treated with exposed bacteria. We concluded that, the exposure of A. tumefaciens to 1.0 Hz QAMW for 90 min modified its cellular activity and DNA structure, which inhibited the growth and affected the microbe pathogenicity. Copyright © 2017 Elsevier Inc. All rights reserved.

  18. Importance of Geosat orbit and tidal errors in the estimation of large-scale Indian Ocean variations

    NASA Technical Reports Server (NTRS)

    Perigaud, Claire; Zlotnicki, Victor

    1992-01-01

    To improve the estimate accuracy of large-scale meridional sea-level variations, Geosat ERM data on the Indian Ocean for a 26-month period were processed using two different techniques of orbit error reduction. The first technique removes an along-track polynomial of degree 1 over about 5000 km and the second technique removes an along-track once-per-revolution sine wave about 40,000 km. Results obtained show that the polynomial technique produces stronger attenuation of both the tidal error and the large-scale oceanic signal. After filtering, the residual difference between the two methods represents 44 percent of the total variance and 23 percent of the annual variance. The sine-wave method yields a larger estimate of annual and interannual meridional variations.

  19. Design of the dual-buoy wave energy converter based on actual wave data of East Sea

    NASA Astrophysics Data System (ADS)

    Kim, Jeongrok; Kweon, Hyuck-Min; Jeong, Weon-Mu; Cho, Il-Hyoung; Cho, Hong-Yeon

    2015-07-01

    A new conceptual dual-buoy Wave Energy Converter (WEC) for the enhancement of energy extraction efficiency is suggested. Based on actual wave data, the design process for the suggested WEC is conducted in such a way as to ensure that it is suitable in real sea. Actual wave data measured in Korea's East Sea (position: 36.404 N° and 129.274 E°) from May 1, 2002 to March 29, 2005 were used as the input wave spectrum for the performance estimation of the dual-buoy WEC. The suggested WEC, a point absorber type, consists of two concentric floating circular cylinders (an inner and a hollow outer buoy). Multiple resonant frequencies in proposed WEC affect the Power Ttake-off (PTO) performance of the WEC. Based on the numerical results, several design strategies are proposed to further enhance the extraction efficiency, including intentional mismatching among the heave natural frequencies of dual buoys, the natural frequency of the internal fluid, and the peak frequency of the input wave spectrum.

  20. Fire Hose Instability in the Multiple Magnetic Reconnection

    NASA Astrophysics Data System (ADS)

    Alexandrova, A.; Retino, A.; Divin, A. V.; Le Contel, O.; Matteini, L.; Breuillard, H.; Deca, J.; Catapano, F.; Cozzani, G.; Nakamura, R.; Panov, E. V.; Voros, Z.

    2017-12-01

    We present observations of multiple reconnection in the Earth's magnetotail. In particular, we observe an ion temperature anisotropy characterized by large temperature along the magnetic field, between the two active X-lines. The anisotropy is associated with right-hand polarized waves at frequencies lower than the ion cyclotron frequency and propagating obliquely to the background magnetic field. We show that the observed anisotropy and the wave properties are consistent with linear kinetic theory of fire hose instability. The observations are in agreement with the particle-in-cell simulations of multiple reconnection. The results suggest that the fire hose instability can develop during multiple reconnection as a consequence of the ion parallel anisotropy that is produced by counter-streaming ions trapped between the X-lines.

  1. Multi-wavelength Observations of Solar Acoustic Waves Near Active Regions

    NASA Astrophysics Data System (ADS)

    Monsue, Teresa; Pesnell, Dean; Hill, Frank

    2018-01-01

    Active region areas on the Sun are abundant with a variety of waves that are both acoustically helioseismic and magnetohydrodynamic in nature. The occurrence of a solar flare can disrupt these waves, through MHD mode-mixing or scattering by the excitation of these waves. We take a multi-wavelength observational approach to understand the source of theses waves by studying active regions where flaring activity occurs. Our approach is to search for signals within a time series of images using a Fast Fourier Transform (FFT) algorithm, by producing multi-frequency power map movies. We study active regions both spatially and temporally and correlate this method over multiple wavelengths using data from NASA’s Solar Dynamics Observatory. By surveying the active regions on multiple wavelengths we are able to observe the behavior of these waves within the Solar atmosphere, from the photosphere up through the corona. We are able to detect enhancements of power around active regions, which could be acoustic power halos and of an MHD-wave propagating outward by the flaring event. We are in the initial stages of this study understanding the behaviors of these waves and could one day contribute to understanding the mechanism responsible for their formation; that has not yet been explained.

  2. A bipolar population counter using wave pipelining to achieve 2.5 x normal clock frequency

    NASA Technical Reports Server (NTRS)

    Wong, Derek C.; De Micheli, Giovanni; Flynn, Michael J.; Huston, Robert E.

    1992-01-01

    Wave pipelining is a technique for pipelining digital systems that can increase clock frequency in practical circuits without increasing the number of storage elements. In wave pipelining, multiple coherent waves of data are sent through a block of combinational logic by applying new inputs faster than the delay through the logic. The throughput of a 63-b CML population counter was increased from 97 to 250 MHz using wave pipelining. The internal circuit is flowthrough combinational logic. Novel CAD methods have balanced all input-to-output paths to about the same delay. This allows multiple data waves to propagate in sequence when the circuit is clocked faster than its propagation delay.

  3. Shock wave experiments on gallium

    NASA Astrophysics Data System (ADS)

    Jensen, Brian; Branch, Brittany; Cherne, Frank

    2017-06-01

    Gallium exhibits a complex phase diagram with multiple solid phases, an anomalous melt boundary, and a low-temperature melt transition making it a suitable material for shock wave studies focused on multiphase properties including kinetics and strength. Apart from high-pressure shock wave data that exists for the liquid phase, there is a clear lack of data in the low-pressure regime where much of the complexity in the phase diagram exists. In this work, a series of shock wave experiments were performed to begin examining the low-pressure region of the phase diagram. Additional data on a gallium alloy, which remains liquid at room temperature, will be presented and compared to data available for pure gallium (LA-UR-17-21449).

  4. Biomedical imaging with THz waves

    NASA Astrophysics Data System (ADS)

    Nguyen, Andrew

    2010-03-01

    We discuss biomedical imaging using radio waves operating in the terahertz (THz) range between 300 GHz to 3 THz. Particularly, we present the concept for two THz imaging systems. One system employs single antenna, transmitter and receiver operating over multi-THz-frequency simultaneously for sensing and imaging small areas of the human body or biological samples. Another system consists of multiple antennas, a transmitter, and multiple receivers operating over multi-THz-frequency capable of sensing and imaging simultaneously the whole body or large biological samples. Using THz waves for biomedical imaging promises unique and substantial medical benefits including extremely small medical devices, extraordinarily fine spatial resolution, and excellent contrast between images of diseased and healthy tissues. THz imaging is extremely attractive for detection of cancer in the early stages, sensing and imaging of tissues near the skin, and study of disease and its growth versus time.

  5. Non-local features of a hydrodynamic pilot-wave system

    NASA Astrophysics Data System (ADS)

    Nachbin, Andre; Couchman, Miles; Bush, John

    2016-11-01

    A droplet walking on the surface of a vibrating fluid bath constitutes a pilot-wave system of the form envisaged for quantum dynamics by Louis de Broglie: a particle moves in resonance with its guiding wave field. We here present an examination of pilot-wave hydrodynamics in a confined domain. Specifically, we present a one-dimensional water wave model that describes droplets walking in single and multiple cavities. The cavities are separated by a submerged barrier, and so allow for the study of tunneling. They also highlight the non-local dynamical features arising due to the spatially-extended wave field. Results from computational simulations are complemented by laboratory experiments.

  6. Time-dependent wave splitting and source separation

    NASA Astrophysics Data System (ADS)

    Grote, Marcus J.; Kray, Marie; Nataf, Frédéric; Assous, Franck

    2017-02-01

    Starting from classical absorbing boundary conditions, we propose a method for the separation of time-dependent scattered wave fields due to multiple sources or obstacles. In contrast to previous techniques, our method is local in space and time, deterministic, and avoids a priori assumptions on the frequency spectrum of the signal. Numerical examples in two space dimensions illustrate the usefulness of wave splitting for time-dependent scattering problems.

  7. Wave directional spreading from point field measurements.

    PubMed

    McAllister, M L; Venugopal, V; Borthwick, A G L

    2017-04-01

    Ocean waves have multidirectional components. Most wave measurements are taken at a single point, and so fail to capture information about the relative directions of the wave components directly. Conventional means of directional estimation require a minimum of three concurrent time series of measurements at different spatial locations in order to derive information on local directional wave spreading. Here, the relationship between wave nonlinearity and directionality is utilized to estimate local spreading without the need for multiple concurrent measurements, following Adcock & Taylor (Adcock & Taylor 2009 Proc. R. Soc. A 465 , 3361-3381. (doi:10.1098/rspa.2009.0031)), with the assumption that directional spreading is frequency independent. The method is applied to measurements recorded at the North Alwyn platform in the northern North Sea, and the results compared against estimates of wave spreading by conventional measurement methods and hindcast data. Records containing freak waves were excluded. It is found that the method provides accurate estimates of wave spreading over a range of conditions experienced at North Alwyn, despite the noisy chaotic signals that characterize such ocean wave data. The results provide further confirmation that Adcock and Taylor's method is applicable to metocean data and has considerable future promise as a technique to recover estimates of wave spreading from single point wave measurement devices.

  8. Generating multiple orbital angular momentum vortex beams using a metasurface in radio frequency domain

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Yu, Shixing; Li, Long, E-mail: lilong@mail.xidian.edu.cn, E-mail: gmshi@xidian.edu.cn; Shi, Guangming, E-mail: lilong@mail.xidian.edu.cn, E-mail: gmshi@xidian.edu.cn

    In this paper, an electromagnetic metasurface is designed, fabricated, and experimentally demonstrated to generate multiple orbital angular momentum (OAM) vortex beams in radio frequency domain. Theoretical formula of compensated phase-shift distribution is deduced and used to design the metasurface to produce multiple vortex radio waves in different directions with different OAM modes. The prototype of a practical configuration of square-patch metasurface is designed, fabricated, and measured to validate the theoretical analysis at 5.8 GHz. The simulated and experimental results verify that multiple OAM vortex waves can be simultaneously generated by using a single electromagnetic metasurface. The proposed method paves an effectivemore » way to generate multiple OAM vortex waves in radio and microwave wireless communication applications.« less

  9. Wave parameters comparisons between High Frequency (HF) radar system and an in situ buoy: a case study

    NASA Astrophysics Data System (ADS)

    Fernandes, Maria; Alonso-Martirena, Andrés; Agostinho, Pedro; Sanchez, Jorge; Ferrer, Macu; Fernandes, Carlos

    2015-04-01

    direction) were obtained during 2013 and 2014 from one 13.5 MHz CODAR SeaSonde radar station from Hydrographic Institute, located in Espichel Cape (Portugal). These data were compared with those obtained from one wave buoy Datawell Directional Waverider, also from Hydrographic Institute, moored inbound Sines (Portugal) at 100 m depth. For this first approach, was assumed that all the waves are in a deep water situation. Results showed that during high energetic periods, the HF radar system revealed a good correlation with wave buoy data following the bulk wave parameters gradient variations.

  10. Low frequency AC waveform generator

    DOEpatents

    Bilharz, Oscar W.

    1986-01-01

    Low frequency sine, cosine, triangle and square waves are synthesized in circuitry which allows variation in the waveform amplitude and frequency while exhibiting good stability and without requiring significant stabilization time. A triangle waveform is formed by a ramped integration process controlled by a saturation amplifier circuit which produces the necessary hysteresis for the triangle waveform. The output of the saturation circuit is tapped to produce the square waveform. The sine waveform is synthesized by taking the absolute value of the triangular waveform, raising this absolute value to a predetermined power, multiplying the raised absolute value of the triangle wave with the triangle wave itself and properly scaling the resultant waveform and subtracting it from the triangular waveform itself. The cosine is synthesized by squaring the triangular waveform, raising the triangular waveform to a predetermined power and adding the squared waveform raised to the predetermined power with a DC reference and subtracting the squared waveform therefrom, with all waveforms properly scaled. The resultant waveform is then multiplied with a square wave in order to correct the polarity and produce the resultant cosine waveform.

  11. Low frequency ac waveform generator

    DOEpatents

    Bilharz, O.W.

    1983-11-22

    Low frequency sine, cosine, triangle and square waves are synthesized in circuitry which allows variation in the waveform amplitude and frequency while exhibiting good stability and without requiring significant stablization time. A triangle waveform is formed by a ramped integration process controlled by a saturation amplifier circuit which produces the necessary hysteresis for the triangle waveform. The output of the saturation circuit is tapped to produce the square waveform. The sine waveform is synthesized by taking the absolute value of the triangular waveform, raising this absolute value to a predetermined power, multiplying the raised absolute value of the triangle wave with the triangle wave itself and properly scaling the resultant waveform and subtracting it from the triangular waveform to a predetermined power and adding the squared waveform raised to the predetermined power with a DC reference and subtracting the squared waveform therefrom, with all waveforms properly scaled. The resultant waveform is then multiplied with a square wave in order to correct the polarity and produce the resultant cosine waveform.

  12. Swept sine testing of rotor-bearing system for damping estimation

    NASA Astrophysics Data System (ADS)

    Chandra, N. Harish; Sekhar, A. S.

    2014-01-01

    Many types of rotating components commonly operate above the first or second critical speed and they are subjected to run-ups and shutdowns frequently. The present study focuses on developing FRF of rotor bearing systems for damping estimation from swept-sine excitation. The principle of active vibration control states that with increase in angular acceleration, the amplitude of vibration due to unbalance will reduce and the FRF envelope will shift towards the right (or higher frequency). The frequency response function (FRF) estimated by tracking filters or Co-Quad analyzers was proved to induce an error into the FRF estimate. Using Fast Fourier Transform (FFT) algorithm and stationary wavelet transform (SWT) decomposition FRF distortion can be reduced. To obtain a theoretical clarity, the shifting of FRF envelope phenomenon is incorporated into conventional FRF expressions and validation is performed with the FRF estimated using the Fourier Transform approach. The half-power bandwidth method is employed to extract damping ratios from the FRF estimates. While deriving half-power points for both types of responses (acceleration and displacement), damping ratio (ζ) is estimated with different approximations like classical definition (neglecting damping ratio of order higher than 2), third order (neglecting damping ratios with order higher than 4) and exact (no assumptions on damping ratio). The use of stationary wavelet transform to denoise the noise corrupted FRF data is explained. Finally, experiments are performed on a test rotor excited with different sweep rates to estimate the damping ratio.

  13. The sine oculis homeobox (SIX) family of transcription factors as regulators of development and disease

    PubMed Central

    Kumar, J. P.

    2009-01-01

    The sine oculis homeobox (SIX) protein family is a group of evolutionarily conserved transcription factors that are found in diverse organisms that range from flatworms to humans. These factors are expressed within, and play pivotal developmental roles in, cell populations that give rise to the head, retina, ear, nose, brain, kidney, muscle and gonads. Mutations within the fly and mammalian versions of these genes have adverse consequences on the development of these organs/tissues. Several SIX proteins have been shown to directly influence the cell cycle and are present at elevated levels during tumorigenesis and within several cancers. This review aims to highlight aspects of (1) the evolutionary history of the SIX family; (2) the structural differences and similarities amongst the different SIX proteins; (3) the role that these genes play in retinal development; and (4) the influence that these proteins have on cell proliferation and growth. PMID:18989625

  14. Gravity Wave Seeding of Equatorial Plasma Bubbles

    NASA Technical Reports Server (NTRS)

    Singh, Sardul; Johnson, F. S.; Power, R. A.

    1997-01-01

    Some examples from the Atmosphere Explorer E data showing plasma bubble development from wavy ion density structures in the bottomside F layer are described. The wavy structures mostly had east-west wavelengths of 150-800 km, in one example it was about 3000 km. The ionization troughs in the wavy structures later broke up into either a multiple-bubble patch or a single bubble, depending upon whether, in the precursor wavy structure, shorter wavelengths were superimposed on the larger scale wavelengths. In the multiple bubble patches, intrabubble spacings vaned from 55 km to 140 km. In a fully developed equatorial spread F case, east-west wavelengths from 690 km down to about 0.5 km were present simultaneously. The spacings between bubble patches or between bubbles in a patch appear to be determined by the wavelengths present in the precursor wave structure. In some cases, deeper bubbles developed on the western edge of a bubble patch, suggesting an east-west asymmetry. Simultaneous horizontal neutral wind measurements showed wavelike perturbations that were closely associated with perturbations in the plasma horizontal drift velocity. We argue that the wave structures observed here that served as the initial seed ion density perturbations were caused by gravity waves, strengthening the view that gravity waves seed equatorial spread F irregularities.

  15. Exciton multiplication from first principles.

    PubMed

    Jaeger, Heather M; Hyeon-Deuk, Kim; Prezhdo, Oleg V

    2013-06-18

    Third-generation photovolatics require demanding cost and power conversion efficiency standards, which may be achieved through efficient exciton multiplication. Therefore, generating more than one electron-hole pair from the absorption of a single photon has vast ramifications on solar power conversion technology. Unlike their bulk counterparts, irradiated semiconductor quantum dots exhibit efficient exciton multiplication, due to confinement-enhanced Coulomb interactions and slower nonradiative losses. The exact characterization of the complicated photoexcited processes within quantum-dot photovoltaics is a work in progress. In this Account, we focus on the photophysics of nanocrystals and investigate three constituent processes of exciton multiplication, including photoexcitation, phonon-induced dephasing, and impact ionization. We quantify the role of each process in exciton multiplication through ab initio computation and analysis of many-electron wave functions. The probability of observing a multiple exciton in a photoexcited state is proportional to the magnitude of electron correlation, where correlated electrons can be simultaneously promoted across the band gap. Energies of multiple excitons are determined directly from the excited state wave functions, defining the threshold for multiple exciton generation. This threshold is strongly perturbed in the presence of surface defects, dopants, and ionization. Within a few femtoseconds following photoexcitation, the quantum state loses coherence through interactions with the vibrating atomic lattice. The phase relationship between single excitons and multiple excitons dissipates first, followed by multiple exciton fission. Single excitons are coupled to multiple excitons through Coulomb and electron-phonon interactions, and as a consequence, single excitons convert to multiple excitons and vice versa. Here, exciton multiplication depends on the initial energy and coupling magnitude and competes with electron

  16. Enrichment of short interspersed transposable elements to embryonic stem cell-specific hypomethylated gene regions.

    PubMed

    Muramoto, Hiroki; Yagi, Shintaro; Hirabayashi, Keiji; Sato, Shinya; Ohgane, Jun; Tanaka, Satoshi; Shiota, Kunio

    2010-08-01

    Embryonic stem cells (ESCs) have a distinctive epigenome, which includes their genome-wide DNA methylation modification status, as represented by the ESC-specific hypomethylation of tissue-dependent and differentially methylated regions (T-DMRs) of Pou5f1 and Nanog. Here, we conducted a genome-wide investigation of sequence characteristics associated with T-DMRs that were differentially methylated between ESCs and somatic cells, by focusing on transposable elements including short interspersed elements (SINEs), long interspersed elements (LINEs) and long terminal repeats (LTRs). We found that hypomethylated T-DMRs were predominantly present in SINE-rich/LINE-poor genomic loci. The enrichment for SINEs spread over 300 kb in cis and there existed SINE-rich genomic domains spreading continuously over 1 Mb, which contained multiple hypomethylated T-DMRs. The characterization of sequence information showed that the enriched SINEs were relatively CpG rich and belonged to specific subfamilies. A subset of the enriched SINEs were hypomethylated T-DMRs in ESCs at Dppa3 gene locus, although SINEs are overall methylated in both ESCs and the liver. In conclusion, we propose that SINE enrichment is the genomic property of regions harboring hypomethylated T-DMRs in ESCs, which is a novel aspect of the ESC-specific epigenomic information.

  17. Collision of Identical Solitary Waves in Hertzian Chains

    NASA Astrophysics Data System (ADS)

    Sen, Surajit; Manciu, Marian; Hurd, Alan J.

    2000-03-01

    We consider a chain of elastic beads, which repel upon contact according to the non-linear Hertz potential. We further assume that the chain is under zero loading, i.e., the grains have zero initial overlap. We show via careful numerical solution of the equations of motion that an impulse propagates as a solitary wave and that the collision of identical solitary waves propagating in opposite directions along the chain spawns a hierarchy of multiple weak solitary waves [1]. [1] M. Manciu, S. Sen and A.J. Hurd, Phys Lett A (submitted).

  18. Logic elements for reactor period meter

    DOEpatents

    McDowell, William P.; Bobis, James P.

    1976-01-01

    Logic elements are provided for a reactor period meter trip circuit. For one element, first and second inputs are applied to first and second chopper comparators, respectively. The output of each comparator is O if the input applied to it is greater than or equal to a trip level associated with each input and each output is a square wave of frequency f if the input applied to it is less than the associated trip level. The outputs of the comparators are algebraically summed and applied to a bandpass filter tuned to f. For another element, the output of each comparator is applied to a bandpass filter which is tuned to f to give a sine wave of frequency f. The outputs of the filters are multiplied by an analog multiplier whose output is 0 if either input is 0 and a sine wave of frequency 2f if both inputs are a frequency f.

  19. The effective propagation constants of SH wave in composites reinforced by dispersive parallel nanofibers

    NASA Astrophysics Data System (ADS)

    Qiang, FangWei; Wei, PeiJun; Li, Li

    2012-07-01

    In the present paper, the effective propagation constants of elastic SH waves in composites with randomly distributed parallel cylindrical nanofibers are studied. The surface stress effects are considered based on the surface elasticity theory and non-classical interfacial conditions between the nanofiber and the host are derived. The scattering waves from individual nanofibers embedded in an infinite elastic host are obtained by the plane wave expansion method. The scattering waves from all fibers are summed up to obtain the multiple scattering waves. The interactions among random dispersive nanofibers are taken into account by the effective field approximation. The effective propagation constants are obtained by the configurational average of the multiple scattering waves. The effective speed and attenuation of the averaged wave and the associated dynamical effective shear modulus of composites are numerically calculated. Based on the numerical results, the size effects of the nanofibers on the effective propagation constants and the effective modulus are discussed.

  20. Group Velocity for Leaky Waves

    NASA Astrophysics Data System (ADS)

    Rzeznik, Andrew; Chumakova, Lyubov; Rosales, Rodolfo

    2017-11-01

    In many linear dispersive/conservative wave problems one considers solutions in an infinite medium which is uniform everywhere except for a bounded region. In general, localized inhomogeneities of the medium cause partial internal reflection, and some waves leak out of the domain. Often one only desires the solution in the inhomogeneous region, with the exterior accounted for by radiation boundary conditions. Formulating such conditions requires definition of the direction of energy propagation for leaky waves in multiple dimensions. In uniform media such waves have the form exp (d . x + st) where d and s are complex and related by a dispersion relation. A complex s is required since these waves decay via radiation to infinity, even though the medium is conservative. We present a modified form of Whitham's Averaged Lagrangian Theory along with modulation theory to extend the classical idea of group velocity to leaky waves. This allows for solving on the bounded region by representing the waves as a linear combination of leaky modes, each exponentially decaying in time. This presentation is part of a joint project, and applications of these results to example GFD problems will be presented by L. Chumakova in the talk ``Leaky GFD Problems''. This work is partially supported by NSF Grants DMS-1614043, DMS-1719637, and 1122374, and by the Hertz Foundation.