Discontinuous movement of mRNP particles in nucleoplasmic regions devoid of chromatin
Siebrasse, Jan Peter; Veith, Roman; Dobay, Akos; Leonhardt, Heinrich; Daneholt, Bertil; Kubitscheck, Ulrich
2008-01-01
Messenger ribonucleoprotein particles (mRNPs) move randomly within nucleoplasm before they exit from the nucleus. To further understand mRNP trafficking, we have studied the intranuclear movement of a specific mRNP, the BR2 mRNP, in salivary gland cells in Chironomus tentans. Their polytene nuclei harbor giant chromosomes separated by vast regions of nucleoplasm, which allows us to study mRNP mobility without interference of chromatin. The particles were fluorescently labeled with microinjected oligonucleotides (DNA or RNA) complementary to BR2 mRNA or with the RNA-binding protein hrp36, the C. tentans homologue of hnRNP A1. Using high-speed laser microscopy, we followed the intranuclear trajectories of single mRNPs and characterized their motion within the nucleoplasm. The Balbiani ring (BR) mRNPs moved randomly, but unexpectedly, in a discontinuous manner. When mobile, they diffused with a diffusion coefficient corresponding to their size. Between mobile phases, the mRNPs were slowed down 10-to 250-fold but were never completely immobile. Earlier electron microscopy work has indicated that BR particles can attach to thin nonchromatin fibers, which are sometimes connected to discrete fibrogranular clusters. We propose that the observed discontinuous movement reflects transient interactions between freely diffusing BR particles and these submicroscopic structures. PMID:19074261
Scattering of a high-order Bessel beam by a spheroidal particle
Han, Lu
2018-05-01
Within the framework of generalized Lorenz-Mie theory (GLMT), scattering from a homogeneous spheroidal particle illuminated by a high-order Bessel beam is formulated analytically. The high-order Bessel beam is expanded in terms of spheroidal vector wave functions, where the spheroidal beam shape coefficients (BSCs) are computed conveniently using an intrinsic method. Numerical results concerning scattered field in the far zone are displayed for various parameters of the incident Bessel beam and of the scatter. These results are expected to provide useful insights into the scattering of a Bessel beam by nonspherical particles and particle manipulation applications using Bessel beams.
photon-plasma: A modern high-order particle-in-cell code
International Nuclear Information System (INIS)
Haugbølle, Troels; Frederiksen, Jacob Trier; Nordlund, Åke
2013-01-01
We present the photon-plasma code, a modern high order charge conserving particle-in-cell code for simulating relativistic plasmas. The code is using a high order implicit field solver and a novel high order charge conserving interpolation scheme for particle-to-cell interpolation and charge deposition. It includes powerful diagnostics tools with on-the-fly particle tracking, synthetic spectra integration, 2D volume slicing, and a new method to correctly account for radiative cooling in the simulations. A robust technique for imposing (time-dependent) particle and field fluxes on the boundaries is also presented. Using a hybrid OpenMP and MPI approach, the code scales efficiently from 8 to more than 250.000 cores with almost linear weak scaling on a range of architectures. The code is tested with the classical benchmarks particle heating, cold beam instability, and two-stream instability. We also present particle-in-cell simulations of the Kelvin-Helmholtz instability, and new results on radiative collisionless shocks
Electrocatalytic oxidation of alcohols on single gold particles in highly ordered SiO2 cavities
International Nuclear Information System (INIS)
Li, Na; Zhou, Qun; Tian, Shu; Zhao, Hong; Li, Xiaowei; Adkins, Jason; Gu, Zhuomin; Zhao, Lili; Zheng, Junwei
2013-01-01
In the present work, we report a new and simple approach for preparing a highly ordered Au (1 1 1) nanoparticle (NP) array in SiO 2 cavities on indium-doped tin oxide (ITO) electrodes. We fabricated a SiO 2 cavity array on the surface of an ITO electrode using highly ordered self-assembly of polystyrene spheres as a template. Gold NPs were electrodeposited at the bottom of the SiO 2 cavities, and single gold NPs dominated with (1 1 1) facets were generated in each cavity by annealing the electrode at a high temperature. Such (1 1 1) facets were the predominate trait of the single gold particle which exhibited considerable electrocatalytic activity toward oxidation of methanol, ethanol, and glycerol. This has been attributed to the formation of incipient hydrous oxides at unusually low potential on the specific (1 1 1) facet of the gold particles. Moreover, each cavity of the SiO 2 possibly behaves as an independent electrochemical cell in which the methanol molecules are trapped; this produces an environment advantageous to catalyzing electrooxidation. The oxidation of methanol on the electrodes is a mixed control mechanism (both by diffusion and electrode kinetics). This strategy both provided an approach to study electrochemical reactions on a single particle in a microenvironment and may supply a way to construct alcohols sensors
International Nuclear Information System (INIS)
Sauterer, R.A.; Feeney, R.J.; Zieve, G.W.
1988-01-01
Newly synthesized snRNAs appear transiently in the cytoplasm where they assemble into ribonucleoprotein particles, the snRNP particles, before returning permanently to the interphase nucleus. In this report, bona fide cytoplasmic fractions, prepared by cell enucleation, are used for a quantitative analysis of snRNP assembly in growing mouse fibroblasts. The half-lives and abundances of the snRNP precursors in the cytoplasm and the rates of snRNP assembly are calculated in L929 cells. With the exception of U6, the major snRNAs are stable RNA species; U1 is almost totally stable while U2 has a half-life of about two cell cycles. In contrast, the majority of newly synthesized U6 decays with a half-life of about 15 h. The relative abundances of the newly synthesized snRNA species U1, U2, U3, U4 and U6 in the cytoplasm are determined by Northern hybridization using cloned probes and are approximately 2% of their nuclear abundance. The half-lives of the two major snRNA precursors in the cytoplasm (U1 and U2) are approximately 20 min as determined by labeling to steady state. The relative abundance of the snRNP B protein in the cytoplasm is determined by Western blotting with the Sm class of autoantibodies and is approximately 25% of the nuclear abundance. Kinetic studies, using the Sm antiserum to immunoprecipitate the methionine-labeled snRNP proteins, suggest that the B protein has a half-life of 90 to 120 min in the cytoplasm. These data are discussed and suggest that there is a large pool of more stable snRNP proteins in the cytoplasm available for assembly with the less abundant but more rapidly turning-over snRNAs
Explicit high-order non-canonical symplectic particle-in-cell algorithms for Vlasov-Maxwell systems
International Nuclear Information System (INIS)
Xiao, Jianyuan; Liu, Jian; He, Yang; Zhang, Ruili; Qin, Hong; Sun, Yajuan
2015-01-01
Explicit high-order non-canonical symplectic particle-in-cell algorithms for classical particle-field systems governed by the Vlasov-Maxwell equations are developed. The algorithms conserve a discrete non-canonical symplectic structure derived from the Lagrangian of the particle-field system, which is naturally discrete in particles. The electromagnetic field is spatially discretized using the method of discrete exterior calculus with high-order interpolating differential forms for a cubic grid. The resulting time-domain Lagrangian assumes a non-canonical symplectic structure. It is also gauge invariant and conserves charge. The system is then solved using a structure-preserving splitting method discovered by He et al. [preprint http://arxiv.org/abs/arXiv:1505.06076 (2015)], which produces five exactly soluble sub-systems, and high-order structure-preserving algorithms follow by combinations. The explicit, high-order, and conservative nature of the algorithms is especially suitable for long-term simulations of particle-field systems with extremely large number of degrees of freedom on massively parallel supercomputers. The algorithms have been tested and verified by the two physics problems, i.e., the nonlinear Landau damping and the electron Bernstein wave
Explicit high-order non-canonical symplectic particle-in-cell algorithms for Vlasov-Maxwell systems
Energy Technology Data Exchange (ETDEWEB)
Xiao, Jianyuan [School of Nuclear Science and Technology and Department of Modern Physics, University of Science and Technology of China, Hefei, Anhui 230026, China; Key Laboratory of Geospace Environment, CAS, Hefei, Anhui 230026, China; Qin, Hong [School of Nuclear Science and Technology and Department of Modern Physics, University of Science and Technology of China, Hefei, Anhui 230026, China; Plasma Physics Laboratory, Princeton University, Princeton, New Jersey 08543, USA; Liu, Jian [School of Nuclear Science and Technology and Department of Modern Physics, University of Science and Technology of China, Hefei, Anhui 230026, China; Key Laboratory of Geospace Environment, CAS, Hefei, Anhui 230026, China; He, Yang [School of Nuclear Science and Technology and Department of Modern Physics, University of Science and Technology of China, Hefei, Anhui 230026, China; Key Laboratory of Geospace Environment, CAS, Hefei, Anhui 230026, China; Zhang, Ruili [School of Nuclear Science and Technology and Department of Modern Physics, University of Science and Technology of China, Hefei, Anhui 230026, China; Key Laboratory of Geospace Environment, CAS, Hefei, Anhui 230026, China; Sun, Yajuan [LSEC, Academy of Mathematics and Systems Science, Chinese Academy of Sciences, P.O. Box 2719, Beijing 100190, China
2015-11-01
Explicit high-order non-canonical symplectic particle-in-cell algorithms for classical particle-field systems governed by the Vlasov-Maxwell equations are developed. The algorithms conserve a discrete non-canonical symplectic structure derived from the Lagrangian of the particle-field system, which is naturally discrete in particles. The electromagnetic field is spatially discretized using the method of discrete exterior calculus with high-order interpolating differential forms for a cubic grid. The resulting time-domain Lagrangian assumes a non-canonical symplectic structure. It is also gauge invariant and conserves charge. The system is then solved using a structure-preserving splitting method discovered by He et al. [preprint arXiv: 1505.06076 (2015)], which produces five exactly soluble sub-systems, and high-order structure-preserving algorithms follow by combinations. The explicit, high-order, and conservative nature of the algorithms is especially suitable for long-term simulations of particle-field systems with extremely large number of degrees of freedom on massively parallel supercomputers. The algorithms have been tested and verified by the two physics problems, i.e., the nonlinear Landau damping and the electron Bernstein wave. (C) 2015 AIP Publishing LLC.
Chen, Chaochao; Vachtsevanos, George; Orchard, Marcos E.
2012-04-01
Machine prognosis can be considered as the generation of long-term predictions that describe the evolution in time of a fault indicator, with the purpose of estimating the remaining useful life (RUL) of a failing component/subsystem so that timely maintenance can be performed to avoid catastrophic failures. This paper proposes an integrated RUL prediction method using adaptive neuro-fuzzy inference systems (ANFIS) and high-order particle filtering, which forecasts the time evolution of the fault indicator and estimates the probability density function (pdf) of RUL. The ANFIS is trained and integrated in a high-order particle filter as a model describing the fault progression. The high-order particle filter is used to estimate the current state and carry out p-step-ahead predictions via a set of particles. These predictions are used to estimate the RUL pdf. The performance of the proposed method is evaluated via the real-world data from a seeded fault test for a UH-60 helicopter planetary gear plate. The results demonstrate that it outperforms both the conventional ANFIS predictor and the particle-filter-based predictor where the fault growth model is a first-order model that is trained via the ANFIS.
Kamina, Anyango D; Williams, Noreen
2017-01-01
RNA binding proteins are involved in many aspects of RNA metabolism. In Trypanosoma brucei, our laboratory has identified two trypanosome-specific RNA binding proteins P34 and P37 that are involved in the maturation of the 60S subunit during ribosome biogenesis. These proteins are part of the T. brucei 5S ribonucleoprotein particle (5S RNP) and P34 binds to 5S ribosomal RNA (rRNA) and ribosomal protein L5 through its N-terminus and its RNA recognition motif (RRM) domains. We generated truncated P34 proteins to determine these domains' interactions with 5S rRNA and L5. Our analyses demonstrate that RRM1 of P34 mediates the majority of binding with 5S rRNA and the N-terminus together with RRM1 contribute the most to binding with L5. We determined that the consensus ribonucleoprotein (RNP) 1 and 2 sequences, characteristic of canonical RRM domains, are not fully conserved in the RRM domains of P34. However, the aromatic amino acids previously described to mediate base stacking interactions with their RNA target are conserved in both of the RRM domains of P34. Surprisingly, mutation of these aromatic residues did not disrupt but instead enhanced 5S rRNA binding. However, we identified four arginine residues located in RRM1 of P34 that strongly impact L5 binding. These mutational analyses of P34 suggest that the binding site for 5S rRNA and L5 are near each other and specific residues within P34 regulate the formation of the 5S RNP. These studies show the unique way that the domains of P34 mediate binding with the T. brucei 5S RNP.
Yu, Jianbo
2015-12-01
Prognostics is much efficient to achieve zero-downtime performance, maximum productivity and proactive maintenance of machines. Prognostics intends to assess and predict the time evolution of machine health degradation so that machine failures can be predicted and prevented. A novel prognostics system is developed based on the data-model-fusion scheme using the Bayesian inference-based self-organizing map (SOM) and an integration of logistic regression (LR) and high-order particle filtering (HOPF). In this prognostics system, a baseline SOM is constructed to model the data distribution space of healthy machine under an assumption that predictable fault patterns are not available. Bayesian inference-based probability (BIP) derived from the baseline SOM is developed as a quantification indication of machine health degradation. BIP is capable of offering failure probability for the monitored machine, which has intuitionist explanation related to health degradation state. Based on those historic BIPs, the constructed LR and its modeling noise constitute a high-order Markov process (HOMP) to describe machine health propagation. HOPF is used to solve the HOMP estimation to predict the evolution of the machine health in the form of a probability density function (PDF). An on-line model update scheme is developed to adapt the Markov process changes to machine health dynamics quickly. The experimental results on a bearing test-bed illustrate the potential applications of the proposed system as an effective and simple tool for machine health prognostics.
International Nuclear Information System (INIS)
Stock, Andreas
2013-01-01
Within this thesis a parallelized, transient, three-dimensional, high-order discontinuous Galerkin Particle-in-Cell solver is developed and used to simulate the resonant cavity of a gyrotron. The high-order discontinuous Galerkin approach - a Finite-Element type method - provides a fast and efficient algorithm to numerically solve Maxwell's equations used within this thesis. Besides its outstanding dissipation and dispersion properties, the discontinuous Galerkin approach easily allows for using unstructured grids, as required to simulate complex-shaped engineering devices. The discontinuous Galerkin approach approximates a wavelength with significantly less degrees of freedom compared to other methods, e.g. Finite Difference methods. Furthermore, the parallelization capabilities of the discontinuous Galerkin framework are excellent due to the very local dependencies between the elements. These properties are essential for the efficient numerical treatment of the Vlasov-Maxwell system with the Particle-in-Cell method. This system describes the self-consistent interaction of charged particles and the electromagnetic field. As central application within this thesis gyrotron resonators are simulated with the discontinuous Galerkin Particle-in-Cell method on high-performance-computers. The gyrotron is a high-power millimeter wave source, used for the electron cyclotron resonance heating of magnetically confined fusion plasma, e.g. in the Wendelstein 7-X experimental fusion-reactor. Compared to state-of-the-art simulation tools used for the design of gyrotron resonators the Particle-in-Cell method does not use any significant physically simplifications w.r.t. the modelling of the particle-field-interaction, the geometry and the wave-spectrum. Hence, it is the method of choice for validation of current simulation tools being restricted by these simplifications. So far, the Particle-in-Cell method was restricted to be used for demonstration calculations only, because
Energy Technology Data Exchange (ETDEWEB)
Stock, Andreas
2013-04-26
Within this thesis a parallelized, transient, three-dimensional, high-order discontinuous Galerkin Particle-in-Cell solver is developed and used to simulate the resonant cavity of a gyrotron. The high-order discontinuous Galerkin approach - a Finite-Element type method - provides a fast and efficient algorithm to numerically solve Maxwell's equations used within this thesis. Besides its outstanding dissipation and dispersion properties, the discontinuous Galerkin approach easily allows for using unstructured grids, as required to simulate complex-shaped engineering devices. The discontinuous Galerkin approach approximates a wavelength with significantly less degrees of freedom compared to other methods, e.g. Finite Difference methods. Furthermore, the parallelization capabilities of the discontinuous Galerkin framework are excellent due to the very local dependencies between the elements. These properties are essential for the efficient numerical treatment of the Vlasov-Maxwell system with the Particle-in-Cell method. This system describes the self-consistent interaction of charged particles and the electromagnetic field. As central application within this thesis gyrotron resonators are simulated with the discontinuous Galerkin Particle-in-Cell method on high-performance-computers. The gyrotron is a high-power millimeter wave source, used for the electron cyclotron resonance heating of magnetically confined fusion plasma, e.g. in the Wendelstein 7-X experimental fusion-reactor. Compared to state-of-the-art simulation tools used for the design of gyrotron resonators the Particle-in-Cell method does not use any significant physically simplifications w.r.t. the modelling of the particle-field-interaction, the geometry and the wave-spectrum. Hence, it is the method of choice for validation of current simulation tools being restricted by these simplifications. So far, the Particle-in-Cell method was restricted to be used for demonstration calculations only, because
Maljaars, Jakob M.; Labeur, Robert Jan; Möller, Matthias
2018-04-01
A generic particle-mesh method using a hybridized discontinuous Galerkin (HDG) framework is presented and validated for the solution of the incompressible Navier-Stokes equations. Building upon particle-in-cell concepts, the method is formulated in terms of an operator splitting technique in which Lagrangian particles are used to discretize an advection operator, and an Eulerian mesh-based HDG method is employed for the constitutive modeling to account for the inter-particle interactions. Key to the method is the variational framework provided by the HDG method. This allows to formulate the projections between the Lagrangian particle space and the Eulerian finite element space in terms of local (i.e. cellwise) ℓ2-projections efficiently. Furthermore, exploiting the HDG framework for solving the constitutive equations results in velocity fields which excellently approach the incompressibility constraint in a local sense. By advecting the particles through these velocity fields, the particle distribution remains uniform over time, obviating the need for additional quality control. The presented methodology allows for a straightforward extension to arbitrary-order spatial accuracy on general meshes. A range of numerical examples shows that optimal convergence rates are obtained in space and, given the particular time stepping strategy, second-order accuracy is obtained in time. The model capabilities are further demonstrated by presenting results for the flow over a backward facing step and for the flow around a cylinder.
Nuclear surveillance of mRNP formation
DEFF Research Database (Denmark)
Jensen, Torben Heick
Proper formation of mRNP requires co-transcriptional loading of proteins onto nascent transcripts. Mutations in several genes involved in mRNA processing, mRNP assembly and nuclear export lead to production of aberrant mRNPs that are retained in transcription site-associated foci. Retention...... and degradation of transcripts depend on the nuclear exosome of 3’-5’ exonucleases.We have studied connections between mRNP assembly and quality control in the yeast S. cerevisiae using mutants of the THO complex. THO is implicated in co-transcriptional mRNP assembly, but its precise role is not known. Genetic...... and biochemical data now show that a defective THO complex negatively impacts mRNA 3’-end processing. We are currently trying to understand the relationship between this phenomenon and mRNP quality control. Retention of mRNP in THO mutants is dependent on the nuclear exosome component Rrp6p. Using the solved...
Generation of high order modes
CSIR Research Space (South Africa)
Ngcobo, S
2012-07-01
Full Text Available with the location of the Laguerre polynomial zeros. The Diffractive optical element is used to shape the TEM00 Gassian beam and force the laser to operate on a higher order TEMp0 Laguerre-Gaussian modes or high order superposition of Laguerre-Gaussian modes...
Paralogs hnRNP L and hnRNP LL exhibit overlapping but distinct RNA binding constraints.
Directory of Open Access Journals (Sweden)
Sarah A Smith
Full Text Available HnRNP (heterogeneous nuclear ribonucleoprotein proteins are a large family of RNA-binding proteins that regulate numerous aspects of RNA processing. Interestingly, several paralogous pairs of hnRNPs exist that exhibit similar RNA-binding specificity to one another, yet have non-redundant functional targets in vivo. In this study we systematically investigate the possibility that the paralogs hnRNP L and hnRNP LL have distinct RNA binding determinants that may underlie their lack of functional redundancy. Using a combination of RNAcompete and native gel analysis we find that while both hnRNP L and hnRNP LL preferentially bind sequences that contain repeated CA dinucleotides, these proteins differ in their requirement for the spacing of the CAs. Specifically, hnRNP LL has a more stringent requirement for a two nucleotide space between CA repeats than does hnRNP L, resulting in hnRNP L binding more promiscuously than does hnRNP LL. Importantly, this differential requirement for the spacing of CA dinucleotides explains the previously observed differences in the sensitivity of hnRNP L and LL to mutations within the CD45 gene. We suggest that overlapping but divergent RNA-binding preferences, as we show here for hnRNP L and hnRNP LL, may be commonplace among other hnRNP paralogs.
The Clothes Make the mRNA: Past and Present Trends in mRNP Fashion.
Singh, Guramrit; Pratt, Gabriel; Yeo, Gene W; Moore, Melissa J
2015-01-01
Throughout their lifetimes, messenger RNAs (mRNAs) associate with proteins to form ribonucleoproteins (mRNPs). Since the discovery of the first mRNP component more than 40 years ago, what is known as the mRNA interactome now comprises >1,000 proteins. These proteins bind mRNAs in myriad ways with varying affinities and stoichiometries, with many assembling onto nascent RNAs in a highly ordered process during transcription and precursor mRNA (pre-mRNA) processing. The nonrandom distribution of major mRNP proteins observed in transcriptome-wide studies leads us to propose that mRNPs are organized into three major domains loosely corresponding to 5' untranslated regions (UTRs), open reading frames, and 3' UTRs. Moving from the nucleus to the cytoplasm, mRNPs undergo extensive remodeling as they are first acted upon by the nuclear pore complex and then by the ribosome. When not being actively translated, cytoplasmic mRNPs can assemble into large multi-mRNP assemblies or be permanently disassembled and degraded. In this review, we aim to give the reader a thorough understanding of past and current eukaryotic mRNP research.
High order depletion sensitivity analysis
International Nuclear Information System (INIS)
Naguib, K.; Adib, M.; Morcos, H.N.
2002-01-01
A high order depletion sensitivity method was applied to calculate the sensitivities of build-up of actinides in the irradiated fuel due to cross-section uncertainties. An iteration method based on Taylor series expansion was applied to construct stationary principle, from which all orders of perturbations were calculated. The irradiated EK-10 and MTR-20 fuels at their maximum burn-up of 25% and 65% respectively were considered for sensitivity analysis. The results of calculation show that, in case of EK-10 fuel (low burn-up), the first order sensitivity was found to be enough to perform an accuracy of 1%. While in case of MTR-20 (high burn-up) the fifth order was found to provide 3% accuracy. A computer code SENS was developed to provide the required calculations
The 5S RNP couples p53 homeostasis to ribosome biogenesis and nucleolar stress.
Sloan, Katherine E; Bohnsack, Markus T; Watkins, Nicholas J
2013-10-17
Several proto-oncogenes and tumor suppressors regulate the production of ribosomes. Ribosome biogenesis is a major consumer of cellular energy, and defects result in p53 activation via repression of mouse double minute 2 (MDM2) homolog by the ribosomal proteins RPL5 and RPL11. Here, we report that RPL5 and RPL11 regulate p53 from the context of a ribosomal subcomplex, the 5S ribonucleoprotein particle (RNP). We provide evidence that the third component of this complex, the 5S rRNA, is critical for p53 regulation. In addition, we show that the 5S RNP is essential for the activation of p53 by p14(ARF), a protein that is activated by oncogene overexpression. Our data show that the abundance of the 5S RNP, and therefore p53 levels, is determined by factors regulating 5S complex formation and ribosome integration, including the tumor suppressor PICT1. The 5S RNP therefore emerges as the critical coordinator of signaling pathways that couple cell proliferation with ribosome production. Copyright © 2013 The Authors. Published by Elsevier Inc. All rights reserved.
Efficient Unsteady Flow Visualization with High-Order Access Dependencies
Energy Technology Data Exchange (ETDEWEB)
Zhang, Jiang; Guo, Hanqi; Yuan, Xiaoru
2016-04-19
We present a novel high-order access dependencies based model for efficient pathline computation in unsteady flow visualization. By taking longer access sequences into account to model more sophisticated data access patterns in particle tracing, our method greatly improves the accuracy and reliability in data access prediction. In our work, high-order access dependencies are calculated by tracing uniformly-seeded pathlines in both forward and backward directions in a preprocessing stage. The effectiveness of our proposed approach is demonstrated through a parallel particle tracing framework with high-order data prefetching. Results show that our method achieves higher data locality and hence improves the efficiency of pathline computation.
A high order solver for the unbounded Poisson equation
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm; Rasmussen, Johannes Tophøj; Chatelain, Philippe
In mesh-free particle methods a high order solution to the unbounded Poisson equation is usually achieved by constructing regularised integration kernels for the Biot-Savart law. Here the singular, point particles are regularised using smoothed particles to obtain an accurate solution with an order...... of convergence consistent with the moments conserved by the applied smoothing function. In the hybrid particle-mesh method of Hockney and Eastwood (HE) the particles are interpolated onto a regular mesh where the unbounded Poisson equation is solved by a discrete non-cyclic convolution of the mesh values...... and the integration kernel. In this work we show an implementation of high order regularised integration kernels in the HE algorithm for the unbounded Poisson equation to formally achieve an arbitrary high order convergence. We further present a quantitative study of the convergence rate to give further insight...
Calviño, Fabiola R; Kharde, Satyavati; Ori, Alessandro; Hendricks, Astrid; Wild, Klemens; Kressler, Dieter; Bange, Gert; Hurt, Ed; Beck, Martin; Sinning, Irmgard
2015-04-07
During 60S biogenesis, mature 5S RNP consisting of 5S RNA, RpL5 and RpL11, assembles into a pre-60S particle, where docking relies on RpL11 interacting with helix 84 (H84) of the 25S RNA. How 5S RNP is assembled for recruitment into the pre-60S is not known. Here we report the crystal structure of a ternary symportin Syo1-RpL5-N-RpL11 complex and provide biochemical and structural insights into 5S RNP assembly. Syo1 guards the 25S RNA-binding surface on RpL11 and competes with H84 for binding. Pull-down experiments show that H84 releases RpL11 from the ternary complex, but not in the presence of 5S RNA. Crosslinking mass spectrometry visualizes structural rearrangements on incorporation of 5S RNA into the Syo1-RpL5-RpL11 complex supporting the formation of a pre-5S RNP. Our data underline the dual role of Syo1 in ribosomal protein transport and as an assembly platform for 5S RNP.
Essential Assembly Factor Rpf2 Forms Novel Interactions within the 5S RNP in Trypanosoma brucei.
Kamina, Anyango D; Jaremko, Daniel; Christen, Linda; Williams, Noreen
2017-01-01
Ribosome biogenesis is a highly complex and conserved cellular process that is responsible for making ribosomes. During this process, there are several assembly steps that function as regulators to ensure proper ribosome formation. One of these steps is the assembly of the 5S ribonucleoprotein particle (5S RNP) in the central protuberance of the 60S ribosomal subunit. In eukaryotes, the 5S RNP is composed of 5S rRNA, ribosomal proteins L5 and L11, and assembly factors Rpf2 and Rrs1. Our laboratory previously showed that in Trypanosoma brucei , the 5S RNP is composed of 5S rRNA, L5, and trypanosome-specific RNA binding proteins P34 and P37. In this study, we characterize an additional component of the 5S RNP, the T. brucei homolog of Rpf2. This is the first study to functionally characterize interactions mediated by Rpf2 in an organism other than fungi. T . brucei Rpf2 (TbRpf2) was identified from tandem affinity purification using extracts prepared from protein A-tobacco etch virus (TEV)-protein C (PTP)-tagged L5, P34, and P37 cell lines, followed by mass spectrometry analysis. We characterized the binding interactions between TbRpf2 and the previously characterized members of the T. brucei 5S RNP. Our studies show that TbRpf2 mediates conserved binding interactions with 5S rRNA and L5 and that TbRpf2 also interacts with trypanosome-specific proteins P34 and P37. We performed RNA interference (RNAi) knockdown of TbRpf2 and showed that this protein is essential for the survival of the parasites and is critical for proper ribosome formation. These studies provide new insights into a critical checkpoint in the ribosome biogenesis pathway in T. brucei . IMPORTANCE Trypanosoma brucei is the parasitic protozoan that causes African sleeping sickness. Ribosome assembly is essential for the survival of this parasite through the different host environments it encounters during its life cycle. The assembly of the 5S ribonucleoprotein particle (5S RNP) functions as one of
Jaako, P; Ugale, A; Wahlestedt, M; Velasco-Hernandez, T; Cammenga, J; Lindström, M S; Bryder, D
2017-01-01
Mutations resulting in constitutive activation of signaling pathways that regulate ribosome biogenesis are among the most common genetic events in acute myeloid leukemia (AML). However, whether ribosome biogenesis presents as a therapeutic target to treat AML remains unexplored. Perturbations in ribosome biogenesis trigger the 5S ribonucleoprotein particle (RNP)-Mdm2-p53 ribosomal stress pathway, and induction of this pathway has been shown to have therapeutic efficacy in Myc-driven lymphoma. In the current study we address the physiological and therapeutic role of the 5S RNP-Mdm2-p53 pathway in AML. By utilizing mice that have defective ribosome biogenesis due to downregulation of ribosomal protein S19 (Rps19), we demonstrate that induction of the 5S RNP-Mdm2-p53 pathway significantly delays the initiation of AML. However, even a severe Rps19 deficiency that normally results in acute bone marrow failure has no consistent efficacy on already established disease. Finally, by using mice that harbor a mutation in the Mdm2 gene disrupting its binding to 5S RNP, we show that loss of the 5S RNP-Mdm2-p53 pathway is dispensable for development of AML. Our study suggests that induction of the 5S RNP-Mdm2-p53 ribosomal stress pathway holds limited potential as a single-agent therapy in the treatment of AML.
High-Order Hamilton's Principle and the Hamilton's Principle of High-Order Lagrangian Function
International Nuclear Information System (INIS)
Zhao Hongxia; Ma Shanjun
2008-01-01
In this paper, based on the theorem of the high-order velocity energy, integration and variation principle, the high-order Hamilton's principle of general holonomic systems is given. Then, three-order Lagrangian equations and four-order Lagrangian equations are obtained from the high-order Hamilton's principle. Finally, the Hamilton's principle of high-order Lagrangian function is given.
High-order finite volume advection
Shaw, James
2018-01-01
The cubicFit advection scheme is limited to second-order convergence because it uses a polynomial reconstruction fitted to point values at cell centres. The highOrderFit advection scheme achieves higher than second order by calculating high-order moments over the mesh geometry.
High order harmonic generation in rare gases
Energy Technology Data Exchange (ETDEWEB)
Budil, Kimberly Susan [Univ. of California, Davis, CA (United States)
1994-05-01
The process of high order harmonic generation in atomic gases has shown great promise as a method of generating extremely short wavelength radiation, extending far into the extreme ultraviolet (XUV). The process is conceptually simple. A very intense laser pulse (I ~10^{13}-10^{14} W/cm^{2}) is focused into a dense (~10^{17} particles/cm^{3}) atomic medium, causing the atoms to become polarized. These atomic dipoles are then coherently driven by the laser field and begin to radiate at odd harmonics of the laser field. This dissertation is a study of both the physical mechanism of harmonic generation as well as its development as a source of coherent XUV radiation. Recently, a semiclassical theory has been proposed which provides a simple, intuitive description of harmonic generation. In this picture the process is treated in two steps. The atom ionizes via tunneling after which its classical motion in the laser field is studied. Electron trajectories which return to the vicinity of the nucleus may recombine and emit a harmonic photon, while those which do not return will ionize. An experiment was performed to test the validity of this model wherein the trajectory of the electron as it orbits the nucleus or ion core is perturbed by driving the process with elliptically, rather than linearly, polarized laser radiation. The semiclassical theory predicts a rapid turn-off of harmonic production as the ellipticity of the driving field is increased. This decrease in harmonic production is observed experimentally and a simple quantum mechanical theory is used to model the data. The second major focus of this work was on development of the harmonic "source". A series of experiments were performed examining the spatial profiles of the harmonics. The quality of the spatial profile is crucial if the harmonics are to be used as the source for experiments, particularly if they must be refocused.
Generation of intense high-order vortex harmonics.
Zhang, Xiaomei; Shen, Baifei; Shi, Yin; Wang, Xiaofeng; Zhang, Lingang; Wang, Wenpeng; Xu, Jiancai; Yi, Longqiong; Xu, Zhizhan
2015-05-01
This Letter presents for the first time a scheme to generate intense high-order optical vortices that carry orbital angular momentum in the extreme ultraviolet region based on relativistic harmonics from the surface of a solid target. In the three-dimensional particle-in-cell simulation, the high-order harmonics of the high-order vortex mode is generated in both reflected and transmitted light beams when a linearly polarized Laguerre-Gaussian laser pulse impinges on a solid foil. The azimuthal mode of the harmonics scales with its order. The intensity of the high-order vortex harmonics is close to the relativistic region, with the pulse duration down to attosecond scale. The obtained intense vortex beam possesses the combined properties of fine transversal structure due to the high-order mode and the fine longitudinal structure due to the short wavelength of the high-order harmonics. In addition to the application in high-resolution detection in both spatial and temporal scales, it also presents new opportunities in the intense vortex required fields, such as the inner shell ionization process and high energy twisted photons generation by Thomson scattering of such an intense vortex beam off relativistic electrons.
Nguyen, Nhat Truong; Altomare, Marco; Yoo, JeongEun; Schmuki, Patrik
2015-05-27
Anodic self-organized TiO2 nanostumps are formed and exploited for self-ordering dewetting of Au-Ag sputtered films. This forms ordered particle configurations at the tube top (crown position) or bottom (ground position). By dealloying from a minimal amount of noble metal, porous Au nanoparticles are then formed, which, when in the crown position, allow for a drastically improved photocatalytic H2 production compared with nanoparticles produced by conventional dewetting processes. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
High-Order Frequency-Locked Loops
DEFF Research Database (Denmark)
Golestan, Saeed; Guerrero, Josep M.; Quintero, Juan Carlos Vasquez
2017-01-01
In very recent years, some attempts for designing high-order frequency-locked loops (FLLs) have been made. Nevertheless, the advantages and disadvantages of these structures, particularly in comparison with a standard FLL and high-order phase-locked loops (PLLs), are rather unclear. This lack...... study, and its small-signal modeling, stability analysis, and parameter tuning are presented. Finally, to gain insight about advantages and disadvantages of high-order FLLs, a theoretical and experimental performance comparison between the designed second-order FLL and a standard FLL (first-order FLL...
High order Poisson Solver for unbounded flows
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm; Rasmussen, Johannes Tophøj; Chatelain, Philippe
2015-01-01
This paper presents a high order method for solving the unbounded Poisson equation on a regular mesh using a Green’s function solution. The high order convergence was achieved by formulating mollified integration kernels, that were derived from a filter regularisation of the solution field....... The method was implemented on a rectangular domain using fast Fourier transforms (FFT) to increase computational efficiency. The Poisson solver was extended to directly solve the derivatives of the solution. This is achieved either by including the differential operator in the integration kernel...... the equations of fluid mechanics as an example, but can be used in many physical problems to solve the Poisson equation on a rectangular unbounded domain. For the two-dimensional case we propose an infinitely smooth test function which allows for arbitrary high order convergence. Using Gaussian smoothing...
High-order beam optics - an overview
International Nuclear Information System (INIS)
Heighway, E.A.
1989-01-01
Beam-transport codes have been around for as long as thirty years and high order codes, second-order at least, for close to twenty years. Before this period of design-code development, there was considerable high-order treatment, but it was almost entirely analytical. History has a way of repeating itself, and the current excitement in the field of high-order optics is based on the application of Lie algebra and the so-called differential algebra to beam-transport codes, both of which are highly analytical in foundation. The author will describe some of the main design tools available today, giving a little of their history, and will conclude by trying to convey some of the excitement in the field through a brief description of Lie and differential algebra. 30 refs., 7 figs., 1 tab
Jaako, P; Debnath, S; Olsson, K; Zhang, Y; Flygare, J; Lindström, M S; Bryder, D; Karlsson, S
2015-11-01
Diamond-Blackfan anemia (DBA) is a congenital erythroid hypoplasia caused by haploinsufficiency of genes encoding ribosomal proteins (RPs). Perturbed ribosome biogenesis in DBA has been shown to induce a p53-mediated ribosomal stress response. However, the mechanisms of p53 activation and its relevance for the erythroid defect remain elusive. Previous studies have indicated that activation of p53 is caused by the inhibition of mouse double minute 2 (Mdm2), the main negative regulator of p53, by the 5S ribonucleoprotein particle (RNP). Meanwhile, it is not clear whether this mechanism solely mediates the p53-dependent component found in DBA. To approach this question, we crossed our mouse model for RPS19-deficient DBA with Mdm2(C305F) knock-in mice that have a disrupted 5S RNP-Mdm2 interaction. Upon induction of the Rps19 deficiency, Mdm2(C305F) reversed the p53 response and improved expansion of hematopoietic progenitors in vitro, and ameliorated the anemia in vivo. Unexpectedly, disruption of the 5S RNP-Mdm2 interaction also led to selective defect in erythropoiesis. Our findings highlight the sensitivity of erythroid progenitor cells to aberrations in p53 homeostasis mediated by the 5S RNP-Mdm2 interaction. Finally, we provide evidence indicating that physiological activation of the 5S RNP-Mdm2-p53 pathway may contribute to functional decline of the hematopoietic system in a cell-autonomous manner over time.
Bioinspired Nanocomposite Hydrogels with Highly Ordered Structures.
Zhao, Ziguang; Fang, Ruochen; Rong, Qinfeng; Liu, Mingjie
2017-12-01
In the human body, many soft tissues with hierarchically ordered composite structures, such as cartilage, skeletal muscle, the corneas, and blood vessels, exhibit highly anisotropic mechanical strength and functionality to adapt to complex environments. In artificial soft materials, hydrogels are analogous to these biological soft tissues due to their "soft and wet" properties, their biocompatibility, and their elastic performance. However, conventional hydrogel materials with unordered homogeneous structures inevitably lack high mechanical properties and anisotropic functional performances; thus, their further application is limited. Inspired by biological soft tissues with well-ordered structures, researchers have increasingly investigated highly ordered nanocomposite hydrogels as functional biological engineering soft materials with unique mechanical, optical, and biological properties. These hydrogels incorporate long-range ordered nanocomposite structures within hydrogel network matrixes. Here, the critical design criteria and the state-of-the-art fabrication strategies of nanocomposite hydrogels with highly ordered structures are systemically reviewed. Then, recent progress in applications in the fields of soft actuators, tissue engineering, and sensors is highlighted. The future development and prospective application of highly ordered nanocomposite hydrogels are also discussed. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
Substrate-assisted mechanism of RNP disruption by the spliceosomal Brr2 RNA helicase
Theuser, Matthias; Höbartner, Claudia; Wahl, Markus C.; Santos, Karine F.
2016-01-01
The Brr2 RNA helicase disrupts the U4/U6 di-small nuclear RNA–protein complex (di-snRNP) during spliceosome activation via ATP-driven translocation on the U4 snRNA strand. However, it is unclear how bound proteins influence U4/U6 unwinding, which regions of the U4/U6 duplex the helicase actively unwinds, and whether U4/U6 components are released as individual molecules or as subcomplexes. Here, we set up a recombinant Brr2-mediated U4/U6 di-snRNP disruption system, showing that sequential addition of the U4/U6 proteins small nuclear ribonucleoprotein-associated protein 1 (Snu13), pre-mRNA processing factor 31 (Prp31), and Prp3 to U4/U6 di-snRNA leads to a stepwise decrease of Brr2-mediated U4/U6 unwinding, but that unwinding is largely restored by a Brr2 cofactor, the C-terminal Jab1/MPN domain of the Prp8 protein. Brr2-mediated U4/U6 unwinding was strongly inhibited by mutations in U4/U6 di-snRNAs that diminish the ability of U6 snRNA to adopt an alternative conformation but leave the number and kind of U4/U6 base pairs unchanged. Irrespective of the presence of the cofactor, the helicase segregated a Prp3-Prp31-Snu13-U4/U6 RNP into an intact Prp31-Snu13-U4 snRNA particle, free Prp3, and free U6 snRNA. Together, these observations suggest that Brr2 translocates only a limited distance on the U4 snRNA strand and does not actively release RNA-bound proteins. Unwinding is then completed by the partially displaced U6 snRNA adopting an alternative conformation, which leads to dismantling of the Prp3-binding site on U4/U6 di-snRNA but leaves the Prp31- and Snu13-binding sites on U4 snRNA unaffected. In this fashion, Brr2 can activate the spliceosome by stripping U6 snRNA of all precatalytic binding partners, while minimizing logistic requirements for U4/U6 di-snRNP reassembly after splicing. PMID:27354531
High order harmonic generation from plasma mirror
International Nuclear Information System (INIS)
Thaury, C.
2008-09-01
When an intense laser beam is focused on a solid target, its surface is rapidly ionized and forms a dense plasma that reflects the incident field. For laser intensities above few 10 15 W/cm 2 , high order harmonics of the laser frequency, associated in the time domain to a train of atto-second pulses (1 as = 10 18 s), can be generated upon this reflection. Because such a plasma mirror can be used with arbitrarily high laser intensities, this process should eventually lead to the production of very intense pulses in the X-ray domain. In this thesis, we demonstrate that for laser intensities about 10 19 W/cm 2 , two mechanisms can contribute to the generation of high order harmonics: the coherent wake emission and the relativistic emission. These two mechanisms are studied both theoretically and experimentally. In particular, we show that, thanks to very different properties, the harmonics generated by these two processes can be unambiguously distinguished experimentally. We then investigate the phase properties of the harmonic, in the spectral and in the spatial domain. Finally, we illustrate how to exploit the coherence of the generation mechanisms to get information on the dynamics of the plasma electrons. (author)
Hermes (Rbpms is a Critical Component of RNP Complexes that Sequester Germline RNAs during Oogenesis
Directory of Open Access Journals (Sweden)
Tristan Aguero
2016-01-01
Full Text Available The germ cell lineage in Xenopus is specified by the inheritance of germ plasm that assembles within the mitochondrial cloud or Balbiani body in stage I oocytes. Specific RNAs, such as nanos1, localize to the germ plasm. nanos1 has the essential germline function of blocking somatic gene expression and thus preventing Primordial Germ Cell (PGC loss and sterility. Hermes/Rbpms protein and nanos RNA co-localize within germinal granules, diagnostic electron dense particles found within the germ plasm. Previous work indicates that nanos accumulates within the germ plasm through a diffusion/entrapment mechanism. Here we show that Hermes/Rbpms interacts with nanos through sequence specific RNA localization signals found in the nanos-3′UTR. Importantly, Hermes/Rbpms specifically binds nanos, but not Vg1 RNA in the nucleus of stage I oocytes. In vitro binding data show that Hermes/Rbpms requires additional factors that are present in stage I oocytes in order to bind nanos1. One such factor may be hnRNP I, identified in a yeast-2-hybrid screen as directly interacting with Hermes/Rbpms. We suggest that Hermes/Rbpms functions as part of a RNP complex in the nucleus that facilitates selection of germline RNAs for germ plasm localization. We propose that Hermes/Rbpms is required for nanos RNA to form within the germinal granules and in this way, participates in the germline specific translational repression and sequestration of nanos RNA.
Aguero, Tristan; Zhou, Yi; Kloc, Malgorzata; Chang, Patrick; Houliston, Evelyn; King, Mary Lou
2016-03-01
The germ cell lineage in Xenopus is specified by the inheritance of germ plasm that assembles within the mitochondrial cloud or Balbiani body in stage I oocytes. Specific RNAs, such as nanos1 , localize to the germ plasm. nanos1 has the essential germline function of blocking somatic gene expression and thus preventing Primordial Germ Cell (PGC) loss and sterility. Hermes/Rbpms protein and nanos RNA co-localize within germinal granules, diagnostic electron dense particles found within the germ plasm. Previous work indicates that nanos accumulates within the germ plasm through a diffusion/entrapment mechanism. Here we show that Hermes/Rbpms interacts with nanos through sequence specific RNA localization signals found in the nanos -3'UTR. Importantly, Hermes/Rbpms specifically binds nanos , but not Vg1 RNA in the nucleus of stage I oocytes. In vitro binding data show that Hermes/Rbpms requires additional factors that are present in stage I oocytes in order to bind nanos1 . One such factor may be hnRNP I, identified in a yeast-2-hybrid screen as directly interacting with Hermes/Rbpms. We suggest that Hermes/Rbpms functions as part of a RNP complex in the nucleus that facilitates selection of germline RNAs for germ plasm localization. We propose that Hermes/Rbpms is required for nanos RNA to form within the germinal granules and in this way, participates in the germline specific translational repression and sequestration of nanos RNA .
Nishimura, Kazuho; Kumazawa, Takuya; Kuroda, Takao; Katagiri, Naohiro; Tsuchiya, Mai; Goto, Natsuka; Furumai, Ryohei; Murayama, Akiko; Yanagisawa, Junn; Kimura, Keiji
2015-03-03
The 5S ribonucleoprotein particle (RNP) complex, consisting of RPL11, RPL5, and 5S rRNA, is implicated in p53 regulation under ribotoxic stress. Here, we show that the 5S RNP contributes to p53 activation and promotes cellular senescence in response to oncogenic or replicative stress. Oncogenic stress accelerates rRNA transcription and replicative stress delays rRNA processing, resulting in RPL11 and RPL5 accumulation in the ribosome-free fraction, where they bind MDM2. Experimental upregulation of rRNA transcription or downregulation of rRNA processing, mimicking the nucleolus under oncogenic or replicative stress, respectively, also induces RPL11-mediated p53 activation and cellular senescence. We demonstrate that exogenous expression of certain rRNA-processing factors rescues the processing defect, attenuates p53 accumulation, and increases replicative lifespan. To summarize, the nucleolar-5S RNP-p53 pathway functions as a senescence inducer in response to oncogenic and replicative stresses. Copyright © 2015 The Authors. Published by Elsevier Inc. All rights reserved.
Directory of Open Access Journals (Sweden)
Kazuho Nishimura
2015-03-01
Full Text Available The 5S ribonucleoprotein particle (RNP complex, consisting of RPL11, RPL5, and 5S rRNA, is implicated in p53 regulation under ribotoxic stress. Here, we show that the 5S RNP contributes to p53 activation and promotes cellular senescence in response to oncogenic or replicative stress. Oncogenic stress accelerates rRNA transcription and replicative stress delays rRNA processing, resulting in RPL11 and RPL5 accumulation in the ribosome-free fraction, where they bind MDM2. Experimental upregulation of rRNA transcription or downregulation of rRNA processing, mimicking the nucleolus under oncogenic or replicative stress, respectively, also induces RPL11-mediated p53 activation and cellular senescence. We demonstrate that exogenous expression of certain rRNA-processing factors rescues the processing defect, attenuates p53 accumulation, and increases replicative lifespan. To summarize, the nucleolar-5S RNP-p53 pathway functions as a senescence inducer in response to oncogenic and replicative stresses.
Isoforms of U1-70k control subunit dynamics in the human spliceosomal U1 snRNP.
Directory of Open Access Journals (Sweden)
Helena Hernández
2009-09-01
Full Text Available Most human protein-encoding genes contain multiple exons that are spliced together, frequently in alternative arrangements, by the spliceosome. It is established that U1 snRNP is an essential component of the spliceosome, in human consisting of RNA and ten proteins, several of which are post-translationally modified and exist as multiple isoforms. Unresolved and challenging to investigate are the effects of these post translational modifications on the dynamics, interactions and stability of the particle. Using mass spectrometry we investigate the composition and dynamics of the native human U1 snRNP and compare native and recombinant complexes to isolate the effects of various subunits and isoforms on the overall stability. Our data reveal differential incorporation of four protein isoforms and dynamic interactions of subunits U1-A, U1-C and Sm-B/B'. Results also show that unstructured post-translationally modified C-terminal tails are responsible for the dynamics of Sm-B/B' and U1-C and that their interactions with the Sm core are controlled by binding to different U1-70k isoforms and their phosphorylation status in vivo. These results therefore provide the important functional link between proteomics and structure as well as insight into the dynamic quaternary structure of the native U1 snRNP important for its function.
High order corrections to the renormalon
International Nuclear Information System (INIS)
Faleev, S.V.
1997-01-01
High order corrections to the renormalon are considered. Each new type of insertion into the renormalon chain of graphs generates a correction to the asymptotics of perturbation theory of the order of ∝1. However, this series of corrections to the asymptotics is not the asymptotic one (i.e. the mth correction does not grow like m.). The summation of these corrections for the UV renormalon may change the asymptotics by a factor N δ . For the traditional IR renormalon the mth correction diverges like (-2) m . However, this divergence has no infrared origin and may be removed by a proper redefinition of the IR renormalon. On the other hand, for IR renormalons in hadronic event shapes one should naturally expect these multiloop contributions to decrease like (-2) -m . Some problems expected upon reaching the best accuracy of perturbative QCD are also discussed. (orig.)
High-order passive photonic temporal integrators.
Asghari, Mohammad H; Wang, Chao; Yao, Jianping; Azaña, José
2010-04-15
We experimentally demonstrate, for the first time to our knowledge, an ultrafast photonic high-order (second-order) complex-field temporal integrator. The demonstrated device uses a single apodized uniform-period fiber Bragg grating (FBG), and it is based on a general FBG design approach for implementing optimized arbitrary-order photonic passive temporal integrators. Using this same design approach, we also fabricate and test a first-order passive temporal integrator offering an energetic-efficiency improvement of more than 1 order of magnitude as compared with previously reported passive first-order temporal integrators. Accurate and efficient first- and second-order temporal integrations of ultrafast complex-field optical signals (with temporal features as fast as approximately 2.5ps) are successfully demonstrated using the fabricated FBG devices.
High-order nonlinear susceptibilities of He
International Nuclear Information System (INIS)
Liu, W.C.; Clark, C.W.
1996-01-01
High-order nonlinear optical response of noble gases to intense laser radiation is of considerable experimental interest, but is difficult to measure or calculate accurately. The authors have begun a set of calculations of frequency-dependent nonlinear susceptibilities of He 1s, within the framework of Rayleigh=Schroedinger perturbation theory at lowest applicable order, with the goal of providing critically evaluated atomic data for modelling high harmonic generation processes. The atomic Hamiltonian is decomposed in term of Hylleraas coordinates and spherical harmonics using the formalism of Ponte and Shakeshaft, and the hierarchy of inhomogeneous equations of perturbation theory is solved iteratively. A combination of Hylleraas and Frankowski basis functions is used; the compact Hylleraas basis provides a highly accurate representation of the ground state wavefunction, whereas the diffuse Frankowski basis functions efficiently reproduce the correct asymptotic structure of the perturbed orbitals
High-order nonuniformly correlated beams
Wu, Dan; Wang, Fei; Cai, Yangjian
2018-02-01
We have introduced a class of partially coherent beams with spatially varying correlations named high-order nonuniformly correlated (HNUC) beams, as an extension of conventional nonuniformly correlated (NUC) beams. Such beams bring a new parameter (mode order) which is used to tailor the spatial coherence properties. The behavior of the spectral density of the HNUC beams on propagation has been investigated through numerical examples with the help of discrete model decomposition and fast Fourier transform (FFT) algorithm. Our results reveal that by selecting the mode order appropriately, the more sharpened intensity maxima can be achieved at a certain propagation distance compared to that of the NUC beams, and the lateral shift of the intensity maxima on propagation is closed related to the mode order. Furthermore, analytical expressions for the r.m.s width and the propagation factor of the HNUC beams on free-space propagation are derived by means of Wigner distribution function. The influence of initial beam parameters on the evolution of the r.m.s width and the propagation factor, and the relation between the r.m.s width and the occurring of the sharpened intensity maxima on propagation have been studied and discussed in detail.
High Order Semi-Lagrangian Advection Scheme
Malaga, Carlos; Mandujano, Francisco; Becerra, Julian
2014-11-01
In most fluid phenomena, advection plays an important roll. A numerical scheme capable of making quantitative predictions and simulations must compute correctly the advection terms appearing in the equations governing fluid flow. Here we present a high order forward semi-Lagrangian numerical scheme specifically tailored to compute material derivatives. The scheme relies on the geometrical interpretation of material derivatives to compute the time evolution of fields on grids that deform with the material fluid domain, an interpolating procedure of arbitrary order that preserves the moments of the interpolated distributions, and a nonlinear mapping strategy to perform interpolations between undeformed and deformed grids. Additionally, a discontinuity criterion was implemented to deal with discontinuous fields and shocks. Tests of pure advection, shock formation and nonlinear phenomena are presented to show performance and convergence of the scheme. The high computational cost is considerably reduced when implemented on massively parallel architectures found in graphic cards. The authors acknowledge funding from Fondo Sectorial CONACYT-SENER Grant Number 42536 (DGAJ-SPI-34-170412-217).
High order harmonic generation from plasma mirrors
International Nuclear Information System (INIS)
George, H.
2010-01-01
When an intense laser beam is focused on a solid target, the target's surface is rapidly ionized and forms dense plasma that reflects the incident field. For laser intensities above few 10 to the power of 15 Wcm -2 , high order harmonics of the laser frequency, associated in the time domain to a train of atto-second pulses (1 as 10 -18 s), can be generated upon this reflection. In this thesis, we developed numerical tools to reveal original aspects of harmonic generation mechanisms in three different interaction regime: the coherent wake emission, the relativistic emission and the resonant absorption. In particular, we established the role of these mechanisms when the target is a very thin foil (thickness of the order of 100 nm). Then we study experimentally the spectral, spatial and coherence properties of the emitted light. We illustrate how to exploit these measurements to get information on the plasma mirror dynamics on the femtosecond and atto-second time scales. Last, we propose a technique for the single-shot complete characterization of the temporal structure of the harmonic light emission from the laser-plasma mirror interaction. (author)
Yin, Shanye; Lopez-Gonzalez, Rodrigo; Kunz, Ryan C; Gangopadhyay, Jaya; Borufka, Carl; Gygi, Steven P; Gao, Fen-Biao; Reed, Robin
2017-06-13
Hexanucleotide repeat expansion in the C9ORF72 gene results in production of dipeptide repeat (DPR) proteins that may disrupt pre-mRNA splicing in amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD) patients. At present, the mechanisms underlying this mis-splicing are not understood. Here, we show that addition of proline-arginine (PR) and glycine-arginine (GR) toxic DPR peptides to nuclear extracts blocks spliceosome assembly and splicing, but not other types of RNA processing. Proteomic and biochemical analyses identified the U2 small nuclear ribonucleoprotein particle (snRNP) as a major interactor of PR and GR peptides. In addition, U2 snRNP, but not other splicing factors, mislocalizes from the nucleus to the cytoplasm both in C9ORF72 patient induced pluripotent stem cell (iPSC)-derived motor neurons and in HeLa cells treated with the toxic peptides. Bioinformatic studies support a specific role for U2-snRNP-dependent mis-splicing in C9ORF72 patient brains. Together, our data indicate that DPR-mediated dysfunction of U2 snRNP could account for as much as ∼44% of the mis-spliced cassette exons in C9ORF72 patient brains. Copyright © 2017 The Author(s). Published by Elsevier Inc. All rights reserved.
Directory of Open Access Journals (Sweden)
Shanye Yin
2017-06-01
Full Text Available Hexanucleotide repeat expansion in the C9ORF72 gene results in production of dipeptide repeat (DPR proteins that may disrupt pre-mRNA splicing in amyotrophic lateral sclerosis (ALS and frontotemporal dementia (FTD patients. At present, the mechanisms underlying this mis-splicing are not understood. Here, we show that addition of proline-arginine (PR and glycine-arginine (GR toxic DPR peptides to nuclear extracts blocks spliceosome assembly and splicing, but not other types of RNA processing. Proteomic and biochemical analyses identified the U2 small nuclear ribonucleoprotein particle (snRNP as a major interactor of PR and GR peptides. In addition, U2 snRNP, but not other splicing factors, mislocalizes from the nucleus to the cytoplasm both in C9ORF72 patient induced pluripotent stem cell (iPSC-derived motor neurons and in HeLa cells treated with the toxic peptides. Bioinformatic studies support a specific role for U2-snRNP-dependent mis-splicing in C9ORF72 patient brains. Together, our data indicate that DPR-mediated dysfunction of U2 snRNP could account for as much as ∼44% of the mis-spliced cassette exons in C9ORF72 patient brains.
Specific RNP capture with antisense LNA/DNA mixmers.
Rogell, Birgit; Fischer, Bernd; Rettel, Mandy; Krijgsveld, Jeroen; Castello, Alfredo; Hentze, Matthias W
2017-08-01
RNA-binding proteins (RBPs) play essential roles in RNA biology, responding to cellular and environmental stimuli to regulate gene expression. Important advances have helped to determine the (near) complete repertoires of cellular RBPs. However, identification of RBPs associated with specific transcripts remains a challenge. Here, we describe "specific ribonucleoprotein (RNP) capture," a versatile method for the determination of the proteins bound to specific transcripts in vitro and in cellular systems. Specific RNP capture uses UV irradiation to covalently stabilize protein-RNA interactions taking place at "zero distance." Proteins bound to the target RNA are captured by hybridization with antisense locked nucleic acid (LNA)/DNA oligonucleotides covalently coupled to a magnetic resin. After stringent washing, interacting proteins are identified by quantitative mass spectrometry. Applied to in vitro extracts, specific RNP capture identifies the RBPs bound to a reporter mRNA containing the Sex-lethal (Sxl) binding motifs, revealing that the Sxl homolog sister of Sex lethal (Ssx) displays similar binding preferences. This method also revealed the repertoire of RBPs binding to 18S or 28S rRNAs in HeLa cells, including previously unknown rRNA-binding proteins. © 2017 Rogell et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society.
High-order space charge effects using automatic differentiation
International Nuclear Information System (INIS)
Reusch, Michael F.; Bruhwiler, David L.
1997-01-01
The Northrop Grumman Topkark code has been upgraded to Fortran 90, making use of operator overloading, so the same code can be used to either track an array of particles or construct a Taylor map representation of the accelerator lattice. We review beam optics and beam dynamics simulations conducted with TOPKARK in the past and we present a new method for modeling space charge forces to high-order with automatic differentiation. This method generates an accurate, high-order, 6-D Taylor map of the phase space variable trajectories for a bunched, high-current beam. The spatial distribution is modeled as the product of a Taylor Series times a Gaussian. The variables in the argument of the Gaussian are normalized to the respective second moments of the distribution. This form allows for accurate representation of a wide range of realistic distributions, including any asymmetries, and allows for rapid calculation of the space charge fields with free space boundary conditions. An example problem is presented to illustrate our approach
High-order space charge effects using automatic differentiation
International Nuclear Information System (INIS)
Reusch, M.F.; Bruhwiler, D.L.; Computer Accelerator Physics Conference Williamsburg, Virginia 1996)
1997-01-01
The Northrop Grumman Topkark code has been upgraded to Fortran 90, making use of operator overloading, so the same code can be used to either track an array of particles or construct a Taylor map representation of the accelerator lattice. We review beam optics and beam dynamics simulations conducted with TOPKARK in the past and we present a new method for modeling space charge forces to high-order with automatic differentiation. This method generates an accurate, high-order, 6-D Taylor map of the phase space variable trajectories for a bunched, high-current beam. The spatial distribution is modeled as the product of a Taylor Series times a Gaussian. The variables in the argument of the Gaussian are normalized to the respective second moments of the distribution. This form allows for accurate representation of a wide range of realistic distributions, including any asymmetries, and allows for rapid calculation of the space charge fields with free space boundary conditions. An example problem is presented to illustrate our approach. copyright 1997 American Institute of Physics
A high-order SPH method by introducing inverse kernels
Directory of Open Access Journals (Sweden)
Le Fang
2017-02-01
Full Text Available The smoothed particle hydrodynamics (SPH method is usually expected to be an efficient numerical tool for calculating the fluid-structure interactions in compressors; however, an endogenetic restriction is the problem of low-order consistency. A high-order SPH method by introducing inverse kernels, which is quite easy to be implemented but efficient, is proposed for solving this restriction. The basic inverse method and the special treatment near boundary are introduced with also the discussion of the combination of the Least-Square (LS and Moving-Least-Square (MLS methods. Then detailed analysis in spectral space is presented for people to better understand this method. Finally we show three test examples to verify the method behavior.
High-order dynamic lattice method for seismic simulation in anisotropic media
Hu, Xiaolin; Jia, Xiaofeng
2018-03-01
The discrete particle-based dynamic lattice method (DLM) offers an approach to simulate elastic wave propagation in anisotropic media by calculating the anisotropic micromechanical interactions between these particles based on the directions of the bonds that connect them in the lattice. To build such a lattice, the media are discretized into particles. This discretization inevitably leads to numerical dispersion. The basic lattice unit used in the original DLM only includes interactions between the central particle and its nearest neighbours; therefore, it represents the first-order form of a particle lattice. The first-order lattice suffers from numerical dispersion compared with other numerical methods, such as high-order finite-difference methods, in terms of seismic wave simulation. Due to its unique way of discretizing the media, the particle-based DLM no longer solves elastic wave equations; this means that one cannot build a high-order DLM by simply creating a high-order discrete operator to better approximate a partial derivative operator. To build a high-order DLM, we carry out a thorough dispersion analysis of the method and discover that by adding more neighbouring particles into the lattice unit, the DLM will yield different spatial accuracy. According to the dispersion analysis, the high-order DLM presented here can adapt the requirement of spatial accuracy for seismic wave simulations. For any given spatial accuracy, we can design a corresponding high-order lattice unit to satisfy the accuracy requirement. Numerical tests show that the high-order DLM improves the accuracy of elastic wave simulation in anisotropic media.
Robart, Aaron R; O'Connor, Catherine M; Collins, Kathleen
2010-03-01
Telomerase adds simple-sequence repeats to chromosome 3' ends to compensate for the loss of repeats with each round of genome replication. To accomplish this de novo DNA synthesis, telomerase uses a template within its integral RNA component. In addition to providing the template, the telomerase RNA subunit (TER) also harbors nontemplate motifs that contribute to the specialized telomerase catalytic cycle of reiterative repeat synthesis. Most nontemplate TER motifs function through linkage with the template, but in ciliate and vertebrate telomerases, a stem-loop motif binds telomerase reverse transcriptase (TERT) and reconstitutes full activity of the minimal recombinant TERT+TER RNP, even when physically separated from the template. Here, we resolve the functional requirements for this motif of ciliate TER in physiological RNP context using the Tetrahymena thermophila p65-TER-TERT core RNP reconstituted in vitro and the holoenzyme reconstituted in vivo. Contrary to expectation based on assays of the minimal recombinant RNP, we find that none of a panel of individual loop IV nucleotide substitutions impacts the profile of telomerase product synthesis when reconstituted as physiological core RNP or holoenzyme RNP. However, loop IV nucleotide substitutions do variably reduce assembly of TERT with the p65-TER complex in vitro and reduce the accumulation and stability of telomerase RNP in endogenous holoenzyme context. Our results point to a unifying model of a conformational activation role for this TER motif in the telomerase RNP enzyme.
U3 snoRNP associates with fibrillarin a component of the scleroderma clumpy nucleolar domain
DEFF Research Database (Denmark)
Herrera-Esparza, Rafael; Kruse, Lars; von Essen, Marina
2002-01-01
by ELISA was recognized by the clumpy scleroderma serum from the majority of patients. In situ hybridization assays showed that the fibrillarin tagged by the elicited antibodies was colocalized with U3 snoRNP in the nucleolus in a clumpy manner and coprecipitated the U3 snoRNP. In conclusion...
Li, Xiaoze; Johansson, Cecilia; Glahder, Jacob; Mossberg, Ann-Kristin; Schwartz, Stefan
2013-01-01
Human papillomavirus type 16 (HPV-16) 5′-splice site SD3632 is used exclusively to produce late L1 mRNAs. We identified a 34-nt splicing inhibitory element located immediately upstream of HPV-16 late 5′-splice site SD3632. Two AUAGUA motifs located in these 34 nt inhibited SD3632. Two nucleotide substitutions in each of the HPV-16 specific AUAGUA motifs alleviated splicing inhibition and induced late L1 mRNA production from episomal forms of the HPV-16 genome in primary human keratinocytes. The AUAGUA motifs bind specifically not only to the heterogeneous nuclear RNP (hnRNP) D family of RNA-binding proteins including hnRNP D/AUF, hnRNP DL and hnRNP AB but also to hnRNP A2/B1. Knock-down of these proteins induced HPV-16 late L1 mRNA expression, and overexpression of hnRNP A2/B1, hnRNP AB, hnRNP DL and the two hnRNP D isoforms hnRNP D37 and hnRNP D40 further suppressed L1 mRNA expression. This inhibition may allow HPV-16 to hide from the immune system and establish long-term persistent infections with enhanced risk at progressing to cancer. There is an inverse correlation between expression of hnRNP D proteins and hnRNP A2/B1 and HPV-16 L1 production in the cervical epithelium, as well as in cervical cancer, supporting the conclusion that hnRNP D proteins and A2/B1 inhibit HPV-16 L1 mRNA production. PMID:24013563
RNA and RNP as Building Blocks for Nanotechnology and Synthetic Biology.
Ohno, Hirohisa; Saito, Hirohide
2016-01-01
Recent technologies that aimed to elucidate cellular function have revealed essential roles for RNA molecules in living systems. Our knowledge concerning functional and structural information of naturally occurring RNA and RNA-protein (RNP) complexes is increasing rapidly. RNA and RNP interaction motifs are structural units that function as building blocks to constitute variety of complex structures. RNA-central synthetic biology and nanotechnology are constructive approaches that employ the accumulated information and build synthetic RNA (RNP)-based circuits and nanostructures. Here, we describe how to design and construct synthetic RNA (RNP)-based devices and structures at the nanometer-scale for biological and future therapeutic applications. RNA/RNP nanostructures can also be utilized as the molecular scaffold to control the localization or interactions of target molecule(s). Moreover, RNA motifs recognized by RNA-binding proteins can be applied to make protein-responsive translational "switches" that can turn gene expression "on" or "off" depending on the intracellular environment. This "synthetic RNA and RNP world" will expand tools for nanotechnology and synthetic biology. In addition, these reconstructive approaches would lead to a greater understanding of building principle in naturally occurring RNA/RNP molecules and systems. Copyright © 2016 Elsevier Inc. All rights reserved.
The importance of ribosome production, and the 5S RNP-MDM2 pathway, in health and disease.
Pelava, Andria; Schneider, Claudia; Watkins, Nicholas J
2016-08-15
Ribosomes are abundant, large RNA-protein complexes that are the source of all protein synthesis in the cell. The production of ribosomes is an extremely energetically expensive cellular process that has long been linked to human health and disease. More recently, it has been shown that ribosome biogenesis is intimately linked to multiple cellular signalling pathways and that defects in ribosome production can lead to a wide variety of human diseases. Furthermore, changes in ribosome production in response to nutrient levels in the diet lead to metabolic re-programming of the liver. Reduced or abnormal ribosome production in response to cellular stress or mutations in genes encoding factors critical for ribosome biogenesis causes the activation of the tumour suppressor p53, which leads to re-programming of cellular transcription. The ribosomal assembly intermediate 5S RNP (ribonucleoprotein particle), containing RPL5, RPL11 and the 5S rRNA, accumulates when ribosome biogenesis is blocked. The excess 5S RNP binds to murine double minute 2 (MDM2), the main p53-suppressor in the cell, inhibiting its function and leading to p53 activation. Here, we discuss the involvement of ribosome biogenesis in the homoeostasis of p53 in the cell and in human health and disease. © 2016 The Author(s).
Pseudosubstrate regulation of the SCF(beta-TrCP) ubiquitin ligase by hnRNP-U
DEFF Research Database (Denmark)
Davis, Matti; Hatzubai, Ada; Andersen, Jens S
2002-01-01
in the nucleus. Here we report the isolation of the major E3RS-associated protein, hnRNP-U, an abundant nuclear phosphoprotein. This protein occupies E3RS in a specific and stoichiometric manner, stabilizes the E3 component, and is likely responsible for its nuclear localization. hnRNP-U binding was abolished....... Consequently, hnRNP-U engages a highly neddylated active SCF(beta-TrCP), which dissociates in the presence of a high-affinity substrate, resulting in ubiquitination of the latter. Our study points to a novel regulatory mechanism, which secures the localization, stability, substrate binding threshold...
The effect of O-GlcNAcylation on hnRNP A1 translocation and interaction with transportin1
Energy Technology Data Exchange (ETDEWEB)
Roth, Shira; Khalaila, Isam, E-mail: isam@bgu.ac.il
2017-01-01
The heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) is a major pre-mRNA binding protein involved in transcription and translation. Although predominantly nuclear, hnRNP A1 shuttles rapidly between the nucleus and the cytosol, delivering its anchored pre-mRNA for further processing. Translocation is important for hnRNP A1 to accomplish its transcriptional and translational roles. Transportin1 (Trn1), a translocation protein, facilitates the translocation of hnRNP A1 back to the nucleus. Moreover, phosphorylation of serine residues at hnRNP A1 C-terminal domain affects its translocation. In this study, we found that phosphorylation is not the only modification that hnRNP A1 undergoes, but also O-linked N-acetylglucosaminylation (O-GlcNAcylation) could occur. Several putative novel O-GlcNAcylation and phosphorylation sites in hnRNP A1 were mapped. Whereas enhanced O-GlcNAcylation increased hnRNP A1 interaction with Trn1, enhanced phosphorylation reduced the interaction between the proteins. In addition, elevated O-GlcNAcylation resulted in hnRNP A1 seclusion in the nucleus, whereas elevated phosphorylation resulted in its accumulation in the cytosol. These findings suggest that a new player, i.e., O-GlcNAcylation, regulates hnRNP A1 translocation and interaction with Trn1, possibly affecting its function. There is a need for further study, to elucidate the role of O-GlcNAcylation in the regulation of the specific activities of hnRNP A1 in transcription and translation. - Highlights: • O-GlcNAcylation regulates hnRNP A1 translocation and interaction with Trn1. • Reciprocity between phosphorylation and O-GlcNAcylation in hnRNP A1 is proposed. • Novel O-GlcNAcylation and phosphorylation sites on hnRNPA1 were identified.
Didychuk, Allison L; Montemayor, Eric J; Carrocci, Tucker J; DeLaitsch, Andrew T; Lucarelli, Stefani E; Westler, William M; Brow, David A; Hoskins, Aaron A; Butcher, Samuel E
2017-09-08
U6 small nuclear ribonucleoprotein (snRNP) biogenesis is essential for spliceosome assembly, but not well understood. Here, we report structures of the U6 RNA processing enzyme Usb1 from yeast and a substrate analog bound complex from humans. Unlike the human ortholog, we show that yeast Usb1 has cyclic phosphodiesterase activity that leaves a terminal 3' phosphate which prevents overprocessing. Usb1 processing of U6 RNA dramatically alters its affinity for cognate RNA-binding proteins. We reconstitute the post-transcriptional assembly of yeast U6 snRNP in vitro, which occurs through a complex series of handoffs involving 10 proteins (Lhp1, Prp24, Usb1 and Lsm2-8) and anti-cooperative interactions between Prp24 and Lhp1. We propose a model for U6 snRNP assembly that explains how evolutionarily divergent and seemingly antagonistic proteins cooperate to protect and chaperone the nascent snRNA during its journey to the spliceosome.The mechanism of U6 small nuclear ribonucleoprotein (snRNP) biogenesis is not well understood. Here the authors characterize the enzymatic activities and structures of yeast and human U6 RNA processing enzyme Usb1, reconstitute post-transcriptional assembly of yeast U6 snRNP in vitro, and propose a model for U6 snRNP assembly.
Control of box C/D snoRNP assembly by N6-methylation of adenine.
Huang, Lin; Ashraf, Saira; Wang, Jia; Lilley, David Mj
2017-09-01
N 6 -methyladenine is the most widespread mRNA modification. A subset of human box C/D snoRNA species have target GAC sequences that lead to formation of N 6 -methyladenine at a key trans Hoogsteen-sugar A·G base pair, of which half are methylated in vivo The GAC target is conserved only in those that are methylated. Methylation prevents binding of the 15.5-kDa protein and the induced folding of the RNA Thus, the assembly of the box C/D snoRNP could in principle be regulated by RNA methylation at its critical first stage. Crystallography reveals that N 6 -methylation of adenine prevents the formation of trans Hoogsteen-sugar A·G base pairs, explaining why the box C/D RNA cannot adopt its kinked conformation. More generally, our data indicate that sheared A·G base pairs (but not Watson-Crick base pairs) are more susceptible to disruption by N 6 mA methylation and are therefore possible regulatory sites. The human signal recognition particle RNA and many related Alu retrotransposon RNA species are also methylated at N6 of an adenine that forms a sheared base pair with guanine and mediates a key tertiary interaction. © 2017 The Authors. Published under the terms of the CC BY 4.0 license.
International Nuclear Information System (INIS)
Ziaei, Samira; Shimada, Naoko; Kucharavy, Herman; Hubbard, Karen
2012-01-01
Heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) is an RNA-binding protein that modulates splice site usage, polyadenylation, and cleavage efficiency. This protein has also been implicated in mRNA stability and transport from the nucleus. We have previously demonstrated that hnRNP A1 had diminished protein levels and showed cytoplasmic accumulation in senescent human diploid fibroblasts. Furthermore, we have shown that inhibition of p38 MAPK, a key regulator of cellular senescence, elevated hnRNP A1 protein levels and inhibited hnRNP A1 cytoplasmic localization. In this study, we have explored the possible involvement of MNK1, one of the downstream effector of p38 MAPK, in the regulation of hnRNP A1. We have demonstrated that pharmacological inhibition of MNK1 by CGP 57380 decreased the phosphorylation levels of hnRNP A1 in young and senescent fibroblast cells and blocked the cytoplasmic accumulation of hnRNP A1 in senescent cells. In addition, MNK1 formed a complex with hnRNP A1 in vivo. The expression levels of MNK1, phospho-MNK1, and phospho-eIF4E proteins were found to be elevated in senescent cells. These data suggest that MNK1 regulates the phosphorylation and the subcellular distribution of hnRNP A1 and that MNK1 may play a role in the induction of senescence. -- Highlights: ► MNK1 and not MAPKAPK2 phosphorylates hnRNP A1. ► MNK1 has elevated levels in senescent cells, this has not been reported previously. ► MNK1 activity induces cytoplasmic accumulation of hnRNP A1 in senescent cells. ► Altered cytoplasmic localization of hnRNP A1 may alter gene expression patterns. ► Our studies may increase our understanding of RNA metabolism during cellular aging.
Pumping RNA: nuclear bodybuilding along the RNP pipeline.
Matera, A Gregory; Shpargel, Karl B
2006-06-01
Cajal bodies (CBs) are nuclear subdomains involved in the biogenesis of several classes of small ribonucleoproteins (RNPs). A number of recent advances highlight progress in the understanding of the organization and dynamics of CB components. For example, a class of small Cajal body-specific (sca) RNPs has been discovered. Localization of scaRNPs to CBs was shown to depend on a conserved RNA motif. Intriguingly, this motif is also present in mammalian telomerase RNA and the evidence suggests that assembly of the active form of telomerase RNP occurs in and around CBs during S phase. Important steps in the assembly and modification of spliceosomal RNPs have also been shown to take place in CBs. Additional experiments have revealed the existence of kinetically distinct subclasses of CB components. Finally, the recent identification of novel markers for CBs in both Drosophila and Arabidopsis not only lays to rest questions about the evolutionary conservation of these nuclear suborganelles, but also should enable forward genetic screens for the identification of new components and pathways involved in their assembly, maintenance and function.
Integration of mRNP formation and export.
Björk, Petra; Wieslander, Lars
2017-08-01
Expression of protein-coding genes in eukaryotes relies on the coordinated action of many sophisticated molecular machineries. Transcription produces precursor mRNAs (pre-mRNAs) and the active gene provides an environment in which the pre-mRNAs are processed, folded, and assembled into RNA-protein (RNP) complexes. The dynamic pre-mRNPs incorporate the growing transcript, proteins, and the processing machineries, as well as the specific protein marks left after processing that are essential for export and the cytoplasmic fate of the mRNPs. After release from the gene, the mRNPs move by diffusion within the interchromatin compartment, making up pools of mRNPs. Here, splicing and polyadenylation can be completed and the mRNPs recruit the major export receptor NXF1. Export competent mRNPs interact with the nuclear pore complex, leading to export, concomitant with compositional and conformational changes of the mRNPs. We summarize the integrated nuclear processes involved in the formation and export of mRNPs.
Zhang, Guobo; Chen, Min; Liu, Feng; Yuan, Xiaohui; Weng, Suming; Zheng, Jun; Ma, Yanyun; Shao, Fuqiu; Sheng, Zhengming; Zhang, Jie
2017-10-02
Relativistically intense laser solid target interaction has been proved to be a promising way to generate high-order harmonics, which can be used to diagnose ultrafast phenomena. However, their emission direction and spectra still lack tunability. Based upon two-dimensional particle-in-cell simulations, we show that directional enhancement of selected high-order-harmonics can be realized using blazed grating targets. Such targets can select harmonics with frequencies being integer times of the grating frequency. Meanwhile, the radiation intensity and emission area of the harmonics are increased. The emission direction is controlled by tailoring the local blazed structure. Theoretical and electron dynamics analysis for harmonics generation, selection and directional enhancement from the interaction between multi-cycle laser and grating target are carried out. These studies will benefit the generation and application of laser plasma-based high order harmonics.
Directory of Open Access Journals (Sweden)
Estruch Francisco
2012-09-01
Full Text Available Abstract Background The various steps of mRNP biogenesis (transcription, processing and export are interconnected. It has been shown that the transcription machinery plays a pivotal role in mRNP assembly, since several mRNA export factors are recruited during transcription and physically interact with components of the transcription machinery. Although the shuttling DEAD-box protein Dbp5p is concentrated on the cytoplasmic fibrils of the NPC, previous studies demonstrated that it interacts physically and genetically with factors involved in transcription initiation. Results We investigated the effect of mutations affecting various components of the transcription initiation apparatus on the phenotypes of mRNA export mutant strains. Our results show that growth and mRNA export defects of dbp5 and mex67 mutant strains can be suppressed by mutation of specific transcription initiation components, but suppression was not observed for mutants acting in the very first steps of the pre-initiation complex (PIC formation. Conclusions Our results indicate that mere reduction in the amount of mRNP produced is not sufficient to suppress the defects caused by a defective mRNA export factor. Suppression occurs only with mutants affecting events within a narrow window of the mRNP biogenesis process. We propose that reducing the speed with which transcription converts from initiation and promoter clearance to elongation may have a positive effect on mRNP formation by permitting more effective recruitment of partially-functional mRNP proteins to the nascent mRNP.
Yeast hnRNP-related proteins contribute to the maintenance of telomeres
Energy Technology Data Exchange (ETDEWEB)
Lee-Soety, Julia Y., E-mail: jlee04@sju.edu [Department of Biology, Saint Joseph' s University, PA 19131 (United States); Jones, Jennifer; MacGibeny, Margaret A.; Remaly, Erin C.; Daniels, Lynsey; Ito, Andrea; Jean, Jessica; Radecki, Hannah; Spencer, Shannon [Department of Biology, Saint Joseph' s University, PA 19131 (United States)
2012-09-14
Highlights: Black-Right-Pointing-Pointer Yeast hnRNP-related proteins are able to prevent faster senescence in telomerase-null cells. Black-Right-Pointing-Pointer The conserved RRMs in Npl3 are important for telomere maintenance. Black-Right-Pointing-Pointer Human hnRNP A1 is unable to complement the lack of NPL3 in yeast. Black-Right-Pointing-Pointer Npl3 and Cbc2 may work as telomere capping proteins. -- Abstract: Telomeres protect the ends of linear chromosomes, which if eroded to a critical length can become uncapped and lead to replicative senescence. Telomerase maintains telomere length in some cells, but inappropriate expression facilitates the immortality of cancer cells. Recently, proteins involved in RNA processing and ribosome assembly, such as hnRNP (heterogeneous nuclear ribonucleoprotein) A1, have been found to participate in telomere maintenance in mammals. The Saccharomyces cerevisiae protein Npl3 shares significant amino acid sequence similarities with hnRNP A1. We found that deleting NPL3 accelerated the senescence of telomerase null cells. The highly conserved RNA recognition motifs (RRM) in Npl3 appear to be important for preventing faster senescence. Npl3 preferentially binds telomere sequences in vitro, suggesting that Npl3 may affect telomeres directly. Despite similarities between the two proteins, human hnRNP A1 is unable to complement the lack of Npl3 to rescue accelerated senescence in tlc1 npl3 cells. Deletion of CBC2, which encodes another hnRNP-related protein that associates with Npl3, also accelerates senescence. Potential mechanisms by which hnRNP-related proteins maintain telomeres are discussed.
Dynamic Stability Analysis Using High-Order Interpolation
Directory of Open Access Journals (Sweden)
Juarez-Toledo C.
2012-10-01
Full Text Available A non-linear model with robust precision for transient stability analysis in multimachine power systems is proposed. The proposed formulation uses the interpolation of Lagrange and Newton's Divided Difference. The High-Order Interpolation technique developed can be used for evaluation of the critical conditions of the dynamic system.The technique is applied to a 5-area 45-machine model of the Mexican interconnected system. As a particular case, this paper shows the application of the High-Order procedure for identifying the slow-frequency mode for a critical contingency. Numerical examples illustrate the method and demonstrate the ability of the High-Order technique to isolate and extract temporal modal behavior.
Electrochemical Hydrogen Storage in a Highly Ordered Mesoporous Carbon
Directory of Open Access Journals (Sweden)
Dan eLiu
2014-10-01
Full Text Available A highly order mesoporous carbon has been synthesized through a strongly acidic, aqueous cooperative assembly route. The structure and morphology of the carbon material were investigated using TEM, SEM and nitrogen adsorption-desorption isotherms. The carbon was proven to be meso-structural and consisted of graphitic micro-domain with larger interlayer space. AC impedance and electrochemical measurements reveal that the synthesized highly ordered mesoporous carbon exhibits a promoted electrochemical hydrogen insertion process and improved capacitance and hydrogen storage stability. The meso-structure and enlarged interlayer distance within the highly ordered mesoporous carbon are suggested as possible causes for the enhancement in hydrogen storage. Both hydrogen capacity in the carbon and mass diffusion within the matrix were improved.
A high order solver for the unbounded Poisson equation
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm; Rasmussen, Johannes Tophøj; Chatelain, Philippe
2013-01-01
. The method is extended to directly solve the derivatives of the solution to Poissonʼs equation. In this way differential operators such as the divergence or curl of the solution field can be solved to the same high order convergence without additional computational effort. The method, is applied......A high order converging Poisson solver is presented, based on the Greenʼs function solution to Poissonʼs equation subject to free-space boundary conditions. The high order convergence is achieved by formulating regularised integration kernels, analogous to a smoothing of the solution field...... and validated, however not restricted, to the equations of fluid mechanics, and can be used in many applications to solve Poissonʼs equation on a rectangular unbounded domain....
Retrieval of high-order susceptibilities of nonlinear metamaterials
International Nuclear Information System (INIS)
Wang Zhi-Yu; Qiu Jin-Peng; Chen Hua; Mo Jiong-Jiong; Yu Fa-Xin
2017-01-01
Active metamaterials embedded with nonlinear elements are able to exhibit strong nonlinearity in microwave regime. However, existing S -parameter based parameter retrieval approaches developed for linear metamaterials do not apply in nonlinear cases. In this paper, a retrieval algorithm of high-order susceptibilities for nonlinear metamaterials is derived. Experimental demonstration shows that, by measuring the power level of each harmonic while sweeping the incident power, high-order susceptibilities of a thin-layer nonlinear metamaterial can be effectively retrieved. The proposedapproach can be widely used in the research of active metamaterials. (paper)
Global identification of hnRNP A1 binding sites for SSO-based splicing modulation
DEFF Research Database (Denmark)
Bruun, Gitte H; Doktor, Thomas K; Borch-Jensen, Jonas
2016-01-01
for this deregulation by blocking other SREs with splice-switching oligonucleotides (SSOs). However, the location and sequence of most SREs are not well known. RESULTS: Here, we used individual-nucleotide resolution crosslinking immunoprecipitation (iCLIP) to establish an in vivo binding map for the key splicing...... regulatory factor hnRNP A1 and to generate an hnRNP A1 consensus binding motif. We find that hnRNP A1 binding in proximal introns may be important for repressing exons. We show that inclusion of the alternative cassette exon 3 in SKA2 can be significantly increased by SSO-based treatment which blocks an i...... downstream of the 5' splice site can be blocked by SSOs to activate the exon. CONCLUSIONS: The hnRNP A1 binding map can be used to identify potential targets for SSO-based therapy. Moreover, together with the hnRNP A1 consensus binding motif, the binding map may be used to predict whether disease...
hnRNP L regulates differences in expression of mouse integrin alpha2beta1.
Cheli, Yann; Kunicki, Thomas J
2006-06-01
There is a 2-fold variation in platelet integrin alpha2beta1 levels among inbred mouse strains. Decreased alpha2beta1 in 4 strains carrying Itga2 haplotype 2 results from decreased affinity of heterogeneous ribonucleoprotein L (hnRNP L) for a 6 CA repeat sequence (CA6) within intron 1. Seven strains bearing haplotype 1 and a 21 CA repeat sequence at this position (CA21) express twice the level of platelet alpha2beta1 and exhibit an equivalent gain of platelet function in vitro. By UV crosslinking and immunoprecipitation, hnRNP L binds more avidly to CA21, relative to CA6. By cell-free, in vitro mRNA splicing, decreased binding of hnRNP L results in decreased splicing efficiency and an increased proportion of alternatively spliced product. The splicing enhancer activity of CA21 in vivo is abolished by prior treatment with hnRNP L-specific siRNA. Thus, decreased surface alpha2beta1 results from decreased Itga2 pre-mRNA splicing regulated by hnRNP L and depends on CA repeat length at a specific site in intron 1.
hnRNP L regulates differences in expression of mouse integrin α2β1
Cheli, Yann; Kunicki, Thomas J.
2006-01-01
There is a 2-fold variation in platelet integrin α2β1 levels among inbred mouse strains. Decreased α2β1 in 4 strains carrying Itga2 haplotype 2 results from decreased affinity of heterogeneous ribonucleoprotein L (hnRNP L) for a 6 CA repeat sequence (CA6) within intron 1. Seven strains bearing haplotype 1 and a 21 CA repeat sequence at this position (CA21) express twice the level of platelet α2β1 and exhibit an equivalent gain of platelet function in vitro. By UV crosslinking and immunoprecipitation, hnRNP L binds more avidly to CA21, relative to CA6. By cell-free, in vitro mRNA splicing, decreased binding of hnRNP L results in decreased splicing efficiency and an increased proportion of alternatively spliced product. The splicing enhancer activity of CA21 in vivo is abolished by prior treatment with hnRNP L–specific siRNA. Thus, decreased surface α2β1 results from decreased Itga2 pre-mRNA splicing regulated by hnRNP L and depends on CA repeat length at a specific site in intron 1. PMID:16455949
Directory of Open Access Journals (Sweden)
Nihal Fathi
2018-01-01
Conclusion: Joint affection in SSc is more frequent than expected. Anti-hnRNP A1 and anti hnRNP A2 antigens may be useful markers for SSc patient although no significant relation was found with radiologic findings.
Intra-cavity generation of high order LGpl modes
CSIR Research Space (South Africa)
Ngcobo, S
2012-08-01
Full Text Available with the location of the Laguerre polynomial zeros. The Diffractive optical element is used to shape the TEM00 Gaussian beam and force the laser to operate on a higher order LGpl Laguerre-Gaussian modes or high order superposition of Laguerre-Gaussian modes...
A high order solver for the unbounded Poisson equation
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm; Rasmussen, Johannes Tophøj; Chatelain, Philippe
2012-01-01
This work improves upon Hockney and Eastwood's Fourier-based algorithm for the unbounded Poisson equation to formally achieve arbitrary high order of convergence without any additional computational cost. We assess the methodology on the kinematic relations between the velocity and vorticity fields....
Enhanced high-order harmonic generation from Argon-clusters
Tao, Yin; Hagmeijer, Rob; Bastiaens, Hubertus M.J.; Goh, S.J.; van der Slot, P.J.M.; Biedron, S.; Milton, S.; Boller, Klaus J.
2017-01-01
High-order harmonic generation (HHG) in clusters is of high promise because clusters appear to offer an increased optical nonlinearity. We experimentally investigate HHG from Argon clusters in a supersonic gas jet that can generate monomer-cluster mixtures with varying atomic number density and
Airfoil noise computation use high-order schemes
DEFF Research Database (Denmark)
Zhu, Wei Jun; Shen, Wen Zhong; Sørensen, Jens Nørkær
2007-01-01
High-order finite difference schemes with at least 4th-order spatial accuracy are used to simulate aerodynamically generated noise. The aeroacoustic solver with 4th-order up to 8th-order accuracy is implemented into the in-house flow solver, EllipSys2D/3D. Dispersion-Relation-Preserving (DRP) fin...
Orbital angular momentum of a high-order Bessel light beam
International Nuclear Information System (INIS)
Volke-Sepulveda, K; Garces-Chavez, V; Chavez-Cerda, S; Arlt, J; Dholakia, K
2002-01-01
The orbital angular momentum density of Bessel beams is calculated explicitly within a rigorous vectorial treatment. This allows us to investigate some aspects that have not been analysed previously, such as the angular momentum content of azimuthally and radially polarized beams. Furthermore, we demonstrate experimentally the mechanical transfer of orbital angular momentum to trapped particles in optical tweezers using a high-order Bessel beam. We set transparent particles of known dimensions into rotation, where the sense of rotation can be reversed by changing the sign of the singularity. Quantitative results are obtained for rotation rates. This paper's animations are available from the Multimedia Enhancements page
A rigorous analysis of high-order electromagnetic invisibility cloaks
International Nuclear Information System (INIS)
Weder, Ricardo
2008-01-01
There is currently a great deal of interest in the invisibility cloaks recently proposed by Pendry et al that are based on the transformation approach. They obtained their results using first-order transformations. In recent papers, Hendi et al and Cai et al considered invisibility cloaks with high-order transformations. In this paper, we study high-order electromagnetic invisibility cloaks in transformation media obtained by high-order transformations from general anisotropic media. We consider the case where there is a finite number of spherical cloaks located in different points in space. We prove that for any incident plane wave, at any frequency, the scattered wave is identically zero. We also consider the scattering of finite-energy wave packets. We prove that the scattering matrix is the identity, i.e., that for any incoming wave packet the outgoing wave packet is the same as the incoming one. This proves that the invisibility cloaks cannot be detected in any scattering experiment with electromagnetic waves in high-order transformation media, and in particular in the first-order transformation media of Pendry et al. We also prove that the high-order invisibility cloaks, as well as the first-order ones, cloak passive and active devices. The cloaked objects completely decouple from the exterior. Actually, the cloaking outside is independent of what is inside the cloaked objects. The electromagnetic waves inside the cloaked objects cannot leave the concealed regions and vice versa, the electromagnetic waves outside the cloaked objects cannot go inside the concealed regions. As we prove our results for media that are obtained by transformation from general anisotropic materials, we prove that it is possible to cloak objects inside general crystals
Energy Technology Data Exchange (ETDEWEB)
Dobrev, Veselin A. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Kolev, Tzanio V. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Rieben, Robert N. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
2012-09-20
The numerical approximation of the Euler equations of gas dynamics in a movingLagrangian frame is at the heart of many multiphysics simulation algorithms. Here, we present a general framework for high-order Lagrangian discretization of these compressible shock hydrodynamics equations using curvilinear finite elements. This method is an extension of the approach outlined in [Dobrev et al., Internat. J. Numer. Methods Fluids, 65 (2010), pp. 1295--1310] and can be formulated for any finite dimensional approximation of the kinematic and thermodynamic fields, including generic finite elements on two- and three-dimensional meshes with triangular, quadrilateral, tetrahedral, or hexahedral zones. We discretize the kinematic variables of position and velocity using a continuous high-order basis function expansion of arbitrary polynomial degree which is obtained via a corresponding high-order parametric mapping from a standard reference element. This enables the use of curvilinear zone geometry, higher-order approximations for fields within a zone, and a pointwise definition of mass conservation which we refer to as strong mass conservation. Moreover, we discretize the internal energy using a piecewise discontinuous high-order basis function expansion which is also of arbitrary polynomial degree. This facilitates multimaterial hydrodynamics by treating material properties, such as equations of state and constitutive models, as piecewise discontinuous functions which vary within a zone. To satisfy the Rankine--Hugoniot jump conditions at a shock boundary and generate the appropriate entropy, we introduce a general tensor artificial viscosity which takes advantage of the high-order kinematic and thermodynamic information available in each zone. Finally, we apply a generic high-order time discretization process to the semidiscrete equations to develop the fully discrete numerical algorithm. Our method can be viewed as the high-order generalization of the so-called staggered
High-Order Modulation for Optical Fiber Transmission
Seimetz, Matthias
2009-01-01
Catering to the current interest in increasing the spectral efficiency of optical fiber networks by the deployment of high-order modulation formats, this monograph describes transmitters, receivers and performance of optical systems with high-order phase and quadrature amplitude modulation. In the first part of the book, the author discusses various transmitter implementation options as well as several receiver concepts based on direct and coherent detection, including designs of new structures. Hereby, both optical and electrical parts are considered, allowing the assessment of practicability and complexity. In the second part, a detailed characterization of optical fiber transmission systems is presented, regarding a wide range of modulation formats. It provides insight in the fundamental behavior of different formats with respect to relevant performance degradation effects and identifies the major trends in system performance.
Eliminating high-order scattering effects in optical microbubble sizing.
Qiu, Huihe
2003-04-01
Measurements of bubble size and velocity in multiphase flows are important in much research and many industrial applications. It has been found that high-order refractions have great impact on microbubble sizing by use of phase-Doppler anemometry (PDA). The problem has been investigated, and a model of phase-size correlation, which also takes high-order refractions into consideration, is introduced to improve the accuracy of bubble sizing. Hence the model relaxes the assumption of a single-scattering mechanism in a conventional PDA system. The results of simulation based on this new model are compared with those based on a single-scattering-mechanism approach or a first-order approach. An optimization method for accurately sizing air bubbles in water has been suggested.
High-order harmonic generation in laser plasma plumes
Ganeev, Rashid A
2013-01-01
This book represents the first comprehensive treatment of high-order harmonic generation in laser-produced plumes, covering the principles, past and present experimental status and important applications. It shows how this method of frequency conversion of laser radiation towards the extreme ultraviolet range matured over the course of multiple studies and demonstrated new approaches in the generation of strong coherent short-wavelength radiation for various applications. Significant discoveries and pioneering contributions of researchers in this field carried out in various laser scientific centers worldwide are included in this first attempt to describe the important findings in this area of nonlinear spectroscopy. "High-Order Harmonic Generation in Laser Plasma Plumes" is a self-contained and unified review of the most recent achievements in the field, such as the application of clusters (fullerenes, nanoparticles, nanotubes) for efficient harmonic generation of ultrashort laser pulses in cluster-containin...
High-order harmonics from bow wave caustics driven by a high-intensity laser
International Nuclear Information System (INIS)
Pirozhkov, A.S.; Kando, M.; Esirkepov, T.Zh.
2012-01-01
We propose a new mechanism of high-order harmonic generation during an interaction of a high-intensity laser pulse with underdense plasma. A tightly focused laser pulse creates a cavity in plasma pushing electrons aside and exciting the wake wave and the bow wave. At the joint of the cavity wall and the bow wave boundary, an annular spike of electron density is formed. This spike surrounds the cavity and moves together with the laser pulse. Collective motion of electrons in the spike driven by the laser field generates high-order harmonics. A strong localization of the electron spike, its robustness to oscillations imposed by the laser field and, consequently, its ability to produce high-order harmonics is explained by catastrophe theory. The proposed mechanism explains the experimental observations of high-order harmonics with the 9 TW J-KAREN laser (JAEA, Japan) and the 120 TW Astra Gemini laser (CLF RAL, UK) [A. S. Pirozhkov, et al., arXiv:1004.4514 (2010); A. S. Pirozhkov et al, AIP Proceedings, this volume]. The theory is corroborated by high-resolution two-and three-dimensional particle-in-cell simulations.
Analysis and Design of High-Order Parallel Resonant Converters
Batarseh, Issa Eid
1990-01-01
In this thesis, a special state variable transformation technique has been derived for the analysis of high order dc-to-dc resonant converters. Converters comprised of high order resonant tanks have the advantage of utilizing the parasitic elements by making them part of the resonant tank. A new set of state variables is defined in order to make use of two-dimensional state-plane diagrams in the analysis of high order converters. Such a method has been successfully used for the analysis of the conventional Parallel Resonant Converters (PRC). Consequently, two -dimensional state-plane diagrams are used to analyze the steady state response for third and fourth order PRC's when these converters are operated in the continuous conduction mode. Based on this analysis, a set of control characteristic curves for the LCC-, LLC- and LLCC-type PRC are presented from which various converter design parameters are obtained. Various design curves for component value selections and device ratings are given. This analysis of high order resonant converters shows that the addition of the reactive components to the resonant tank results in converters with better performance characteristics when compared with the conventional second order PRC. Complete design procedure along with design examples for 2nd, 3rd and 4th order converters are presented. Practical power supply units, normally used for computer applications, were built and tested by using the LCC-, LLC- and LLCC-type commutation schemes. In addition, computer simulation results are presented for these converters in order to verify the theoretical results.
Discrete nonlinear Schrodinger equations with arbitrarily high-order nonlinearities
DEFF Research Database (Denmark)
Khare, A.; Rasmussen, Kim Ø; Salerno, M.
2006-01-01
-Ladik equation. As a common property, these equations possess three kinds of exact analytical stationary solutions for which the Peierls-Nabarro barrier is zero. Several properties of these solutions, including stability, discrete breathers, and moving solutions, are investigated.......A class of discrete nonlinear Schrodinger equations with arbitrarily high-order nonlinearities is introduced. These equations are derived from the same Hamiltonian using different Poisson brackets and include as particular cases the saturable discrete nonlinear Schrodinger equation and the Ablowitz...
High order modes in Project-X linac
Energy Technology Data Exchange (ETDEWEB)
Sukhanov, A., E-mail: ais@fnal.gov; Lunin, A.; Yakovlev, V.; Awida, M.; Champion, M.; Ginsburg, C.; Gonin, I.; Grimm, C.; Khabiboulline, T.; Nicol, T.; Orlov, Yu.; Saini, A.; Sergatskov, D.; Solyak, N.; Vostrikov, A.
2014-01-11
Project-X, a multi-MW proton source, is now under development at Fermilab. In this paper we present study of high order modes (HOM) excited in continues-wave (CW) superconducting linac of Project-X. We investigate effects of cryogenic losses caused by HOMs and influence of HOMs on beam dynamics. We find that these effects are small. We conclude that HOM couplers/dampers are not needed in the Project-X SC RF cavities.
Machine Learning Control For Highly Reconfigurable High-Order Systems
2015-01-02
calibration and applications,” Mechatronics and Embedded Systems and Applications (MESA), 2010 IEEE/ASME International Conference on, IEEE, 2010, pp. 38–43...AFRL-OSR-VA-TR-2015-0012 MACHINE LEARNING CONTROL FOR HIGHLY RECONFIGURABLE HIGH-ORDER SYSTEMS John Valasek TEXAS ENGINEERING EXPERIMENT STATION...DIMENSIONAL RECONFIGURABLE SYSTEMS FA9550-11-1-0302 Period of Performance 1 July 2011 – 29 September 2014 John Valasek Aerospace Engineering
International Conference on Spectral and High-Order Methods
Dumont, Ney; Hesthaven, Jan
2017-01-01
This book features a selection of high-quality papers chosen from the best presentations at the International Conference on Spectral and High-Order Methods (2016), offering an overview of the depth and breadth of the activities within this important research area. The carefully reviewed papers provide a snapshot of the state of the art, while the extensive bibliography helps initiate new research directions.
Conditional High-Order Boltzmann Machines for Supervised Relation Learning.
Huang, Yan; Wang, Wei; Wang, Liang; Tan, Tieniu
2017-09-01
Relation learning is a fundamental problem in many vision tasks. Recently, high-order Boltzmann machine and its variants have shown their great potentials in learning various types of data relation in a range of tasks. But most of these models are learned in an unsupervised way, i.e., without using relation class labels, which are not very discriminative for some challenging tasks, e.g., face verification. In this paper, with the goal to perform supervised relation learning, we introduce relation class labels into conventional high-order multiplicative interactions with pairwise input samples, and propose a conditional high-order Boltzmann Machine (CHBM), which can learn to classify the data relation in a binary classification way. To be able to deal with more complex data relation, we develop two improved variants of CHBM: 1) latent CHBM, which jointly performs relation feature learning and classification, by using a set of latent variables to block the pathway from pairwise input samples to output relation labels and 2) gated CHBM, which untangles factors of variation in data relation, by exploiting a set of latent variables to multiplicatively gate the classification of CHBM. To reduce the large number of model parameters generated by the multiplicative interactions, we approximately factorize high-order parameter tensors into multiple matrices. Then, we develop efficient supervised learning algorithms, by first pretraining the models using joint likelihood to provide good parameter initialization, and then finetuning them using conditional likelihood to enhance the discriminant ability. We apply the proposed models to a series of tasks including invariant recognition, face verification, and action similarity labeling. Experimental results demonstrate that by exploiting supervised relation labels, our models can greatly improve the performance.
High order spectral difference lattice Boltzmann method for incompressible hydrodynamics
Li, Weidong
2017-09-01
This work presents a lattice Boltzmann equation (LBE) based high order spectral difference method for incompressible flows. In the present method, the spectral difference (SD) method is adopted to discretize the convection and collision term of the LBE to obtain high order (≥3) accuracy. Because the SD scheme represents the solution as cell local polynomials and the solution polynomials have good tensor-product property, the present spectral difference lattice Boltzmann method (SD-LBM) can be implemented on arbitrary unstructured quadrilateral meshes for effective and efficient treatment of complex geometries. Thanks to only first oder PDEs involved in the LBE, no special techniques, such as hybridizable discontinuous Galerkin method (HDG), local discontinuous Galerkin method (LDG) and so on, are needed to discrete diffusion term, and thus, it simplifies the algorithm and implementation of the high order spectral difference method for simulating viscous flows. The proposed SD-LBM is validated with four incompressible flow benchmarks in two-dimensions: (a) the Poiseuille flow driven by a constant body force; (b) the lid-driven cavity flow without singularity at the two top corners-Burggraf flow; and (c) the unsteady Taylor-Green vortex flow; (d) the Blasius boundary-layer flow past a flat plate. Computational results are compared with analytical solutions of these cases and convergence studies of these cases are also given. The designed accuracy of the proposed SD-LBM is clearly verified.
Hybrid RANS-LES using high order numerical methods
Henry de Frahan, Marc; Yellapantula, Shashank; Vijayakumar, Ganesh; Knaus, Robert; Sprague, Michael
2017-11-01
Understanding the impact of wind turbine wake dynamics on downstream turbines is particularly important for the design of efficient wind farms. Due to their tractable computational cost, hybrid RANS/LES models are an attractive framework for simulating separation flows such as the wake dynamics behind a wind turbine. High-order numerical methods can be computationally efficient and provide increased accuracy in simulating complex flows. In the context of LES, high-order numerical methods have shown some success in predictions of turbulent flows. However, the specifics of hybrid RANS-LES models, including the transition region between both modeling frameworks, pose unique challenges for high-order numerical methods. In this work, we study the effect of increasing the order of accuracy of the numerical scheme in simulations of canonical turbulent flows using RANS, LES, and hybrid RANS-LES models. We describe the interactions between filtering, model transition, and order of accuracy and their effect on turbulence quantities such as kinetic energy spectra, boundary layer evolution, and dissipation rate. This work was funded by the U.S. Department of Energy, Exascale Computing Project, under Contract No. DE-AC36-08-GO28308 with the National Renewable Energy Laboratory.
HOKF: High Order Kalman Filter for Epilepsy Forecasting Modeling.
Nguyen, Ngoc Anh Thi; Yang, Hyung-Jeong; Kim, Sunhee
2017-08-01
Epilepsy forecasting has been extensively studied using high-order time series obtained from scalp-recorded electroencephalography (EEG). An accurate seizure prediction system would not only help significantly improve patients' quality of life, but would also facilitate new therapeutic strategies to manage epilepsy. This paper thus proposes an improved Kalman Filter (KF) algorithm to mine seizure forecasts from neural activity by modeling three properties in the high-order EEG time series: noise, temporal smoothness, and tensor structure. The proposed High-Order Kalman Filter (HOKF) is an extension of the standard Kalman filter, for which higher-order modeling is limited. The efficient dynamic of HOKF system preserves the tensor structure of the observations and latent states. As such, the proposed method offers two main advantages: (i) effectiveness with HOKF results in hidden variables that capture major evolving trends suitable to predict neural activity, even in the presence of missing values; and (ii) scalability in that the wall clock time of the HOKF is linear with respect to the number of time-slices of the sequence. The HOKF algorithm is examined in terms of its effectiveness and scalability by conducting forecasting and scalability experiments with a real epilepsy EEG dataset. The results of the simulation demonstrate the superiority of the proposed method over the original Kalman Filter and other existing methods. Copyright © 2017 Elsevier B.V. All rights reserved.
Trask, Nathaniel; Maxey, Martin; Hu, Xiaozhe
2018-02-01
A stable numerical solution of the steady Stokes problem requires compatibility between the choice of velocity and pressure approximation that has traditionally proven problematic for meshless methods. In this work, we present a discretization that couples a staggered scheme for pressure approximation with a divergence-free velocity reconstruction to obtain an adaptive, high-order, finite difference-like discretization that can be efficiently solved with conventional algebraic multigrid techniques. We use analytic benchmarks to demonstrate equal-order convergence for both velocity and pressure when solving problems with curvilinear geometries. In order to study problems in dense suspensions, we couple the solution for the flow to the equations of motion for freely suspended particles in an implicit monolithic scheme. The combination of high-order accuracy with fully-implicit schemes allows the accurate resolution of stiff lubrication forces directly from the solution of the Stokes problem without the need to introduce sub-grid lubrication models.
Connections between transcription, mRNP assembly and quality control in S. cerevisiae
DEFF Research Database (Denmark)
Jensen, Torben Heick
in the context of THO and rna14-3 mutants improves mRNP quality by acting upstream of transcription-site retention and nuclear degradation of the transcripts. As Rad3p mutant effects can be phenocopied by other mutations known to affect transcription and by the addition of transcription elongation drugs, our...
Efficiency of High Order Spectral Element Methods on Petascale Architectures
Hutchinson, Maxwell; Heinecke, Alexander; Pabst, Hans; Henry, Greg; Parsani, Matteo; Keyes, David E.
2016-01-01
High order methods for the solution of PDEs expose a tradeoff between computational cost and accuracy on a per degree of freedom basis. In many cases, the cost increases due to higher arithmetic intensity while affecting data movement minimally. As architectures tend towards wider vector instructions and expect higher arithmetic intensities, the best order for a particular simulation may change. This study highlights preferred orders by identifying the high order efficiency frontier of the spectral element method implemented in Nek5000 and NekBox: the set of orders and meshes that minimize computational cost at fixed accuracy. First, we extract Nek’s order-dependent computational kernels and demonstrate exceptional hardware utilization by hardware-aware implementations. Then, we perform productionscale calculations of the nonlinear single mode Rayleigh-Taylor instability on BlueGene/Q and Cray XC40-based supercomputers to highlight the influence of the architecture. Accuracy is defined with respect to physical observables, and computational costs are measured by the corehour charge of the entire application. The total number of grid points needed to achieve a given accuracy is reduced by increasing the polynomial order. On the XC40 and BlueGene/Q, polynomial orders as high as 31 and 15 come at no marginal cost per timestep, respectively. Taken together, these observations lead to a strong preference for high order discretizations that use fewer degrees of freedom. From a performance point of view, we demonstrate up to 60% full application bandwidth utilization at scale and achieve ≈1PFlop/s of compute performance in Nek’s most flop-intense methods.
Efficiency of High Order Spectral Element Methods on Petascale Architectures
Hutchinson, Maxwell
2016-06-14
High order methods for the solution of PDEs expose a tradeoff between computational cost and accuracy on a per degree of freedom basis. In many cases, the cost increases due to higher arithmetic intensity while affecting data movement minimally. As architectures tend towards wider vector instructions and expect higher arithmetic intensities, the best order for a particular simulation may change. This study highlights preferred orders by identifying the high order efficiency frontier of the spectral element method implemented in Nek5000 and NekBox: the set of orders and meshes that minimize computational cost at fixed accuracy. First, we extract Nek’s order-dependent computational kernels and demonstrate exceptional hardware utilization by hardware-aware implementations. Then, we perform productionscale calculations of the nonlinear single mode Rayleigh-Taylor instability on BlueGene/Q and Cray XC40-based supercomputers to highlight the influence of the architecture. Accuracy is defined with respect to physical observables, and computational costs are measured by the corehour charge of the entire application. The total number of grid points needed to achieve a given accuracy is reduced by increasing the polynomial order. On the XC40 and BlueGene/Q, polynomial orders as high as 31 and 15 come at no marginal cost per timestep, respectively. Taken together, these observations lead to a strong preference for high order discretizations that use fewer degrees of freedom. From a performance point of view, we demonstrate up to 60% full application bandwidth utilization at scale and achieve ≈1PFlop/s of compute performance in Nek’s most flop-intense methods.
On high-order perturbative calculations at finite density
Ghisoiu, Ioan; Kurkela, Aleksi; Romatschke, Paul; Säppi, Matias; Vuorinen, Aleksi
2017-01-01
We discuss the prospects of performing high-order perturbative calculations in systems characterized by a vanishing temperature but finite density. In particular, we show that the determination of generic Feynman integrals containing fermionic chemical potentials can be reduced to the evaluation of three-dimensional phase space integrals over vacuum on-shell amplitudes. Applications of these rules will be discussed in the context of the thermodynamics of cold and dense QCD, where it is argued that they facilitate an extension of the Equation of State of cold quark matter to higher perturbative orders.
High-order harmonic generation in a capillary discharge
Rocca, Jorge J.; Kapteyn, Henry C.; Mumane, Margaret M.; Gaudiosi, David; Grisham, Michael E.; Popmintchev, Tenio V.; Reagan, Brendan A.
2010-06-01
A pre-ionized medium created by a capillary discharge results in more efficient use of laser energy in high-order harmonic generation (HHG) from ions. It extends the cutoff photon energy, and reduces the distortion of the laser pulse as it propagates down the waveguide. The observed enhancements result from a combination of reduced ionization energy loss and reduced ionization-induced defocusing of the driving laser as well as waveguiding of the driving laser pulse. The discharge plasma also provides a means to spectrally tune the harmonics by tailoring the initial level of ionization of the medium.
On high-order perturbative calculations at finite density
Energy Technology Data Exchange (ETDEWEB)
Ghişoiu, Ioan, E-mail: ioan.ghisoiu@helsinki.fi [Helsinki Institute of Physics and Department of Physics, University of Helsinki (Finland); Gorda, Tyler, E-mail: tyler.gorda@helsinki.fi [Helsinki Institute of Physics and Department of Physics, University of Helsinki (Finland); Department of Physics, University of Colorado Boulder, Boulder, CO (United States); Kurkela, Aleksi, E-mail: aleksi.kurkela@cern.ch [Theoretical Physics Department, CERN, Geneva (Switzerland); Faculty of Science and Technology, University of Stavanger, Stavanger (Norway); Romatschke, Paul, E-mail: paul.romatschke@colorado.edu [Department of Physics, University of Colorado Boulder, Boulder, CO (United States); Center for Theory of Quantum Matter, University of Colorado, Boulder, CO (United States); Säppi, Matias, E-mail: matias.sappi@helsinki.fi [Helsinki Institute of Physics and Department of Physics, University of Helsinki (Finland); Vuorinen, Aleksi, E-mail: aleksi.vuorinen@helsinki.fi [Helsinki Institute of Physics and Department of Physics, University of Helsinki (Finland)
2017-02-15
We discuss the prospects of performing high-order perturbative calculations in systems characterized by a vanishing temperature but finite density. In particular, we show that the determination of generic Feynman integrals containing fermionic chemical potentials can be reduced to the evaluation of three-dimensional phase space integrals over vacuum on-shell amplitudes — a result reminiscent of a previously proposed “naive real-time formalism” for vacuum diagrams. Applications of these rules are discussed in the context of the thermodynamics of cold and dense QCD, where it is argued that they facilitate an extension of the Equation of State of cold quark matter to higher perturbative orders.
Theoretical description of high-order harmonic generation in solids
International Nuclear Information System (INIS)
Kemper, A F; Moritz, B; Devereaux, T P; Freericks, J K
2013-01-01
We consider several aspects of high-order harmonic generation in solids: the effects of elastic and inelastic scattering, varying pulse characteristics and inclusion of material-specific parameters through a realistic band structure. We reproduce many observed characteristics of high harmonic generation experiments in solids including the formation of only odd harmonics in inversion-symmetric materials, and the nonlinear formation of high harmonics with increasing field. We find that the harmonic spectra are fairly robust against elastic and inelastic scattering. Furthermore, we find that the pulse characteristics can play an important role in determining the harmonic spectra. (paper)
High-order harmonic generation with short-pulse lasers
International Nuclear Information System (INIS)
Schafer, K.J.; Krause, J.L.; Kulander, K.C.
1992-12-01
Recent progress in the understanding of high-order harmonic conversion from atoms and ions exposed to high-intensity, short-pulse optical lasers is reviewed. We find that ions can produce harmonics comparable in strength to those obtained from neutral atoms, and that the emission extends to much higher order. Simple scaling laws for the strength of the harmonic emission and the maximium observable harmonic are suggested. These results imply that the photoemission observed in recent experiments in helium and neon contains contributions from ions as well as neutrals
International Nuclear Information System (INIS)
Wang, Zhenyu; Zhao, Xiuyang; Wang, Bing; Liu, Erlong; Chen, Ni; Zhang, Wei; Liu, Heng
2016-01-01
Heterogeneous nuclear ribonucleoproteins (hnRNPs) participate in diverse regulations of plant growth and environmental stress responses. In this work, an Arabidopsis hnRNP of unknown function, AtRNP1, was investigated. We found that AtRNP1 gene is highly expressed in rosette and cauline leaves, and slightly induced under drought, salt, osmotic and ABA stresses. AtRNP1 protein is localized to both the nucleus and cytoplasm. We performed homologous overexpression of AtRNP1 and found that the transgenic plants showed shortened root length and plant height, and accelerated flowering. In addition, the transgenic plants also showed reduced tolerance to drought, salt, osmotic and ABA stresses. Further studies revealed that under both normal and stress conditions, the proline contents in the transgenic plants are markedly decreased, associated with reduced expression levels of a proline synthase gene and several stress-responsive genes. These results suggested that the overexpression of AtRNP1 negatively affects plant growth and abiotic stress tolerance. - Highlights: • AtRNP1 is a widely expressed gene and its expression is slightly induced under abiotic stresses. • AtRNP1 protein is localized to both the nucleus and cytoplasm. • Overexpression of AtRNP1 affects plant growth. • Overexpression of AtRNP1 reduces plant tolerance to drought and salt stresses. • AtRNP1 overexpression plants show decreased proline accumulation and stress-responsive gene expressions.
Energy Technology Data Exchange (ETDEWEB)
Wang, Zhenyu, E-mail: wzy72609@163.com [Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou 730030 (China); Zhao, Xiuyang, E-mail: xiuzh@psb.vib-ugent.be [Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou 730030 (China); Wang, Bing, E-mail: wangbing@ibcas.ac.cn [Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou 730030 (China); Liu, Erlong, E-mail: liuel14@lzu.edu.cn [Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou 730030 (China); Chen, Ni, E-mail: 63710156@qq.com [Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou 730030 (China); Zhang, Wei, E-mail: wzhang1216@yahoo.com [Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, Shanghai 200444 (China); Liu, Heng, E-mail: hengliu@lzu.edu.cn [Ministry of Education Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Lanzhou University, Lanzhou 730030 (China)
2016-04-01
Heterogeneous nuclear ribonucleoproteins (hnRNPs) participate in diverse regulations of plant growth and environmental stress responses. In this work, an Arabidopsis hnRNP of unknown function, AtRNP1, was investigated. We found that AtRNP1 gene is highly expressed in rosette and cauline leaves, and slightly induced under drought, salt, osmotic and ABA stresses. AtRNP1 protein is localized to both the nucleus and cytoplasm. We performed homologous overexpression of AtRNP1 and found that the transgenic plants showed shortened root length and plant height, and accelerated flowering. In addition, the transgenic plants also showed reduced tolerance to drought, salt, osmotic and ABA stresses. Further studies revealed that under both normal and stress conditions, the proline contents in the transgenic plants are markedly decreased, associated with reduced expression levels of a proline synthase gene and several stress-responsive genes. These results suggested that the overexpression of AtRNP1 negatively affects plant growth and abiotic stress tolerance. - Highlights: • AtRNP1 is a widely expressed gene and its expression is slightly induced under abiotic stresses. • AtRNP1 protein is localized to both the nucleus and cytoplasm. • Overexpression of AtRNP1 affects plant growth. • Overexpression of AtRNP1 reduces plant tolerance to drought and salt stresses. • AtRNP1 overexpression plants show decreased proline accumulation and stress-responsive gene expressions.
International Nuclear Information System (INIS)
Zhang Weigang
2000-01-01
Based on the concept of correlative degree, a new method of high-order collective-flow measurement is constructed, with which azimuthal correlations, correlations of final state transverse momentum magnitude and transverse correlations can be inspected respectively. Using the new method the contributions of the azimuthal correlations of particles distribution and the correlations of transverse momentum magnitude of final state particles to high-order collective-flow correlations are analyzed respectively with 4π experimental events for 1.2 A GeV Ar + BaI 2 collisions at the Bevalac stream chamber. Comparing with the correlations of transverse momentum magnitude, the azimuthal correlations of final state particles distribution dominate high-order collective-flow correlations in experimental samples. The contributions of correlations of transverse momentum magnitude of final state particles not only enhance the strength of the high-order correlations of particle group, but also provide important information for the measurement of the collectivity of collective flow within the more constraint district
Spinal Muscular Atrophy: From Defective Chaperoning of snRNP Assembly to Neuromuscular Dysfunction
Directory of Open Access Journals (Sweden)
Maia Lanfranco
2017-06-01
Full Text Available Spinal Muscular Atrophy (SMA is a neuromuscular disorder that results from decreased levels of the survival motor neuron (SMN protein. SMN is part of a multiprotein complex that also includes Gemins 2–8 and Unrip. The SMN-Gemins complex cooperates with the protein arginine methyltransferase 5 (PRMT5 complex, whose constituents include WD45, PRMT5 and pICln. Both complexes function as molecular chaperones, interacting with and assisting in the assembly of an Sm protein core onto small nuclear RNAs (snRNAs to generate small nuclear ribonucleoproteins (snRNPs, which are the operating components of the spliceosome. Molecular and structural studies have refined our knowledge of the key events taking place within the crowded environment of cells and the numerous precautions undertaken to ensure the faithful assembly of snRNPs. Nonetheless, it remains unclear whether a loss of chaperoning in snRNP assembly, considered as a “housekeeping” activity, is responsible for the selective neuromuscular phenotype in SMA. This review thus shines light on in vivo studies that point toward disturbances in snRNP assembly and the consequential transcriptome abnormalities as the primary drivers of the progressive neuromuscular degeneration underpinning the disease. Disruption of U1 snRNP or snRNP assembly factors other than SMN induces phenotypes that mirror aspects of SMN deficiency, and splicing defects, described in numerous SMA models, can lead to a DNA damage and stress response that compromises the survival of the motor system. Restoring the correct chaperoning of snRNP assembly is therefore predicted to enhance the benefit of SMA therapeutic modalities based on augmenting SMN expression.
Multiscale high-order/low-order (HOLO) algorithms and applications
International Nuclear Information System (INIS)
Chacón, L.; Chen, G.; Knoll, D.A.; Newman, C.; Park, H.; Taitano, W.; Willert, J.A.; Womeldorff, G.
2017-01-01
We review the state of the art in the formulation, implementation, and performance of so-called high-order/low-order (HOLO) algorithms for challenging multiscale problems. HOLO algorithms attempt to couple one or several high-complexity physical models (the high-order model, HO) with low-complexity ones (the low-order model, LO). The primary goal of HOLO algorithms is to achieve nonlinear convergence between HO and LO components while minimizing memory footprint and managing the computational complexity in a practical manner. Key to the HOLO approach is the use of the LO representations to address temporal stiffness, effectively accelerating the convergence of the HO/LO coupled system. The HOLO approach is broadly underpinned by the concept of nonlinear elimination, which enables segregation of the HO and LO components in ways that can effectively use heterogeneous architectures. The accuracy and efficiency benefits of HOLO algorithms are demonstrated with specific applications to radiation transport, gas dynamics, plasmas (both Eulerian and Lagrangian formulations), and ocean modeling. Across this broad application spectrum, HOLO algorithms achieve significant accuracy improvements at a fraction of the cost compared to conventional approaches. It follows that HOLO algorithms hold significant potential for high-fidelity system scale multiscale simulations leveraging exascale computing.
Benchmarking with high-order nodal diffusion methods
International Nuclear Information System (INIS)
Tomasevic, D.; Larsen, E.W.
1993-01-01
Significant progress in the solution of multidimensional neutron diffusion problems was made in the late 1970s with the introduction of nodal methods. Modern nodal reactor analysis codes provide significant improvements in both accuracy and computing speed over earlier codes based on fine-mesh finite difference methods. In the past, the performance of advanced nodal methods was determined by comparisons with fine-mesh finite difference codes. More recently, the excellent spatial convergence of nodal methods has permitted their use in establishing reference solutions for some important bench-mark problems. The recent development of the self-consistent high-order nodal diffusion method and its subsequent variational formulation has permitted the calculation of reference solutions with one node per assembly mesh size. In this paper, we compare results for four selected benchmark problems to those obtained by high-order response matrix methods and by two well-known state-of-the-art nodal methods (the open-quotes analyticalclose quotes and open-quotes nodal expansionclose quotes methods)
High-order perturbations of a spherical collapsing star
International Nuclear Information System (INIS)
Brizuela, David; Martin-Garcia, Jose M.; Sperhake, Ulrich; Kokkotas, Kostas D.
2010-01-01
A formalism to deal with high-order perturbations of a general spherical background was developed in earlier work [D. Brizuela, J. M. Martin-Garcia, and G. A. Mena Marugan, Phys. Rev. D 74, 044039 (2006); D. Brizuela, J. M. Martin-Garcia, and G. A. Mena Marugan, Phys. Rev. D 76, 024004 (2007)]. In this paper, we apply it to the particular case of a perfect fluid background. We have expressed the perturbations of the energy-momentum tensor at any order in terms of the perturbed fluid's pressure, density, and velocity. In general, these expressions are not linear and have sources depending on lower-order perturbations. For the second-order case we make the explicit decomposition of these sources in tensor spherical harmonics. Then, a general procedure is given to evolve the perturbative equations of motions of the perfect fluid for any value of the harmonic label. Finally, with the problem of a spherical collapsing star in mind, we discuss the high-order perturbative matching conditions across a timelike surface, in particular, the surface separating the perfect fluid interior from the exterior vacuum.
Multiscale high-order/low-order (HOLO) algorithms and applications
Energy Technology Data Exchange (ETDEWEB)
Chacón, L., E-mail: chacon@lanl.gov [Los Alamos National Laboratory, Los Alamos, NM 87545 (United States); Chen, G.; Knoll, D.A.; Newman, C.; Park, H.; Taitano, W. [Los Alamos National Laboratory, Los Alamos, NM 87545 (United States); Willert, J.A. [Institute for Defense Analyses, Alexandria, VA 22311 (United States); Womeldorff, G. [Los Alamos National Laboratory, Los Alamos, NM 87545 (United States)
2017-02-01
We review the state of the art in the formulation, implementation, and performance of so-called high-order/low-order (HOLO) algorithms for challenging multiscale problems. HOLO algorithms attempt to couple one or several high-complexity physical models (the high-order model, HO) with low-complexity ones (the low-order model, LO). The primary goal of HOLO algorithms is to achieve nonlinear convergence between HO and LO components while minimizing memory footprint and managing the computational complexity in a practical manner. Key to the HOLO approach is the use of the LO representations to address temporal stiffness, effectively accelerating the convergence of the HO/LO coupled system. The HOLO approach is broadly underpinned by the concept of nonlinear elimination, which enables segregation of the HO and LO components in ways that can effectively use heterogeneous architectures. The accuracy and efficiency benefits of HOLO algorithms are demonstrated with specific applications to radiation transport, gas dynamics, plasmas (both Eulerian and Lagrangian formulations), and ocean modeling. Across this broad application spectrum, HOLO algorithms achieve significant accuracy improvements at a fraction of the cost compared to conventional approaches. It follows that HOLO algorithms hold significant potential for high-fidelity system scale multiscale simulations leveraging exascale computing.
A High-Order CFS Algorithm for Clustering Big Data
Directory of Open Access Journals (Sweden)
Fanyu Bu
2016-01-01
Full Text Available With the development of Internet of Everything such as Internet of Things, Internet of People, and Industrial Internet, big data is being generated. Clustering is a widely used technique for big data analytics and mining. However, most of current algorithms are not effective to cluster heterogeneous data which is prevalent in big data. In this paper, we propose a high-order CFS algorithm (HOCFS to cluster heterogeneous data by combining the CFS clustering algorithm and the dropout deep learning model, whose functionality rests on three pillars: (i an adaptive dropout deep learning model to learn features from each type of data, (ii a feature tensor model to capture the correlations of heterogeneous data, and (iii a tensor distance-based high-order CFS algorithm to cluster heterogeneous data. Furthermore, we verify our proposed algorithm on different datasets, by comparison with other two clustering schemes, that is, HOPCM and CFS. Results confirm the effectiveness of the proposed algorithm in clustering heterogeneous data.
Hybrid overlay metrology for high order correction by using CDSEM
Leray, Philippe; Halder, Sandip; Lorusso, Gian; Baudemprez, Bart; Inoue, Osamu; Okagawa, Yutaka
2016-03-01
Overlay control has become one of the most critical issues for semiconductor manufacturing. Advanced lithographic scanners use high-order corrections or correction per exposure to reduce the residual overlay. It is not enough in traditional feedback of overlay measurement by using ADI wafer because overlay error depends on other process (etching process and film stress, etc.). It needs high accuracy overlay measurement by using AEI wafer. WIS (Wafer Induced Shift) is the main issue for optical overlay, IBO (Image Based Overlay) and DBO (Diffraction Based Overlay). We design dedicated SEM overlay targets for dual damascene process of N10 by i-ArF multi-patterning. The pattern is same as device-pattern locally. Optical overlay tools select segmented pattern to reduce the WIS. However segmentation has limit, especially the via-pattern, for keeping the sensitivity and accuracy. We evaluate difference between the viapattern and relaxed pitch gratings which are similar to optical overlay target at AEI. CDSEM can estimate asymmetry property of target from image of pattern edge. CDSEM can estimate asymmetry property of target from image of pattern edge. We will compare full map of SEM overlay to full map of optical overlay for high order correction ( correctables and residual fingerprints).
International Nuclear Information System (INIS)
Li, Renxian; Ren, Kuan Fang; Han, Xiang'e; Wu, Zhensen; Guo, Lixin; Gong, Shuxi
2013-01-01
Debye series expansion (DSE) is employed to the analysis of radiation pressure force (RPF) exerted on biological cells induced by high-order Bessel beams (BB). The beam shape coefficients (BSCs) for high-order Bessel beams are calculated using analytical expressions obtained by the integral localized approximation (ILA). Different types of cells, including a real Chinese Hamster Ovary (CHO) cell and a lymphocyte which are respectively modeled by a coated and five-layered sphere, are considered. The RPF induced by high-order Bessel beams is compared with that by Gaussian beams and zeroth-order Bessel beams, and the effect of different scattering processes on RPF is studied. Numerical calculations show that high-order Bessel beams with zero central intensity can also transversely trap particle in the beam center, and some scattering processes can provide longitudinal pulling force. -- Highlights: ► BSCs for high-order Bessel beam (HOBB) is derived using ILA. ► DSE is employed to study the RPF induced by HOBB exerted on multilayered cells. ► RPF is decided by radius relative to the interval of peaks in intensity profile. ► HOBB can also transversely trap high-index particle in the vicinity of beam axis. ► RPF for some scattering processes can longitudinally pull particles back
International Nuclear Information System (INIS)
Cui, Huaqing; Wu, Feng; Sun, Yanling; Fan, Guocai; Wang, Qingming
2010-01-01
Hepatocellular carcinoma (HCC) is one of the world's leading causes of death among cancer patients. It is important to find a new biomarker that diagnoses HCC and monitors its treatment. In our previous work, we screened a single-chain antibody (scFv) N14, which could specifically recognize human HepG2 HCC cells but not human non-cancerous liver LO2 cells. However, the antigen it recognized in the cells remained unknown. Recombinant scFv N14 antibody was expressed as an active antibody. Using this antibody with a combination of immunological and proteomic approaches, we identified the antigen of scFv N14 antibody as the heterogeneous nuclear ribonucleoprotein A2/B1 (hnRNP A2/B1). The expression of hnRNP A2/B1 in HCC cells was then investigated by semi-quantitative RT-PCR and immunohistochemistry. We found that the up-regulation of hnRNP A2/B1 was measured at both transcriptional and translational levels in rat HCC cells but not in rat hepatic cells. We also found that in various human hepatic tissues, hnRNP A2/B1 was highly expressed in both human hepatitis virus positive liver tissues and human HCC tissues but not in normal liver tissues. Interestingly, we observed that the localization of hnRNP A2/B1 in HCC cells was altered during the development of HCC. In human hepatitis virus infected tissues hnRNP A2/B1 resides exclusively in the nuclei of hepatocytes. However, when the HCC progressed from a well differentiated to a poorly differentiated stage, hnRNP A2/B1 was increasingly localized in the cytoplasm. In contrast, the HCC tissues with hnRNP A2/B1 highly expressed in the nucleus decreased. This work is the first to show that hnRNP A2/B1 is the antigen specifically recognized by the scFv N14 antibody in HCC cells. The over-expression of hnRNP A2/B1 was confirmed in cultured human and rat HCC cell lines, human virus related hepatitis liver tissues and human HCC tissues. The increased localization of hnRNP A2/B1 in the cytoplasm of HCC cells was revealed
Application of organic compounds for high-order harmonic generation of ultrashort pulses
Ganeev, R. A.
2016-02-01
The studies of the high-order nonlinear optical properties of a few organic compounds (polyvinyl alcohol, polyethylene, sugar, coffee, and leaf) are reported. Harmonic generation in the laser-produced plasmas containing the molecules and large particles of above materials is demonstrated. These studies showed that the harmonic distributions and harmonic cutoffs from organic compound plasmas were similar to those from the graphite ablation. The characteristic feature of observed harmonic spectra was the presence of bluesided lobes near the lower-order harmonics.
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm
ring dynamics is presented based on the alignment of the vorticity vector with the principal axis of the strain rate tensor.A novel iterative implementation of the Brinkman penalisation method is introduced for the enforcement of a fluid-solid interface in re-meshed vortex methods. The iterative scheme...... is included to explicitly fulfil the kinematic constraints of the flow field. The high order, unbounded particle-mesh based vortex method is used to simulate the instability, transition to turbulence and eventual destruction of a single vortex ring. From the simulation data, a novel analysis on the vortex...
Application of the Arbitrarily High Order Method to Coupled Electron Photon Transport
International Nuclear Information System (INIS)
Duo, Jose Ignacio
2004-01-01
This work is about the application of the Arbitrary High Order Nodal Method to coupled electron photon transport.A Discrete Ordinates code was enhanced and validated which permited to evaluate the advantages of using variable spatial development order per particle.The results obtained using variable spatial development and adaptive mesh refinement following an a posteriori error estimator are encouraging.Photon spectra for clinical accelerator target and, dose and charge depositio profiles are simulated in one-dimensional problems using cross section generated with CEPXS code.Our results are in good agreement with ONELD and MCNP codes
High-Order Sparse Linear Predictors for Audio Processing
DEFF Research Database (Denmark)
Giacobello, Daniele; van Waterschoot, Toon; Christensen, Mads Græsbøll
2010-01-01
Linear prediction has generally failed to make a breakthrough in audio processing, as it has done in speech processing. This is mostly due to its poor modeling performance, since an audio signal is usually an ensemble of different sources. Nevertheless, linear prediction comes with a whole set...... of interesting features that make the idea of using it in audio processing not far fetched, e.g., the strong ability of modeling the spectral peaks that play a dominant role in perception. In this paper, we provide some preliminary conjectures and experiments on the use of high-order sparse linear predictors...... in audio processing. These predictors, successfully implemented in modeling the short-term and long-term redundancies present in speech signals, will be used to model tonal audio signals, both monophonic and polyphonic. We will show how the sparse predictors are able to model efﬁciently the different...
Wilson loops in very high order lattice perturbation theory
International Nuclear Information System (INIS)
Ilgenfritz, E.M.; Nakamura, Y.; Perlt, H.; Schiller, A.; Rakow, P.E.L.; Schierholz, G.; Regensburg Univ.
2009-10-01
We calculate Wilson loops of various sizes up to loop order n=20 for lattice sizes of L 4 (L=4,6,8,12) using the technique of Numerical Stochastic Perturbation Theory in quenched QCD. This allows to investigate the behaviour of the perturbative series at high orders. We discuss three models to estimate the perturbative series: a renormalon inspired fit, a heuristic fit based on an assumed power-law singularity and boosted perturbation theory. We have found differences in the behavior of the perturbative series for smaller and larger Wilson loops at moderate n. A factorial growth of the coefficients could not be confirmed up to n=20. From Monte Carlo measured plaquette data and our perturbative result we estimate a value of the gluon condensate left angle (α)/(π)GG right angle. (orig.)
High-order hydrodynamic algorithms for exascale computing
Energy Technology Data Exchange (ETDEWEB)
Morgan, Nathaniel Ray [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
2016-02-05
Hydrodynamic algorithms are at the core of many laboratory missions ranging from simulating ICF implosions to climate modeling. The hydrodynamic algorithms commonly employed at the laboratory and in industry (1) typically lack requisite accuracy for complex multi- material vortical flows and (2) are not well suited for exascale computing due to poor data locality and poor FLOP/memory ratios. Exascale computing requires advances in both computer science and numerical algorithms. We propose to research the second requirement and create a new high-order hydrodynamic algorithm that has superior accuracy, excellent data locality, and excellent FLOP/memory ratios. This proposal will impact a broad range of research areas including numerical theory, discrete mathematics, vorticity evolution, gas dynamics, interface instability evolution, turbulent flows, fluid dynamics and shock driven flows. If successful, the proposed research has the potential to radically transform simulation capabilities and help position the laboratory for computing at the exascale.
High-Order Wave Propagation Algorithms for Hyperbolic Systems
Ketcheson, David I.
2013-01-22
We present a finite volume method that is applicable to hyperbolic PDEs including spatially varying and semilinear nonconservative systems. The spatial discretization, like that of the well-known Clawpack software, is based on solving Riemann problems and calculating fluctuations (not fluxes). The implementation employs weighted essentially nonoscillatory reconstruction in space and strong stability preserving Runge--Kutta integration in time. The method can be extended to arbitrarily high order of accuracy and allows a well-balanced implementation for capturing solutions of balance laws near steady state. This well-balancing is achieved through the $f$-wave Riemann solver and a novel wave-slope WENO reconstruction procedure. The wide applicability and advantageous properties of the method are demonstrated through numerical examples, including problems in nonconservative form, problems with spatially varying fluxes, and problems involving near-equilibrium solutions of balance laws.
Very high order lattice perturbation theory for Wilson loops
International Nuclear Information System (INIS)
Horsley, R.
2010-10-01
We calculate perturbativeWilson loops of various sizes up to loop order n=20 at different lattice sizes for pure plaquette and tree-level improved Symanzik gauge theories using the technique of Numerical Stochastic Perturbation Theory. This allows us to investigate the behavior of the perturbative series at high orders. We observe differences in the behavior of perturbative coefficients as a function of the loop order. Up to n=20 we do not see evidence for the often assumed factorial growth of the coefficients. Based on the observed behavior we sum this series in a model with hypergeometric functions. Alternatively we estimate the series in boosted perturbation theory. Subtracting the estimated perturbative series for the average plaquette from the non-perturbative Monte Carlo result we estimate the gluon condensate. (orig.)
High-order multiphoton ionization photoelectron spectroscopy of NO
International Nuclear Information System (INIS)
Carman, H.S. Jr.; Compton, R.N.
1987-01-01
Photoelectron energy angular distributions of NO following three different high-order multiphoton ionization (MPI) schemes have been measured. The 3 + 3 resonantly enhanced multiphoton ionization (REMPI) via the A 2 Σ + (v=O) level yielded a distribution of electron energies corresponding to all accessible vibrational levels (v + =O-6) of the nascent ion. Angular distributions of electrons corresponding to v + =O and v + =3 were significantly different. The 3 + 2 REMPI via the A 2 Σ + (v=1) level produced only one low-energy electron peak (v + =1). Nonresonant MPI at 532 nm yielded a distribution of electron energies corresponding to both four- and five-photon ionization. Prominent peaks in the five-photon photoelectron spectrum (PES) suggest contributions from near-resonant states at the three-photon level. 4 refs., 3 figs
High-order quantum algorithm for solving linear differential equations
International Nuclear Information System (INIS)
Berry, Dominic W
2014-01-01
Linear differential equations are ubiquitous in science and engineering. Quantum computers can simulate quantum systems, which are described by a restricted type of linear differential equations. Here we extend quantum simulation algorithms to general inhomogeneous sparse linear differential equations, which describe many classical physical systems. We examine the use of high-order methods (where the error over a time step is a high power of the size of the time step) to improve the efficiency. These provide scaling close to Δt 2 in the evolution time Δt. As with other algorithms of this type, the solution is encoded in amplitudes of the quantum state, and it is possible to extract global features of the solution. (paper)
Field emission from the surface of highly ordered pyrolytic graphite
Energy Technology Data Exchange (ETDEWEB)
Knápek, Alexandr, E-mail: knapek@isibrno.cz [Institute of Scientific Instruments of the ASCR, v.v.i., Královopolská 147, Brno (Czech Republic); Sobola, Dinara; Tománek, Pavel [Department of Physics, FEEC, Brno University of Technology, Technická 8, Brno (Czech Republic); Pokorná, Zuzana; Urbánek, Michal [Institute of Scientific Instruments of the ASCR, v.v.i., Královopolská 147, Brno (Czech Republic)
2017-02-15
Highlights: • HOPG shreds were created and analyzed in the UHV conditions. • Current-voltage measurements have been done to confirm electron tunneling, based on the Fowler-Nordheim theory. • Surface was characterized by other surface evaluation methods, in particular by: SNOM, SEM and AFM. - Abstract: This paper deals with the electrical characterization of highly ordered pyrolytic graphite (HOPG) surface based on field emission of electrons. The effect of field emission occurs only at disrupted surface, i.e. surface containing ripped and warped shreds of the uppermost layers of graphite. These deformations provide the necessary field gradients which are required for measuring tunneling current caused by field electron emission. Results of the field emission measurements are correlated with other surface characterization methods such as scanning near-field optical microscopy (SNOM) or atomic force microscopy.
Field emission from the surface of highly ordered pyrolytic graphite
International Nuclear Information System (INIS)
Knápek, Alexandr; Sobola, Dinara; Tománek, Pavel; Pokorná, Zuzana; Urbánek, Michal
2017-01-01
Highlights: • HOPG shreds were created and analyzed in the UHV conditions. • Current-voltage measurements have been done to confirm electron tunneling, based on the Fowler-Nordheim theory. • Surface was characterized by other surface evaluation methods, in particular by: SNOM, SEM and AFM. - Abstract: This paper deals with the electrical characterization of highly ordered pyrolytic graphite (HOPG) surface based on field emission of electrons. The effect of field emission occurs only at disrupted surface, i.e. surface containing ripped and warped shreds of the uppermost layers of graphite. These deformations provide the necessary field gradients which are required for measuring tunneling current caused by field electron emission. Results of the field emission measurements are correlated with other surface characterization methods such as scanning near-field optical microscopy (SNOM) or atomic force microscopy.
A high-order mode extended interaction klystron at 0.34 THz
Wang, Dongyang; Wang, Guangqiang; Wang, Jianguo; Li, Shuang; Zeng, Peng; Teng, Yan
2017-02-01
We propose the concept of high-order mode extended interaction klystron (EIK) at the terahertz band. Compared to the conventional fundamental mode EIK, it operates at the TM31-2π mode, and its remarkable advantage is to obtain a large structure and good performance. The proposed EIK consists of five identical cavities with five gaps in each cavity. The method is discussed to suppress the mode competition and self-oscillation in the high-order mode cavity. Particle-in-cell simulation demonstrates that the EIK indeed operates at TM31-2π mode without self-oscillation while other modes are well suppressed. Driven by the electron beam with a voltage of 15 kV and a current of 0.3 A, the saturation gain of 43 dB and the output power of 60 W are achieved at the center frequency of 342.4 GHz. The EIK operating at high-order mode seems a promising approach to generate high power terahertz waves.
Reddy, M K; Nair, S; Singh, B N; Mudgil, Y; Tewari, K K; Sopory, S K
2001-01-24
We report the cloning and sequencing of both cDNA and genomic DNA of a 33 kDa chloroplast ribonucleoprotein (33RNP) from pea. The analysis of the predicted amino acid sequence of the cDNA clone revealed that the encoded protein contains two RNA binding domains, including the conserved consensus ribonucleoprotein sequences CS-RNP1 and CS-RNP2, on the C-terminus half and the presence of a putative transit peptide sequence in the N-terminus region. The phylogenetic and multiple sequence alignment analysis of pea chloroplast RNP along with RNPs reported from the other plant sources revealed that the pea 33RNP is very closely related to Nicotiana sylvestris 31RNP and 28RNP and also to 31RNP and 28RNP of Arabidopsis and spinach, respectively. The pea 33RNP was expressed in Escherichia coli and purified to homogeneity. The in vitro import of precursor protein into chloroplasts confirmed that the N-terminus putative transit peptide is a bona fide transit peptide and 33RNP is localized in the chloroplast. The nucleic acid-binding properties of the recombinant protein, as revealed by South-Western analysis, showed that 33RNP has higher binding affinity for poly (U) and oligo dT than for ssDNA and dsDNA. The steady state transcript level was higher in leaves than in roots and the expression of this gene is light stimulated. Sequence analysis of the genomic clone revealed that the gene contains four exons and three introns. We have also isolated and analyzed the 5' flanking region of the pea 33RNP gene.
Briese, Michael; Saal-Bauernschubert, Lena; Ji, Changhe; Moradi, Mehri; Ghanawi, Hanaa; Uhl, Michael; Appenzeller, Silke; Backofen, Rolf; Sendtner, Michael
2018-03-20
Disturbed RNA processing and subcellular transport contribute to the pathomechanisms of motoneuron diseases such as amyotrophic lateral sclerosis and spinal muscular atrophy. RNA-binding proteins are involved in these processes, but the mechanisms by which they regulate the subcellular diversity of transcriptomes, particularly in axons, are not understood. Heterogeneous nuclear ribonucleoprotein R (hnRNP R) interacts with several proteins involved in motoneuron diseases. It is located in axons of developing motoneurons, and its depletion causes defects in axon growth. Here, we used individual nucleotide-resolution cross-linking and immunoprecipitation (iCLIP) to determine the RNA interactome of hnRNP R in motoneurons. We identified ∼3,500 RNA targets, predominantly with functions in synaptic transmission and axon guidance. Among the RNA targets identified by iCLIP, the noncoding RNA 7SK was the top interactor of hnRNP R. We detected 7SK in the nucleus and also in the cytosol of motoneurons. In axons, 7SK localized in close proximity to hnRNP R, and depletion of hnRNP R reduced axonal 7SK. Furthermore, suppression of 7SK led to defective axon growth that was accompanied by axonal transcriptome alterations similar to those caused by hnRNP R depletion. Using a series of 7SK-deletion mutants, we show that the function of 7SK in axon elongation depends on its interaction with hnRNP R but not with the PTEF-B complex involved in transcriptional regulation. These results propose a role for 7SK as an essential interactor of hnRNP R to regulate its function in axon maintenance. Copyright © 2018 the Author(s). Published by PNAS.
High-order adaptive secondary mirrors: where are we?
Salinari, Piero; Sandler, David G.
1998-09-01
We discuss the current developments and the perspective performances of adaptive secondary mirrors for high order adaptive a correction on large ground based telescopes. The development of the basic techniques involved a large collaborative effort of public research Institutes and of private companies is now essentially complete. The next crucial step will be the construction of an adaptive secondary mirror for the 6.5 m MMT. Problems such as the fabrication of very thin mirrors, the low cost implementation of fast position sensors, of efficient and compact electromagnetic actuators, of the control and communication electronics, of the actuator control system, of the thermal control and of the mechanical layout can be considered as solved, in some cases with more than one viable solution. To verify performances at system level two complete prototypes have been built and tested, one at ThermoTrex and the other at Arcetri. The two prototypes adopt the same basic approach concerning actuators, sensor and support of the thin mirror, but differ in a number of aspects such as the material of the rigid back plate used as reference for the thin mirror, the number and surface density of the actuators, the solution adopted for the removal of the heat, and the design of the electronics. We discuss how the results obtained by of the two prototypes and by numerical simulations will guide the design of full size adaptive secondary units.
Recursive regularization step for high-order lattice Boltzmann methods
Coreixas, Christophe; Wissocq, Gauthier; Puigt, Guillaume; Boussuge, Jean-François; Sagaut, Pierre
2017-09-01
A lattice Boltzmann method (LBM) with enhanced stability and accuracy is presented for various Hermite tensor-based lattice structures. The collision operator relies on a regularization step, which is here improved through a recursive computation of nonequilibrium Hermite polynomial coefficients. In addition to the reduced computational cost of this procedure with respect to the standard one, the recursive step allows to considerably enhance the stability and accuracy of the numerical scheme by properly filtering out second- (and higher-) order nonhydrodynamic contributions in under-resolved conditions. This is first shown in the isothermal case where the simulation of the doubly periodic shear layer is performed with a Reynolds number ranging from 104 to 106, and where a thorough analysis of the case at Re=3 ×104 is conducted. In the latter, results obtained using both regularization steps are compared against the Bhatnagar-Gross-Krook LBM for standard (D2Q9) and high-order (D2V17 and D2V37) lattice structures, confirming the tremendous increase of stability range of the proposed approach. Further comparisons on thermal and fully compressible flows, using the general extension of this procedure, are then conducted through the numerical simulation of Sod shock tubes with the D2V37 lattice. They confirm the stability increase induced by the recursive approach as compared with the standard one.
Application of high-order uncertainty for severe accident management
International Nuclear Information System (INIS)
Yu, Donghan; Ha, Jaejoo
1998-01-01
The use of probability distribution to represent uncertainty about point-valued probabilities has been a controversial subject. Probability theorists have argued that it is inherently meaningless to be uncertain about a probability since this appears to violate the subjectivists' assumption that individual can develop unique and precise probability judgments. However, many others have found the concept of uncertainty about the probability to be both intuitively appealing and potentially useful. Especially, high-order uncertainty, i.e., the uncertainty about the probability, can be potentially relevant to decision-making when expert's judgment is needed under very uncertain data and imprecise knowledge and where the phenomena and events are frequently complicated and ill-defined. This paper presents two approaches for evaluating the uncertainties inherent in accident management strategies: 'a fuzzy probability' and 'an interval-valued subjective probability'. At first, this analysis considers accident management as a decision problem (i.e., 'applying a strategy' vs. 'do nothing') and uses an influence diagram. Then, the analysis applies two approaches above to evaluate imprecise node probabilities in the influence diagram. For the propagation of subjective probabilities, the analysis uses the Monte-Carlo simulation. In case of fuzzy probabilities, the fuzzy logic is applied to propagate them. We believe that these approaches can allow us to understand uncertainties associated with severe accident management strategy since they offer not only information similar to the classical approach using point-estimate values but also additional information regarding the impact from imprecise input data
High order effects in cross section sensitivity analysis
International Nuclear Information System (INIS)
Greenspan, E.; Karni, Y.; Gilai, D.
1978-01-01
Two types of high order effects associated with perturbations in the flux shape are considered: Spectral Fine Structure Effects (SFSE) and non-linearity between changes in performance parameters and data uncertainties. SFSE are investigated in Part I using a simple single resonance model. Results obtained for each of the resolved and for representative unresolved resonances of 238 U in a ZPR-6/7 like environment indicate that SFSE can have a significant contribution to the sensitivity of group constants to resonance parameters. Methods to account for SFSE both for the propagation of uncertainties and for the adjustment of nuclear data are discussed. A Second Order Sensitivity Theory (SOST) is presented, and its accuracy relative to that of the first order sensitivity theory and of the direct substitution method is investigated in Part II. The investigation is done for the non-linear problem of the effect of changes in the 297 keV sodium minimum cross section on the transport of neutrons in a deep-penetration problem. It is found that the SOST provides a satisfactory accuracy for cross section uncertainty analysis. For the same degree of accuracy, the SOST can be significantly more efficient than the direct substitution method
RCS Leak Rate Calculation with High Order Least Squares Method
International Nuclear Information System (INIS)
Lee, Jeong Hun; Kang, Young Kyu; Kim, Yang Ki
2010-01-01
As a part of action items for Application of Leak before Break(LBB), RCS Leak Rate Calculation Program is upgraded in Kori unit 3 and 4. For real time monitoring of operators, periodic calculation is needed and corresponding noise reduction scheme is used. This kind of study was issued in Korea, so there have upgraded and used real time RCS Leak Rate Calculation Program in UCN unit 3 and 4 and YGN unit 1 and 2. For reduction of the noise in signals, Linear Regression Method was used in those programs. Linear Regression Method is powerful method for noise reduction. But the system is not static with some alternative flow paths and this makes mixed trend patterns of input signal values. In this condition, the trend of signal and average of Linear Regression are not entirely same pattern. In this study, high order Least squares Method is used to follow the trend of signal and the order of calculation is rearranged. The result of calculation makes reasonable trend and the procedure is physically consistence
High-order above-threshold dissociation of molecules
Lu, Peifen; Wang, Junping; Li, Hui; Lin, Kang; Gong, Xiaochun; Song, Qiying; Ji, Qinying; Zhang, Wenbin; Ma, Junyang; Li, Hanxiao; Zeng, Heping; He, Feng; Wu, Jian
2018-03-01
Electrons bound to atoms or molecules can simultaneously absorb multiple photons via the above-threshold ionization featured with discrete peaks in the photoelectron spectrum on account of the quantized nature of the light energy. Analogously, the above-threshold dissociation of molecules has been proposed to address the multiple-photon energy deposition in the nuclei of molecules. In this case, nuclear energy spectra consisting of photon-energy spaced peaks exceeding the binding energy of the molecular bond are predicted. Although the observation of such phenomena is difficult, this scenario is nevertheless logical and is based on the fundamental laws. Here, we report conclusive experimental observation of high-order above-threshold dissociation of H2 in strong laser fields where the tunneling-ionized electron transfers the absorbed multiphoton energy, which is above the ionization threshold to the nuclei via the field-driven inelastic rescattering. Our results provide an unambiguous evidence that the electron and nuclei of a molecule as a whole absorb multiple photons, and thus above-threshold ionization and above-threshold dissociation must appear simultaneously, which is the cornerstone of the nowadays strong-field molecular physics.
High-order harmonic conversion efficiency in helium
International Nuclear Information System (INIS)
Crane, J.K.
1992-01-01
Calculated results are presented for the energy, number of photons, and conversion efficiency for high-order harmonic generation in helium. The results show the maximum values that we should expect to achieve experimentally with our current apparatus and the important parameters for scaling this source to higher output. In the desired operating regime where the coherence length, given by L coh =πb/(q-1), is greater than the gas column length, l, the harmonic output can be summarized by a single equation: N q =[(π z n z b 3 τ q |d q | z )/4h]{(p/q)(2l/b) z }. N q - numbers of photons of q-th harmonic; n - atom density; b - laser confocal parameter; τ q - pulse width of harmonic radiation; q - harmonic order; p - effective order of nonlinearity. (Note the term in brackets, the phase-matching function, has been separated from the rest of the expression in order to be consistent with the relevant literature)
Mode of conception of triplets and high order multiple pregnancies.
LENUS (Irish Health Repository)
Basit, I
2012-03-01
A retrospective audit was performed of all high order multiple pregnancies (HOMPs) delivered in three maternity hospitals in Dublin between 1999 and 2008. The mode of conception for each pregnancy was established with a view to determining means of reducing their incidence. A total of 101 HOMPs occurred, 93 triplet, 7 quadruplet and 1 quintuplet. Information regarding the mode of conception was available for 78 (81%) pregnancies. Twenty eight (27.7%) were spontaneous, 34 (33.7%) followedlVF\\/ICSI\\/FET treatment (in-vitro fertilisation, intracytoplasmic sperm injection, frozen embryo transfer), 16 (15.8%) resulted from Clomiphene Citrate treatment and 6 (6%) followed ovulation induction with gonadotrophins. Triplet and HOMPs are a major cause of maternal, feta land neonatal morbidity. Many are iatrogenic, arising from fertility treatments including Clomiphene. Reducing the numbers of embryos transferred will address IVF\\/ICSI\\/FET-related multiple pregnancy rates and this is currently happening in Ireland. Clomiphene and gonadotrophins should only be prescribed when appropriate resources are available to monitor patients adequately.
Design and high order optimization of the ATF2 lattices
Marin, E; Woodley, M; Kubo, K; Okugi, T; Tauchi, T; Urakawa, J; Tomas, R
2013-01-01
The next generation of future linear colliders (LC) demands nano-meter beam sizes at the interaction point (IP) in order to reach the required luminosity. The final focus system (FFS) of a LC is meant to deliver such small beam sizes. The Accelerator Test Facility (ATF) aims to test the feasibility of the new local chromaticity correction scheme which the future LCs are based on. To this end the ATF2 nominal and ultra-low beta* lattices are design to vertically focus the beam at the IP to 37nm and 23nm, respectively if error-free lattices are considered. However simulations show that the measured field errors of the ATF2 magnets preclude to reach the mentioned spot sizes. This paper describes the optimization of high order aberrations of the ATF2 lattices in order to minimize the detrimental effect of the measured multipole components for both ATF2 lattices. Specifically three solutions are studied, the replacement of the last focusing quadrupole (QF1FF), insertion of octupole magnets and optics modification....
High orders of perturbation theory. Are renormalons significant?
International Nuclear Information System (INIS)
Suslov, I.M.
1999-01-01
According to Lipatov [Sov. Phys. JETP 45, 216 (1977)], the high orders of perturbation theory are determined by saddle-point configurations, i.e., instantons, which correspond to functional integrals. According to another opinion, the contributions of individual large diagrams, i.e., renormalons, which, according to t'Hooft [The Whys of Subnuclear Physics: Proceedings of the 1977 International School of Subnuclear Physics (Erice, Trapani, Sicily, 1977), A. Zichichi (Ed.), Plenum Press, New York (1979)], are not contained in the Lipatov contribution, are also significant. The history of the conception of renormalons is presented, and the arguments in favor of and against their existence are discussed. The analytic properties of the Borel transforms of functional integrals, Green's functions, vertex parts, and scaling functions are investigated in the case of φ 4 theory. Their analyticity in a complex plane with a cut from the first instanton singularity to infinity (the Le Guillou-Zinn-Justin hypothesis [Phys. Rev. Lett. 39, 95 (1977); Phys. Rev. B 21, 3976 (1980)] is proved. It rules out the existence of the renormalon singularities pointed out by t'Hooft and demonstrates the nonconstructiveness of the conception of renormalons as a whole. The results can be interpreted as an indication of the internal consistency of φ 4 theory
High Order Differential Frequency Hopping: Design and Analysis
Directory of Open Access Journals (Sweden)
Yong Li
2015-01-01
Full Text Available This paper considers spectrally efficient differential frequency hopping (DFH system design. Relying on time-frequency diversity over large spectrum and high speed frequency hopping, DFH systems are robust against hostile jamming interference. However, the spectral efficiency of conventional DFH systems is very low due to only using the frequency of each channel. To improve the system capacity, in this paper, we propose an innovative high order differential frequency hopping (HODFH scheme. Unlike in traditional DFH where the message is carried by the frequency relationship between the adjacent hops using one order differential coding, in HODFH, the message is carried by the frequency and phase relationship using two-order or higher order differential coding. As a result, system efficiency is increased significantly since the additional information transmission is achieved by the higher order differential coding at no extra cost on either bandwidth or power. Quantitative performance analysis on the proposed scheme demonstrates that transmission through the frequency and phase relationship using two-order or higher order differential coding essentially introduces another dimension to the signal space, and the corresponding coding gain can increase the system efficiency.
High-order computer-assisted estimates of topological entropy
Grote, Johannes
The concept of Taylor Models is introduced, which offers highly accurate C0-estimates for the enclosures of functional dependencies, combining high-order Taylor polynomial approximation of functions and rigorous estimates of the truncation error, performed using verified interval arithmetic. The focus of this work is on the application of Taylor Models in algorithms for strongly nonlinear dynamical systems. A method to obtain sharp rigorous enclosures of Poincare maps for certain types of flows and surfaces is developed and numerical examples are presented. Differential algebraic techniques allow the efficient and accurate computation of polynomial approximations for invariant curves of certain planar maps around hyperbolic fixed points. Subsequently we introduce a procedure to extend these polynomial curves to verified Taylor Model enclosures of local invariant manifolds with C0-errors of size 10-10--10 -14, and proceed to generate the global invariant manifold tangle up to comparable accuracy through iteration in Taylor Model arithmetic. Knowledge of the global manifold structure up to finite iterations of the local manifold pieces enables us to find all homoclinic and heteroclinic intersections in the generated manifold tangle. Combined with the mapping properties of the homoclinic points and their ordering we are able to construct a subshift of finite type as a topological factor of the original planar system to obtain rigorous lower bounds for its topological entropy. This construction is fully automatic and yields homoclinic tangles with several hundred homoclinic points. As an example rigorous lower bounds for the topological entropy of the Henon map are computed, which to the best knowledge of the authors yield the largest such estimates published so far.
Global Monte Carlo Simulation with High Order Polynomial Expansions
International Nuclear Information System (INIS)
William R. Martin; James Paul Holloway; Kaushik Banerjee; Jesse Cheatham; Jeremy Conlin
2007-01-01
The functional expansion technique (FET) was recently developed for Monte Carlo simulation. The basic idea of the FET is to expand a Monte Carlo tally in terms of a high order expansion, the coefficients of which can be estimated via the usual random walk process in a conventional Monte Carlo code. If the expansion basis is chosen carefully, the lowest order coefficient is simply the conventional histogram tally, corresponding to a flat mode. This research project studied the applicability of using the FET to estimate the fission source, from which fission sites can be sampled for the next generation. The idea is that individual fission sites contribute to expansion modes that may span the geometry being considered, possibly increasing the communication across a loosely coupled system and thereby improving convergence over the conventional fission bank approach used in most production Monte Carlo codes. The project examined a number of basis functions, including global Legendre polynomials as well as 'local' piecewise polynomials such as finite element hat functions and higher order versions. The global FET showed an improvement in convergence over the conventional fission bank approach. The local FET methods showed some advantages versus global polynomials in handling geometries with discontinuous material properties. The conventional finite element hat functions had the disadvantage that the expansion coefficients could not be estimated directly but had to be obtained by solving a linear system whose matrix elements were estimated. An alternative fission matrix-based response matrix algorithm was formulated. Studies were made of two alternative applications of the FET, one based on the kernel density estimator and one based on Arnoldi's method of minimized iterations. Preliminary results for both methods indicate improvements in fission source convergence. These developments indicate that the FET has promise for speeding up Monte Carlo fission source convergence
Mohan Kumar, Dipu; Lin, Mingqun; Xiong, Qingming; Webber, Mathew James; Kural, Comert; Rikihisa, Yasuko
2015-11-03
obligate intracellular bacterium, causes a blood-borne disease called human monocytic ehrlichiosis, one of the most prevalent life-threatening emerging tick-transmitted infectious diseases in the United States. The survival of Ehrlichia bacteria, and hence, their ability to cause disease, depends on their specific mode of entry into eukaryotic host cells. Understanding the mechanism by which E. chaffeensis enters cells will create new opportunities for developing effective therapies to prevent bacterial entry and disease in humans. Our findings reveal a novel cellular signaling pathway triggered by an ehrlichial surface protein called EtpE to induce its infectious entry. The results are also important from the viewpoint of human cell physiology because three EtpE-interacting human proteins, DNase X, CD147, and hnRNP-K, are hitherto unknown partners that drive the uptake of small particles, including bacteria, into human cells. Copyright © 2015 Mohan Kumar et al.
60 kD Ro and nRNP A frequently initiate human lupus autoimmunity.
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Latisha D Heinlen
2010-03-01
Full Text Available Systemic lupus erythematosus (SLE is a clinically heterogeneous, humoral autoimmune disorder. The unifying feature among SLE patients is the production of large quantities of autoantibodies. Serum samples from 129 patients collected before the onset of SLE and while in the United States military were evaluated for early pre-clinical serologic events. The first available positive serum sample frequently already contained multiple autoantibody specificities (65%. However, in 34 SLE patients the earliest pre-clinical serum sample positive for any detectable common autoantibody bound only a single autoantigen, most commonly 60 kD Ro (29%, nRNP A (24%, anti-phospholipids (18% or rheumatoid factor (15%. We identified several recurrent patterns of autoantibody onset using these pre-diagnostic samples. In the serum samples available, anti-nRNP A appeared before or simultaneously with anti-nRNP 70 K in 96% of the patients who had both autoantibodies at diagnosis. Anti-60 kD Ro antibodies appeared before or simultaneously with anti-La (98% or anti-52 kD Ro (95%. The autoantibody response in SLE patients begins simply, often binding a single specific autoantigen years before disease onset, followed by epitope spreading to additional autoantigenic specificities that are accrued in recurring patterns.
PRMT5 regulates IRES-dependent translation via methylation of hnRNP A1
Gao, Guozhen; Dhar, Surbhi
2017-01-01
Abstract The type II arginine methyltransferase PRMT5 is responsible for the symmetric dimethylation of histone to generate the H3R8me2s and H4R3me2s marks, which correlate with the repression of transcription. However, the protein level of a number of genes (MEP50, CCND1, MYC, HIF1a, MTIF and CDKN1B) are reported to be downregulated by the loss of PRMT5, while their mRNA levels remain unchanged, which is counterintuitive for PRMT5's proposed role as a transcription repressor. We noticed that the majority of the genes regulated by PRMT5, at the posttranscriptional level, express mRNA containing an internal ribosome entry site (IRES). Using an IRES-dependent reporter system, we established that PRMT5 facilitates the translation of a subset of IRES-containing genes. The heterogeneous nuclear ribonucleoprotein, hnRNP A1, is an IRES transacting factor (ITAF) that regulates the IRES-dependent translation of Cyclin D1 and c-Myc. We showed that hnRNP A1 is methylated by PRMT5 on two residues, R218 and R225, and that this methylation facilitates the interaction of hnRNP A1 with IRES RNA to promote IRES-dependent translation. This study defines a new role for PRMT5 regulation of cellular protein levels, which goes beyond the known functions of PRMT5 as a transcription and splicing regulator. PMID:28115626
De Basabe, Jonás D.
2010-04-01
We investigate the stability of some high-order finite element methods, namely the spectral element method and the interior-penalty discontinuous Galerkin method (IP-DGM), for acoustic or elastic wave propagation that have become increasingly popular in the recent past. We consider the Lax-Wendroff method (LWM) for time stepping and show that it allows for a larger time step than the classical leap-frog finite difference method, with higher-order accuracy. In particular the fourth-order LWM allows for a time step 73 per cent larger than that of the leap-frog method; the computational cost is approximately double per time step, but the larger time step partially compensates for this additional cost. Necessary, but not sufficient, stability conditions are given for the mentioned methods for orders up to 10 in space and time. The stability conditions for IP-DGM are approximately 20 and 60 per cent more restrictive than those for SEM in the acoustic and elastic cases, respectively. © 2010 The Authors Journal compilation © 2010 RAS.
DEFF Research Database (Denmark)
Nielsen, Klaus H; Valásek, Leos; Sykes, Caroah
2006-01-01
We found that mutating the RNP1 motif in the predicted RRM domain in yeast eukaryotic initiation factor 3 (eIF3) subunit b/PRT1 (prt1-rnp1) impairs its direct interactions in vitro with both eIF3a/TIF32 and eIF3j/HCR1. The rnp1 mutation in PRT1 confers temperature-sensitive translation initiation...
High-order harmonics generation from overdense plasmas
International Nuclear Information System (INIS)
Quere, F.; Thaury, C.; Monot, P.; Martin, Ph.; Geindre, J.P.; Audebert, P.; Marjoribanks, R.
2006-01-01
Complete test of publication follows. When an intense laser beam reflects on an overdense plasma generated on a solid target, high-order harmonics of the incident laser frequency are observed in the reflected beam. This process provides a way to produce XUV femtosecond and attosecond pulses in the μJ range from ultrafast ultraintense lasers. Studying the mechanisms responsible for this harmonic emission is also of strong fundamental interest: just as HHG in gases has been instrumental in providing a comprehensive understanding of basic intense laser-atom interactions, HHG from solid-density plasmas is likely to become a unique tool to investigate many key features of laser-plasma interactions at high intensities. We will present both experimental and theoretical evidence that two mechanisms contribute to this harmonic emission: - Coherent Wake Emission: in this process, harmonics are emitted by plasma oscillations in te overdense plasma, triggered in the wake of jets of Brunel electrons generated by the laser field. - The relativistic oscillating mirror: in this process, the intense laser field drives a relativistic oscillation of the plasma surface, which in turn gives rise to a periodic phase modulation of the reflected beam, and hence to the generation of harmonics of the incident frequency. Left graph: experimental harmonic spectrum from a polypropylene target, obtained with 60 fs laser pulses at 10 19 W/cm 2 , with a very high temporal contrast (10 10 ). The plasma frequency of this target corresponds to harmonics 15-16, thus excluding the CWE mechanism for the generation of harmonics of higher orders. Images on the right: harmonic spectra from orders 13 et 18, for different distances z between the target and the best focus. At the highest intensity (z=0), harmonics emitted by the ROM mechanism are observed above the 15th order. These harmonics have a much smaller spectral width then those due to CWE (below the 15th order). These ROM harmonics vanish as soon
Iwaki, Aya; Kawai, Takao; Yamamoto, Yosuke; Izawa, Shingo
2013-03-01
Various forms of stress can cause an attenuation of bulk translation activity and the accumulation of nontranslating mRNAs into cytoplasmic messenger RNP (mRNP) granules termed processing bodies (P-bodies) and stress granules (SGs) in eukaryotic cells. Furfural and 5-hydroxymethylfurfural (HMF), derived from lignocellulosic biomass, inhibit yeast growth and fermentation as stressors. Since there is no report regarding their effects on the formation of cytoplasmic mRNP granules, here we investigated whether furfural and HMF cause the assembly of yeast P-bodies and SGs accompanied by translational repression. We found that furfural and HMF cause the attenuation of bulk translation activity and the assembly of cytoplasmic mRNP granules in Saccharomyces cerevisiae. Notably, a combination of furfural and HMF induced the remarkable repression of translation initiation and SG formation. These findings provide new information about the physiological effects of furfural and HMF on yeast cells, and also suggest the potential usefulness of cytoplasmic mRNP granules as a warning sign or index of the deterioration of cellular physiological status in the fermentation of lignocellulosic hydrolysates.
The 7SK snRNP associates with the little elongation complex to promote snRNA gene expression.
Egloff, Sylvain; Vitali, Patrice; Tellier, Michael; Raffel, Raoul; Murphy, Shona; Kiss, Tamás
2017-04-03
The 7SK small nuclear RNP (snRNP), composed of the 7SK small nuclear RNA (snRNA), MePCE, and Larp7, regulates the mRNA elongation capacity of RNA polymerase II (RNAPII) through controlling the nuclear activity of positive transcription elongation factor b (P-TEFb). Here, we demonstrate that the human 7SK snRNP also functions as a canonical transcription factor that, in collaboration with the little elongation complex (LEC) comprising ELL, Ice1, Ice2, and ZC3H8, promotes transcription of RNAPII-specific spliceosomal snRNA and small nucleolar RNA (snoRNA) genes. The 7SK snRNA specifically associates with a fraction of RNAPII hyperphosphorylated at Ser5 and Ser7, which is a hallmark of RNAPII engaged in snRNA synthesis. Chromatin immunoprecipitation (ChIP) and chromatin isolation by RNA purification (ChIRP) experiments revealed enrichments for all components of the 7SK snRNP on RNAPII-specific sn/snoRNA genes. Depletion of 7SK snRNA or Larp7 disrupts LEC integrity, inhibits RNAPII recruitment to RNAPII-specific sn/snoRNA genes, and reduces nascent snRNA and snoRNA synthesis. Thus, through controlling both mRNA elongation and sn/snoRNA synthesis, the 7SK snRNP is a key regulator of nuclear RNA production by RNAPII. © 2017 The Authors.
Functional organization of the Sm core in the crystal structure of human U1 snRNP.
Weber, Gert; Trowitzsch, Simon; Kastner, Berthold; Lührmann, Reinhard; Wahl, Markus C
2010-12-15
U1 small nuclear ribonucleoprotein (snRNP) recognizes the 5'-splice site early during spliceosome assembly. It represents a prototype spliceosomal subunit containing a paradigmatic Sm core RNP. The crystal structure of human U1 snRNP obtained from natively purified material by in situ limited proteolysis at 4.4 Å resolution reveals how the seven Sm proteins, each recognize one nucleotide of the Sm site RNA using their Sm1 and Sm2 motifs. Proteins D1 and D2 guide the snRNA into and out of the Sm ring, and proteins F and E mediate a direct interaction between the Sm site termini. Terminal extensions of proteins D1, D2 and B/B', and extended internal loops in D2 and B/B' support a four-way RNA junction and a 3'-terminal stem-loop on opposite sides of the Sm core RNP, respectively. On a higher organizational level, the core RNP presents multiple attachment sites for the U1-specific 70K protein. The intricate, multi-layered interplay of proteins and RNA rationalizes the hierarchical assembly of U snRNPs in vitro and in vivo.
Energy Technology Data Exchange (ETDEWEB)
Zheng, Zi-Zheng; Sun, Yuan-Yuan; Zhao, Min; Huang, Hui [National Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen, Fujian 361005 (China); School of Life Sciences, Xiamen University, Xiamen, Fujian 361005 (China); Zhang, Jun; Xia, Ning-Shao [National Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen, Fujian 361005 (China); School of Life Sciences, Xiamen University, Xiamen, Fujian 361005 (China); School of Public Health, Xiamen University, Xiamen, Fujian 361005 (China); Miao, Ji, E-mail: jmiao@xmu.edu.cn [National Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen, Fujian 361005 (China); School of Life Sciences, Xiamen University, Xiamen, Fujian 361005 (China); Zhao, Qinjian, E-mail: qinjian_zhao@xmu.edu.cn [National Institute of Diagnostics and Vaccine Development in Infectious Diseases, Xiamen University, Xiamen, Fujian 361005 (China); School of Public Health, Xiamen University, Xiamen, Fujian 361005 (China)
2013-01-18
Highlights: ► The RNA-binding hnRNP H regulates late viral gene expression. ► hnRNP H activity was inhibited by a late viral protein. ► Specific interaction between HPV L1 and hnRNP H was demonstrated. ► Co-localization of HPV L1 and hnRNP H inside cells was observed. ► Viral capsid protein production, enabling rapid capsid assembly, was implicated. -- Abstract: Heterogeneous nuclear ribonucleoproteins (hnRNPs), including hnRNP H, are RNA-binding proteins that function as splicing factors and are involved in downstream gene regulation. hnRNP H, which binds to G triplet regions in RNA, has been shown to play an important role in regulating the staged expression of late proteins in viral systems. Here, we report that the specific association between hnRNP H and a late viral capsid protein, human papillomavirus (HPV) L1 protein, leads to the suppressed function of hnRNP H in the presence of the L1 protein. The direct interaction between the L1 protein and hnRNP H was demonstrated by complex formation in solution and intracellularly using a variety of biochemical and immunochemical methods, including peptide mapping, specific co-immunoprecipitation and confocal fluorescence microscopy. These results support a working hypothesis that a late viral protein HPV16 L1, which is down regulated by hnRNP H early in the viral life cycle may provide an auto-regulatory positive feedback loop that allows the rapid production of HPV capsid proteins through suppression of the function of hnRNP H at the late stage of the viral life cycle. In this positive feedback loop, the late viral gene products that were down regulated earlier themselves disable their suppressors, and this feedback mechanism could facilitate the rapid production of capsid proteins, allowing staged and efficient viral capsid assembly.
Liang, Ying; Yang, Gen; Liu, Feng; Wang, Yugang
2016-01-07
Ionizing radiation threatens genome integrity by causing DNA damage. Monte Carlo simulation of the interaction of a radiation track structure with DNA provides a powerful tool for investigating the mechanisms of the biological effects. However, the more or less oversimplification of the indirect effect and the inadequate consideration of high-order chromatin structures in current models usually results in discrepancies between simulations and experiments, which undermine the predictive role of the models. Here we present a biophysical model taking into consideration factors that influence indirect effect to simulate radiation-induced DNA strand breaks in eukaryotic cells with high-order chromatin structures. The calculated yields of single-strand breaks and double-strand breaks (DSBs) for photons are in good agreement with the experimental measurements. The calculated yields of DSB for protons and α particles are consistent with simulations by the PARTRAC code, whereas an overestimation is seen compared with the experimental results. The simulated fragment size distributions for (60)Co γ irradiation and α particle irradiation are compared with the measurements accordingly. The excellent agreement with (60)Co irradiation validates our model in simulating photon irradiation. The general agreement found in α particle irradiation encourages model applicability in the high linear energy transfer range. Moreover, we demonstrate the importance of chromatin high-order structures in shaping the spectrum of initial damage.
International Nuclear Information System (INIS)
Liang, Ying; Yang, Gen; Liu, Feng; Wang, Yugang
2016-01-01
Ionizing radiation threatens genome integrity by causing DNA damage. Monte Carlo simulation of the interaction of a radiation track structure with DNA provides a powerful tool for investigating the mechanisms of the biological effects. However, the more or less oversimplification of the indirect effect and the inadequate consideration of high-order chromatin structures in current models usually results in discrepancies between simulations and experiments, which undermine the predictive role of the models. Here we present a biophysical model taking into consideration factors that influence indirect effect to simulate radiation-induced DNA strand breaks in eukaryotic cells with high-order chromatin structures. The calculated yields of single-strand breaks and double-strand breaks (DSBs) for photons are in good agreement with the experimental measurements. The calculated yields of DSB for protons and α particles are consistent with simulations by the PARTRAC code, whereas an overestimation is seen compared with the experimental results. The simulated fragment size distributions for 60 Co γ irradiation and α particle irradiation are compared with the measurements accordingly. The excellent agreement with 60 Co irradiation validates our model in simulating photon irradiation. The general agreement found in α particle irradiation encourages model applicability in the high linear energy transfer range. Moreover, we demonstrate the importance of chromatin high-order structures in shaping the spectrum of initial damage. (paper)
A Function for the hnRNP A1/A2 Proteins in Transcription Elongation.
Lemieux, Bruno; Blanchette, Marco; Monette, Anne; Mouland, Andrew J; Wellinger, Raymund J; Chabot, Benoit
2015-01-01
The hnRNP A1 and A2 proteins regulate processes such as alternative pre-mRNA splicing and mRNA stability. Here, we report that a reduction in the levels of hnRNP A1 and A2 by RNA interference or their cytoplasmic retention by osmotic stress drastically increases the transcription of a reporter gene. Based on previous work, we propose that this effect may be linked to a decrease in the activity of the transcription elongation factor P-TEFb. Consistent with this hypothesis, the transcription of the reporter gene was stimulated when the catalytic component of P-TEFb, CDK9, was inhibited with DRB. While low levels of A1/A2 stimulated the association of RNA polymerase II with the reporter gene, they also increased the association of CDK9 with the repressor 7SK RNA, and compromised the recovery of promoter-distal transcription on the Kitlg gene after the release of pausing. Transcriptome analysis revealed that more than 50% of the genes whose expression was affected by the siRNA-mediated depletion of A1/A2 were also affected by DRB. RNA polymerase II-chromatin immunoprecipitation assays on DRB-treated and A1/A2-depleted cells identified a common set of repressed genes displaying increased occupancy of polymerases at promoter-proximal locations, consistent with pausing. Overall, our results suggest that lowering the levels of hnRNP A1/A2 elicits defective transcription elongation on a fraction of P-TEFb-dependent genes, hence favoring the transcription of P-TEFb-independent genes.
A Function for the hnRNP A1/A2 Proteins in Transcription Elongation.
Directory of Open Access Journals (Sweden)
Bruno Lemieux
Full Text Available The hnRNP A1 and A2 proteins regulate processes such as alternative pre-mRNA splicing and mRNA stability. Here, we report that a reduction in the levels of hnRNP A1 and A2 by RNA interference or their cytoplasmic retention by osmotic stress drastically increases the transcription of a reporter gene. Based on previous work, we propose that this effect may be linked to a decrease in the activity of the transcription elongation factor P-TEFb. Consistent with this hypothesis, the transcription of the reporter gene was stimulated when the catalytic component of P-TEFb, CDK9, was inhibited with DRB. While low levels of A1/A2 stimulated the association of RNA polymerase II with the reporter gene, they also increased the association of CDK9 with the repressor 7SK RNA, and compromised the recovery of promoter-distal transcription on the Kitlg gene after the release of pausing. Transcriptome analysis revealed that more than 50% of the genes whose expression was affected by the siRNA-mediated depletion of A1/A2 were also affected by DRB. RNA polymerase II-chromatin immunoprecipitation assays on DRB-treated and A1/A2-depleted cells identified a common set of repressed genes displaying increased occupancy of polymerases at promoter-proximal locations, consistent with pausing. Overall, our results suggest that lowering the levels of hnRNP A1/A2 elicits defective transcription elongation on a fraction of P-TEFb-dependent genes, hence favoring the transcription of P-TEFb-independent genes.
The recruitment of the U5 snRNP to nascent transcripts requires internal loop 1 of U5 snRNA.
Kim, Rebecca; Paschedag, Joshua; Novikova, Natalya; Bellini, Michel
2012-12-01
In this study, we take advantage of the high spatial resolution offered by the nucleus and lampbrush chromosomes of the amphibian oocyte to investigate the mechanisms that regulate the intranuclear trafficking of the U5 snRNP and its recruitment to nascent transcripts. We monitor the fate of newly assembled fluorescent U5 snRNP in Xenopus oocytes depleted of U4 and/or U6 snRNAs and demonstrate that the U4/U6.U5 tri-snRNP is not required for the association of U5 snRNP with Cajal bodies, splicing speckles, and nascent transcripts. In addition, using a mutational analysis, we show that a non-functional U5 snRNP can associate with nascent transcripts, and we further characterize internal loop structure 1 of U5 snRNA as a critical element for licensing U5 snRNP to target both nascent transcripts and splicing speckles. Collectively, our data support the model where the recruitment of snRNPs onto pre-mRNAs is independent of spliceosome assembly and suggest that U5 snRNP may promote the association of the U4/U6.U5 tri-snRNP with nascent transcripts.
Sui, Jiangdong; Lin, Yu-Fen; Xu, Kangling; Lee, Kyung-Jong; Wang, Dong; Chen, Benjamin P C
2015-07-13
The heterogeneous nuclear ribonucleoprotein A1 (hnRNP-A1) has been implicated in telomere protection and telomerase activation. Recent evidence has further demonstrated that hnRNP-A1 plays a crucial role in maintaining newly replicated telomeric 3' overhangs and facilitating the switch from replication protein A (RPA) to protection of telomeres 1 (POT1). The role of hnRNP-A1 in telomere protection also involves DNA-dependent protein kinase catalytic subunit (DNA-PKcs), although the detailed regulation mechanism has not been clear. Here we report that hnRNP-A1 is phosphorylated by DNA-PKcs during the G2 and M phases and that DNA-PK-dependent hnRNP-A1 phosphorylation promotes the RPA-to-POT1 switch on telomeric single-stranded 3' overhangs. Consequently, in cells lacking hnRNP-A1 or DNA-PKcs-dependent hnRNP-A1 phosphorylation, impairment of the RPA-to-POT1 switch results in DNA damage response at telomeres during mitosis as well as induction of fragile telomeres. Taken together, our results indicate that DNA-PKcs-dependent hnRNP-A1 phosphorylation is critical for capping of the newly replicated telomeres and prevention of telomeric aberrations. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.
Directory of Open Access Journals (Sweden)
Sangmin Lee
2014-09-01
Full Text Available Some somatic single nucleotide variants (SNVs are thought to be pathogenic, leading to neurological disease. We hypothesized that heterogeneous nuclear ribonuclear protein A1 (hnRNP A1, an autoantigen associated with multiple sclerosis (MS would contain SNVs. MS patients develop antibodies to hnRNP A1293-304, an epitope within the M9 domain (AA268-305 of hnRNP A1. M9 is hnRNP A1’s nucleocytoplasmic transport domain, which binds transportin-1 (TPNO-1 and allows for hnRNP A1’s transport into and out of the nucleus. Genomic DNA sequencing of M9 revealed nine novel SNVs that resulted in an amino acid substitution in MS patients that were not present in controls. SNVs occurred within the TPNO-1 binding domain (hnRNP A1268-289 and the MS IgG epitope (hnRNP A1293-304, within M9. In contrast to the nuclear localization of wild type (WT hnRNP A1, mutant hnRNP A1 mis-localized to the cytoplasm, co-localized with stress granules and caused cellular apoptosis. Whilst WT hnRNP A1 bound TPNO-1, mutant hnRNP A1 showed reduced TPNO-1 binding. These data suggest SNVs in hnRNP A1 might contribute to pathogenesis of MS.
Directory of Open Access Journals (Sweden)
Sangmin Lee
2014-06-01
Full Text Available Some somatic single nucleotide variants (SNVs are thought to be pathogenic, leading to neurological disease. We hypothesized that heterogeneous nuclear ribonuclear protein A1 (hnRNP A1, an autoantigen associated with multiple sclerosis (MS would contain SNVs. MS patients develop antibodies to hnRNP A1293-304, an epitope within the M9 domain (AA268-305 of hnRNP A1. M9 is hnRNP A1’s nucleocytoplasmic transport domain, which binds transportin-1 (TPNO-1 and allows for hnRNP A1’s transport into and out of the nucleus. Genomic DNA sequencing of M9 revealed nine novel SNVs that resulted in an amino acid substitution in MS patients that were not present in controls. SNVs occurred within the TPNO-1 binding domain (hnRNP A1268-289 and the MS IgG epitope (hnRNP A1293-304, within M9. In contrast to the nuclear localization of wild type (WT hnRNP A1, mutant hnRNP A1 mis-localized to the cytoplasm, co-localized with stress granules and caused cellular apoptosis. Whilst WT hnRNP A1 bound TPNO-1, mutant hnRNP A1 showed reduced TPNO-1 binding. These data suggest SNVs in hnRNP A1 might contribute to pathogenesis of MS.
A high order multi-resolution solver for the Poisson equation with application to vortex methods
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm; Spietz, Henrik Juul; Walther, Jens Honore
A high order method is presented for solving the Poisson equation subject to mixed free-space and periodic boundary conditions by using fast Fourier transforms (FFT). The high order convergence is achieved by deriving mollified Green’s functions from a high order regularization function which...
Highly ordered self-assembly of one-dimensional nanoparticles in amphiphilic molecular systems
International Nuclear Information System (INIS)
Kim, Tae Hwan
2009-02-01
Two kinds of one-dimensional (1D) nanoparticles, stable rod-like nanoparticles with highly controlled surface charge density (cROD) and non-covalently functionalized isolated single wall carbon nanotubes (p-SWNT) that were readily redispersible in water, have been developed. Using these 1D nanoparticles, various highly ordered superstructures of 1D nanoparticles by molecular self-assembling based on electrostatic interaction in amphiphilic molecular systems (two different cationic liposome systems) have been investigated. To our knowledge, this is the first demonstration of highly ordered self-assembly of 1D nanoparticles based on electrostatic interaction between 1D nanoparticles and amphiphilic molecules. The cRODs have been developed by free radical polymerization of a mixture of polymerizable cationic surfactant, cetyltrimethylammonium 4-vinylbenzoate (CTVB), and hydrotropic salt sodium 4-styrenesulfonate (NaSS) in aqueous solution. The surface charge of the cROD was controlled by varying the NaSS concentration during the polymerization process and the charge variation was interpreted in terms of the overcharging effect in colloidal systems. The small angle neutron scattering (SANS) measurements showed that the diameter of cROD is constant at 4 nm and the particle length ranges from 20 nm to 85 nm, depending on the NaSS concentration. The cRODs are longest when the NaSS concentration is 5 mol % which corresponds to the charge inversion or neutral point. The SANS and zeta potential measurements showed that the Coulomb interactions between the particles are strongly dependent on the NaSS concentration and the zeta potential of the cRODs changes from positive to negative (+ 12.8 mV ∼ - 44.2 mV) as the concentration of NaSS increases from 0 mol % to 40 mol %. As the NaSS concentration is further increased, the zeta potential is saturated at approximately - 50 mV. The p-SWNTs have been developed by 1) dispersing single wall carbon nanotubes (SWNTs) in water using
The hnRNP 2H9 gene, which is involved in the splicing reaction, is a multiply spliced gene
DEFF Research Database (Denmark)
Honoré, B
2000-01-01
The hnRNP 2H9 gene products are involved in the splicing process and participate in early heat shock-induced splicing arrest. By combining low/high stringency hybridisation, database search, Northern and Western blotting it is shown that the gene is alternatively spliced into at least six...
Imaginary geometric phases of quantum trajectories in high-order terahertz sideband generation
Yang, Fan; Liu, Ren-Bao
2014-03-01
Quantum evolution of particles under strong fields can be described by a small number of quantum trajectories that satisfy the stationary phase condition in the Dirac-Feynmann path integral. The quantum trajectories are the key concept to understand the high-order terahertz siedeband generation (HSG) in semiconductors. Due to the nontrivial ``vacuum'' states of band materials, the quantum trajectories of optically excited electron-hole pairs in semiconductors can accumulate geometric phases under the driving of an elliptically polarized THz field. We find that the geometric phase of the stationary trajectory is generally complex with both real and imaginary parts. In monolayer MoS2, the imaginary parts of the geometric phase leads to a changing of the polarization ellipticity of the sideband. We further show that the imaginary part originates from the quantum interference of many trajectories with different phases. Thus the observation of the polarization ellipticity of the sideband shall be a good indication of the quantum nature of the stationary trajectory. This work is supported by Hong Kong RGC/GRF 401512 and the CUHK Focused Investments Scheme.
High order Fuchsian equations for the square lattice Ising model: χ-tilde(5)
International Nuclear Information System (INIS)
Bostan, A; Boukraa, S; Guttmann, A J; Jensen, I; Hassani, S; Zenine, N; Maillard, J-M
2009-01-01
We consider the Fuchsian linear differential equation obtained (modulo a prime) for χ-tilde (5) , the five-particle contribution to the susceptibility of the square lattice Ising model. We show that one can understand the factorization of the corresponding linear differential operator from calculations using just a single prime. A particular linear combination of χ-tilde (1) and χ-tilde (3) can be removed from χ-tilde (5) and the resulting series is annihilated by a high order globally nilpotent linear ODE. The corresponding (minimal order) linear differential operator, of order 29, splits into factors of small orders. A fifth-order linear differential operator occurs as the left-most factor of the 'depleted' differential operator and it is shown to be equivalent to the symmetric fourth power of L E , the linear differential operator corresponding to the elliptic integral E. This result generalizes what we have found for the lower order terms χ-tilde (3) and χ-tilde (4) . We conjecture that a linear differential operator equivalent to a symmetric (n - 1) th power of L E occurs as a left-most factor in the minimal order linear differential operators for all χ-tilde (n) 's
Huang, Lili; Lu, Juan; Di, Bin; Feng, Fang; Su, Mengxiang; Yan, Fang
2011-09-01
Monodisperse spherical periodic mesoporous organosilicas (PMOs) with ethane integrated in the framework were synthesized and their application as stationary phase for chromatographic separation is demonstrated. The ethane-PMOs were prepared by condensation of 1,2-bis(triethoxysilyl)ethane (BTSE) in basic condition using octadecyltrimethylammonium chloride (C(18)TMACl) as template and ethanol as co-solvent. The morphology and mesoporous structure of ethane-PMOs were controlled under different concentrations of sodium hydroxide (NaOH) and EtOH. The results of scanning electron microscopy (SEM), transmission electron microscopy (TEM), powder X-ray diffraction (XRD), nitrogen sorption measurement, Fourier transform infrared spectroscopy (FT-IR) and elemental analysis showed that ethane-PMOs have spherical morphology, uniform particle distribution, highly ordered pore structure, high surface area and narrow pore-size distribution. The column packed with these materials exhibits good permeability, high chemical stability and good selectivity of mixtures of aromatic hydrocarbons in normal phase high-performance liquid chromatography (HPLC). Copyright © 2011 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
International Nuclear Information System (INIS)
Arroyo Gómez, José J.; Zubieta, Carolina; Ferullo, Ricardo M.; García, Silvana G.
2016-01-01
Graphical abstract: - Highlights: • The electrodeposition of Au on HOPG tends to follow the response predicted for a 3D instantaneous nucleation mechanism in the potential range considered. • By choosing suitable nucleation and growth pulses, one-dimensional deposits were possible, preferentially located on step edges of the HOPG substrate. • Quantum-mechanical calculations confirmed the tendency of Au atoms to join selectively on the HOPG step edges, at the early stages of Au electrodeposition. - Abstract: The electrochemical formation of Au nanoparticles on a highly ordered pyrolytic graphite (HOPG) substrate using conventional electrochemical techniques and ex-situ AFM is reported. From the potentiostatic current transients studies, the Au electrodeposition process on HOPG surfaces was described, within the potential range considered, by a model involving instantaneous nucleation and diffusion controlled 3D growth, which was corroborated by the microscopic analysis. Initially, three-dimensional (3D) hemispherical nanoparticles distributed on surface defects (step edges) of the substrate were observed, with increasing particle size at more negative potentials. The double potential pulse technique allowed the formation of rounded deposits at low deposition potentials, which tend to form lines of nuclei aligned in defined directions leading to 3D ordered structures. By choosing suitable nucleation and growth pulses, one-dimensional (1D) deposits were possible, preferentially located on step edges of the HOPG substrate. Quantum-mechanical calculations confirmed the tendency of Au atoms to join selectively on surface defects, such as the HOPG step edges, at the early stages of Au electrodeposition.
Gais, Zakkina; Afriansyah, Ekasatya Aldila
2017-01-01
This research aims to know the effect of prior mathematical students ability to solve on high order thinking questions looked by analysis question, evaluation question, creating question and genera question.This research also aims to know about students ability in solving high order thinking question and to know about the factors that cause students to be wrong in solving high order thinking questions. The research method that used is mixed method with embedded concurrent type. From the resu...
Practical aspects of spherical near-field antenna measurements using a high-order probe
DEFF Research Database (Denmark)
Laitinen, Tommi; Pivnenko, Sergey; Nielsen, Jeppe Majlund
2006-01-01
Two practical aspects related to accurate antenna pattern characterization by probe-corrected spherical near-field antenna measurements with a high-order probe are examined. First, the requirements set by an arbitrary high-order probe on the scanning technique are pointed out. Secondly, a channel...... balance calibration procedure for a high-order dual-port probe with non-identical ports is presented, and the requirements set by this procedure for the probe are discussed....
Formal Solutions for Polarized Radiative Transfer. II. High-order Methods
Energy Technology Data Exchange (ETDEWEB)
Janett, Gioele; Steiner, Oskar; Belluzzi, Luca, E-mail: gioele.janett@irsol.ch [Istituto Ricerche Solari Locarno (IRSOL), 6605 Locarno-Monti (Switzerland)
2017-08-20
When integrating the radiative transfer equation for polarized light, the necessity of high-order numerical methods is well known. In fact, well-performing high-order formal solvers enable higher accuracy and the use of coarser spatial grids. Aiming to provide a clear comparison between formal solvers, this work presents different high-order numerical schemes and applies the systematic analysis proposed by Janett et al., emphasizing their advantages and drawbacks in terms of order of accuracy, stability, and computational cost.
Structural basis for substrate placement by an archaeal box C/D ribonucleoprotein particle.
Xue, Song; Wang, Ruiying; Yang, Fangping; Terns, Rebecca M; Terns, Michael P; Zhang, Xinxin; Maxwell, E Stuart; Li, Hong
2010-09-24
Box C/D small nucleolar and Cajal body ribonucleoprotein particles (sno/scaRNPs) direct site-specific 2'-O-methylation of ribosomal and spliceosomal RNAs and are critical for gene expression. Here we report crystal structures of an archaeal box C/D RNP containing three core proteins (fibrillarin, Nop56/58, and L7Ae) and a half-mer box C/D guide RNA paired with a substrate RNA. The structure reveals a guide-substrate RNA duplex orientation imposed by a composite protein surface and the conserved GAEK motif of Nop56/58. Molecular modeling supports a dual C/D RNP structure that closely mimics that recently visualized by electron microscopy. The substrate-bound dual RNP model predicts an asymmetric protein distribution between the RNP that binds and methylates the substrate RNA. The predicted asymmetric nature of the holoenzyme is consistent with previous biochemical data on RNP assembly and provides a simple solution for accommodating base-pairing between the C/D guide RNA and large ribosomal and spliceosomal substrate RNAs. Copyright © 2010 Elsevier Inc. All rights reserved.
Learning High-Order Filters for Efficient Blind Deconvolution of Document Photographs
Xiao, Lei; Wang, Jue; Heidrich, Wolfgang; Hirsch, Michael
2016-01-01
by small-scale high-order structures, we propose to learn a multi-scale, interleaved cascade of shrinkage fields model, which contains a series of high-order filters to facilitate joint recovery of blur kernel and latent image. With extensive experiments
Convergency analysis of the high-order mimetic finite difference method
Energy Technology Data Exchange (ETDEWEB)
Lipnikov, Konstantin [Los Alamos National Laboratory; Veiga Da Beirao, L [UNIV DEGLI STUDI; Manzini, G [NON LANL
2008-01-01
We prove second-order convergence of the conservative variable and its flux in the high-order MFD method. The convergence results are proved for unstructured polyhedral meshes and full tensor diffusion coefficients. For the case of non-constant coefficients, we also develop a new family of high-order MFD methods. Theoretical result are confirmed through numerical experiments.
Directory of Open Access Journals (Sweden)
Vojislav S. Milosavljević
2010-01-01
Full Text Available Radi što adekvatnijeg odgovora na najnovije izazove tržišta vazdušnog prevoza javila se ideja da se aerodrom 'Batajnica' otvori i za civilni saobraćaj. Time bi se znatno promenila situacija u terminalnom vazdušnom prostoru, pa je potrebno razmotriti nove okolnosti i prema njima optimizovati terminalni prostor. Znatan deo optimizacije čini i definisanje procedura za prilaz i sletanje, kao i strateško razdvajanje prilaznih tokova. Predložene procedure konstruisane su primenom savremenih koncepcija i rešenja u civilnoj avijaciji: Performance-Based Navigation, Baro-VNAV i CDA, koja se vrlo uspešno već primenjuju širom sveta. / Introduction Numerous advantages of Performance-Based Navigation should be applied in reorganizing the terminal airspace around Belgrade after the opening of 'Batajnica' airport for civil operations. The concept of Performance-Based Navigation Contrary to conventional navigation which relies on navigation signals from ground navaids, PBN is predominantly based upon satellite navigation. RNP - Required Navigation Performance RNP is defined as a set of standards which specify required navigation performance accuracy of an aircraft in certain airspace. Some of its key features are monitoring of actually achieved navigational performances and navigation containment. Benefits and possible issues with RNP implementation Implementation of RNP leads to significant savings in fuel and time, it increases the efficiency of airspace and capacity, reduces ATC workload while on the other hand there are a number of issues that still should be addressed. Barometric Vertical Navigation (Baro-VNAV The essence of Baro-VNAV is calculation of the vertical component of a 3D flight path that aircraft should follow based on measured static pressure. CDA - Continuous Descent Approach By CDA, approach is flown with a constant gradient at minimal thrust instead of alternating descent and level flight with increased thrust as it is flown in
Han, Juan; Tang, Feng-ming; Pu, Dan; Xu, Dan; Wang, Tao; Li, Weimin
2014-01-01
Overexpression of heterogeneous nuclear ribonucleoprotein B1 (hnRNP B1), a nuclear RNA binding protein, has been reported to occur in early-stage lung cancer and in premalignant lesions. DNA-dependent protein kinase (DNA-PK) is known to be involved in the repair of double-strand DNA breaks. Reduced capacity to repair DNA has been associated with the risk of lung cancer. We investigated a link between hnRNP B1 and DNA-PK and their effects on proliferation, cell cycle, and apoptosis in the human lung adenocarcinoma cell line A549. We found that hnRNP B1 and DNA-PK interact with each other in a complex fashion. Reducing hnRNP B1 expression in A549 cells with the use of RNAi led to upregulation of p53 activity through upregulation of DNA-PK activity but without inducing p53 expression. Further, suppression of hnRNP B1 in A549 cells slowed cell proliferation, promoted apoptosis, and induced cell cycle arrest at the G1 stage. The presence of NU7026 reduced the arrest of cells at the G1 stage and reduced the apoptosis rate while promoting cell growth. Taken together, our results demonstrate that by regulating DNA-PK activity, hnRNP B1 can affect p53-mediated cell cycle progression and apoptosis, resulting in greater cell survival and subsequent proliferation.
A high-order time-accurate interrogation method for time-resolved PIV
International Nuclear Information System (INIS)
Lynch, Kyle; Scarano, Fulvio
2013-01-01
A novel method is introduced for increasing the accuracy and extending the dynamic range of time-resolved particle image velocimetry (PIV). The approach extends the concept of particle tracking velocimetry by multiple frames to the pattern tracking by cross-correlation analysis as employed in PIV. The working principle is based on tracking the patterned fluid element, within a chosen interrogation window, along its individual trajectory throughout an image sequence. In contrast to image-pair interrogation methods, the fluid trajectory correlation concept deals with variable velocity along curved trajectories and non-zero tangential acceleration during the observed time interval. As a result, the velocity magnitude and its direction are allowed to evolve in a nonlinear fashion along the fluid element trajectory. The continuum deformation (namely spatial derivatives of the velocity vector) is accounted for by adopting local image deformation. The principle offers important reductions of the measurement error based on three main points: by enlarging the temporal measurement interval, the relative error becomes reduced; secondly, the random and peak-locking errors are reduced by the use of least-squares polynomial fits to individual trajectories; finally, the introduction of high-order (nonlinear) fitting functions provides the basis for reducing the truncation error. Lastly, the instantaneous velocity is evaluated as the temporal derivative of the polynomial representation of the fluid parcel position in time. The principal features of this algorithm are compared with a single-pair iterative image deformation method. Synthetic image sequences are considered with steady flow (translation, shear and rotation) illustrating the increase of measurement precision. An experimental data set obtained by time-resolved PIV measurements of a circular jet is used to verify the robustness of the method on image sequences affected by camera noise and three-dimensional motions. In
Ji, Xing; Zhao, Fengxiang; Shyy, Wei; Xu, Kun
2018-03-01
Most high order computational fluid dynamics (CFD) methods for compressible flows are based on Riemann solver for the flux evaluation and Runge-Kutta (RK) time stepping technique for temporal accuracy. The advantage of this kind of space-time separation approach is the easy implementation and stability enhancement by introducing more middle stages. However, the nth-order time accuracy needs no less than n stages for the RK method, which can be very time and memory consuming due to the reconstruction at each stage for a high order method. On the other hand, the multi-stage multi-derivative (MSMD) method can be used to achieve the same order of time accuracy using less middle stages with the use of the time derivatives of the flux function. For traditional Riemann solver based CFD methods, the lack of time derivatives in the flux function prevents its direct implementation of the MSMD method. However, the gas kinetic scheme (GKS) provides such a time accurate evolution model. By combining the second-order or third-order GKS flux functions with the MSMD technique, a family of high order gas kinetic methods can be constructed. As an extension of the previous 2-stage 4th-order GKS, the 5th-order schemes with 2 and 3 stages will be developed in this paper. Based on the same 5th-order WENO reconstruction, the performance of gas kinetic schemes from the 2nd- to the 5th-order time accurate methods will be evaluated. The results show that the 5th-order scheme can achieve the theoretical order of accuracy for the Euler equations, and present accurate Navier-Stokes solutions as well due to the coupling of inviscid and viscous terms in the GKS formulation. In comparison with Riemann solver based 5th-order RK method, the high order GKS has advantages in terms of efficiency, accuracy, and robustness, for all test cases. The 4th- and 5th-order GKS have the same robustness as the 2nd-order scheme for the capturing of discontinuous solutions. The current high order MSMD GKS is a
High-order fractional partial differential equation transform for molecular surface construction.
Hu, Langhua; Chen, Duan; Wei, Guo-Wei
2013-01-01
Fractional derivative or fractional calculus plays a significant role in theoretical modeling of scientific and engineering problems. However, only relatively low order fractional derivatives are used at present. In general, it is not obvious what role a high fractional derivative can play and how to make use of arbitrarily high-order fractional derivatives. This work introduces arbitrarily high-order fractional partial differential equations (PDEs) to describe fractional hyperdiffusions. The fractional PDEs are constructed via fractional variational principle. A fast fractional Fourier transform (FFFT) is proposed to numerically integrate the high-order fractional PDEs so as to avoid stringent stability constraints in solving high-order evolution PDEs. The proposed high-order fractional PDEs are applied to the surface generation of proteins. We first validate the proposed method with a variety of test examples in two and three-dimensional settings. The impact of high-order fractional derivatives to surface analysis is examined. We also construct fractional PDE transform based on arbitrarily high-order fractional PDEs. We demonstrate that the use of arbitrarily high-order derivatives gives rise to time-frequency localization, the control of the spectral distribution, and the regulation of the spatial resolution in the fractional PDE transform. Consequently, the fractional PDE transform enables the mode decomposition of images, signals, and surfaces. The effect of the propagation time on the quality of resulting molecular surfaces is also studied. Computational efficiency of the present surface generation method is compared with the MSMS approach in Cartesian representation. We further validate the present method by examining some benchmark indicators of macromolecular surfaces, i.e., surface area, surface enclosed volume, surface electrostatic potential and solvation free energy. Extensive numerical experiments and comparison with an established surface model
High-Order Calderón Preconditioned Time Domain Integral Equation Solvers
Valdes, Felipe
2013-05-01
Two high-order accurate Calderón preconditioned time domain electric field integral equation (TDEFIE) solvers are presented. In contrast to existing Calderón preconditioned time domain solvers, the proposed preconditioner allows for high-order surface representations and current expansions by using a novel set of fully-localized high-order div-and quasi curl-conforming (DQCC) basis functions. Numerical results demonstrate that the linear systems of equations obtained using the proposed basis functions converge rapidly, regardless of the mesh density and of the order of the current expansion. © 1963-2012 IEEE.
High-Order Calderón Preconditioned Time Domain Integral Equation Solvers
Valdes, Felipe; Ghaffari-Miab, Mohsen; Andriulli, Francesco P.; Cools, Kristof; Michielssen,
2013-01-01
Two high-order accurate Calderón preconditioned time domain electric field integral equation (TDEFIE) solvers are presented. In contrast to existing Calderón preconditioned time domain solvers, the proposed preconditioner allows for high-order surface representations and current expansions by using a novel set of fully-localized high-order div-and quasi curl-conforming (DQCC) basis functions. Numerical results demonstrate that the linear systems of equations obtained using the proposed basis functions converge rapidly, regardless of the mesh density and of the order of the current expansion. © 1963-2012 IEEE.
Generation of High-order Group-velocity-locked Vector Solitons
Jin, X. X.; Wu, Z. C.; Zhang, Q.; Li, L.; Tang, D. Y.; Shen, D. Y.; Fu, S. N.; Liu, D. M.; Zhao, L. M.
2015-01-01
We report numerical simulations on the high-order group-velocity-locked vector soliton (GVLVS) generation based on the fundamental GVLVS. The high-order GVLVS generated is characterized with a two-humped pulse along one polarization while a single-humped pulse along the orthogonal polarization. The phase difference between the two humps could be 180 degree. It is found that by appropriate setting the time separation between the two components of the fundamental GVLVS, the high-order GVLVS wit...
International Nuclear Information System (INIS)
Quaresma, Alexandre J.C.; Bressan, G.C.; Gava, L.M.; Lanza, D.C.F.; Ramos, C.H.I; Kobarg, Joerg
2009-01-01
Eukaryotic gene expression is regulated on different levels ranging from pre-mRNA processing to translation. One of the most characterized families of RNA-binding proteins is the group of hnRNPs: heterogenous nuclear ribonucleoproteins. Members of this protein family play important roles in gene expression control and mRNAs metabolism. In the cytoplasm, several hnRNPs proteins are involved in RNA-related processes and they can be frequently found in two specialized structures, known as GW-bodies (GWbs), previously known as processing bodies: PBs, and stress granules, which may be formed in response to specific stimuli. GWbs have been early reported to be involved in the mRNA decay process, acting as a site of mRNA degradation. In a similar way, stress granules (SGs) have been described as cytoplasmic aggregates, which contain accumulated mRNAs in cells under stress conditions and present reduced or inhibited translation. Here, we characterized the hnRNP Q localization after different stress conditions. hnRNP Q is a predominantly nuclear protein that exhibits a modular organization and several RNA-related functions. Our data suggest that the nuclear localization of hnRNP Q might be modified after different treatments, such as: PMA, thapsigargin, arsenite and heat shock. Under different stress conditions, hnRNP Q can fully co-localize with the endoplasmatic reticulum specific chaperone, BiP. However, under stress, this protein only co-localizes partially with the proteins: GW182 - GWbs marker protein and TIA-1 stress granule component
Directory of Open Access Journals (Sweden)
Andreas eWachter
2012-05-01
Full Text Available Alternative precursor mRNA splicing is a widespread phenomenon in multicellular eukaryotes and represents a major means for functional expansion of the transcriptome. While several recent studies have revealed an important link between splicing regulation and fundamental biological processes in plants, many important aspects, such as the underlying splicing regulatory mechanisms, are so far not well understood. Splicing decisions are in general based on a splicing code that is determined by the dynamic interplay of splicing-controlling factors and cis-regulatory elements. Several members of the group of heterogeneous nuclear ribonucleoprotein (hnRNP proteins are well-known regulators of splicing in animals and the comparatively few reports on some of their plant homologues revealed similar functions. This also applies to polypyrimidine tract-binding proteins (PTBs, a thoroughly investigated class of hnRNP proteins with splicing regulatory functions in both animals and plants. Further examples from plants are auto- and cross-regulatory splicing circuits of glycine-rich RNA-binding proteins (GRPs and splicing enhancement by oligouridylatebinding proteins. Besides their role in defining splice site choice, hnRNP proteins are also involved in multiple other steps of nucleic acid metabolism, highlighting the functional versatility of this group of proteins in higher eukaryotes.
Genome-wide analysis of KAP1, the 7SK snRNP complex, and RNA polymerase II
Directory of Open Access Journals (Sweden)
Ryan P. McNamara
2016-03-01
Full Text Available The transition of RNA polymerase II (Pol II from transcription initiation into productive elongation in eukaryotic cells is regulated by the P-TEFb kinase, which phosphorylates the C-terminal domain of paused Pol II at promoter-proximal regions. Our recent study found that P-TEFb (in an inhibited state bound to the 7SK snRNP complex interacts with the KAP1/TRIM28 transcriptional regulator, and that KAP1 and the 7SK snRNP co-occupy most gene promoters containing paused Pol II. Here we provide a detailed experimental description and analysis of the ChIP-seq datasets that have been deposited into Gene Expression Omnibus (GEO: GS72622, so that independent groups can replicate and expand upon these findings. We propose these datasets would provide valuable information for researchers studying mechanisms of transcriptional regulation including Pol II pausing and pause release. Keywords: P-TEFb/7SK snRNP, KAP1, RNA polymerase II, ChIP-seq, Transcription elongation
CSIR Research Space (South Africa)
Belyi, VN
2011-05-01
Full Text Available The authors investigate the generation and transformation of Bessel beams through linear and nonlinear optical crystals. They outline the generation of high-order vortices due to propagation of Bessel beams along the optical axis of uniaxial...
Duru, Kenneth; Virta, Kristoffer
2014-01-01
to be discontinuous. The key feature is the highly accurate and provably stable treatment of interfaces where media discontinuities arise. We discretize in space using high order accurate finite difference schemes that satisfy the summation by parts rule. Conditions
A Novel Method for Decoding Any High-Order Hidden Markov Model
Directory of Open Access Journals (Sweden)
Fei Ye
2014-01-01
Full Text Available This paper proposes a novel method for decoding any high-order hidden Markov model. First, the high-order hidden Markov model is transformed into an equivalent first-order hidden Markov model by Hadar’s transformation. Next, the optimal state sequence of the equivalent first-order hidden Markov model is recognized by the existing Viterbi algorithm of the first-order hidden Markov model. Finally, the optimal state sequence of the high-order hidden Markov model is inferred from the optimal state sequence of the equivalent first-order hidden Markov model. This method provides a unified algorithm framework for decoding hidden Markov models including the first-order hidden Markov model and any high-order hidden Markov model.
Guo, Zhongyi; Zhu, Lie; Guo, Kai; Shen, Fei; Yin, Zhiping
2017-08-01
In this paper, a high-order dielectric metasurface based on silicon nanobrick array is proposed and investigated. By controlling the length and width of the nanobricks, the metasurfaces could supply two different incremental transmission phases for the X-linear-polarized (XLP) and Y-linear-polarized (YLP) light with extremely high efficiency over 88%. Based on the designed metasurface, two polarization beam splitters working in high-order diffraction modes have been designed successfully, which demonstrated a high transmitted efficiency. In addition, we have also designed two vortex-beam generators working in high-order diffraction modes to create vortex beams with the topological charges of 2 and 3. The employment of dielectric metasurfaces operating in high-order diffraction modes could pave the way for a variety of new ultra-efficient optical devices.
High-Order Quadratures for the Solution of Scattering Problems in Two Dimensions
National Research Council Canada - National Science Library
Duan, Ran; Rokhlin, Vladimir
2008-01-01
.... The scheme is based on the combination of high-order quadrature formulae, fast application of integral operators in Lippmann-Schwinger equations, and the stabilized biconjugate gradient method (BI-CGSTAB...
Technical Training on High-Order Spectral Analysis and Thermal Anemometry Applications
Maslov, A. A.; Shiplyuk, A. N.; Sidirenko, A. A.; Bountin, D. A.
2003-01-01
The topics of thermal anemometry and high-order spectral analyses were the subject of the technical training. Specifically, the objective of the technical training was to study: (i) the recently introduced constant voltage anemometer (CVA) for high-speed boundary layer; and (ii) newly developed high-order spectral analysis techniques (HOSA). Both CVA and HOSA are relevant tools for studies of boundary layer transition and stability.
Influence of Misalignment on High-Order Aberration Correction for Normal Human Eyes
Zhao, Hao-Xin; Xu, Bing; Xue, Li-Xia; Dai, Yun; Liu, Qian; Rao, Xue-Jun
2008-04-01
Although a compensation device can correct aberrations of human eyes, the effect will be degraded by its misalignment, especially for high-order aberration correction. We calculate the positioning tolerance of correction device for high-order aberrations, and within what degree the correcting effect is better than low-order aberration (defocus and astigmatism) correction. With fixed certain misalignment within the positioning tolerance, we calculate the residual wavefront rms aberration of the first-6 to first-35 terms along with the 3rd-5th terms of aberrations corrected, and the combined first-13 terms of aberrations are also studied under the same quantity of misalignment. However, the correction effect of high-order aberrations does not meliorate along with the increase of the high-order terms under some misalignment, moreover, some simple combined terms correction can achieve similar result as complex combinations. These results suggest that it is unnecessary to correct too much the terms of high-order aberrations which are difficult to accomplish in practice, and gives confidence to correct high-order aberrations out of the laboratory.
High-brightness high-order harmonic generation at 13 nm with a long gas jet
International Nuclear Information System (INIS)
Kim, Hyung Taek; Kim, I Jong; Lee, Dong Gun; Park, Jong Ju; Hong, Kyung Han; Nam, Chang Hee
2002-01-01
The generation of high-order harmonics is well-known method producing coherent extreme-ultraviolet radiation with pulse duration in the femtosecond regime. High-order harmonics have attracted much attention due to their unique features such as coherence, ultrashort pulse duration, and table-top scale system. Due to these unique properties, high-order harmonics have many applications of atomic and molecular spectroscopy, plasma diagnostics and solid-state physics. Bright generation of high-order harmonics is important for actual applications. Especially, the generation of strong well-collimated harmonics at 13 nm can be useful for the metrology of EUV lithography optics because of the high reflectivity of Mo-Si mirrors at this wavelength. The generation of bright high-order harmonics is rather difficult in the wavelength region below 15nm. Though argon and xenon gases have large conversion efficiency, harmonic generation from these gases is restricted to wavelengths over 20 nm due to low ionization potential. Hence, we choose neon for the harmonic generation around 13 nm; it has larger conversion efficiency than helium and higher ionization potential than argon. In this experiment, we have observed enhanced harmonic generation efficiency and low beam divergence of high-order harmonics from a elongated neon gas jet by the enhancement of laser propagation in an elongated gas jet. A uniform plasma column was produced when the gas jet was exposed to converging laser pulses.
Influence of Misalignment on High-Order Aberration Correction for Normal Human Eyes
International Nuclear Information System (INIS)
Hao-Xin, Zhao; Bing, Xu; Li-Xia, Xue; Yun, Dai; Qian, Liu; Xue-Jun, Rao
2008-01-01
Although a compensation device can correct aberrations of human eyes, the effect will be degraded by its misalignment, especially for high-order aberration correction. We calculate the positioning tolerance of correction device for high-order aberrations, and within what degree the correcting effect is better than low-order aberration (defocus and astigmatism) correction. With fixed certain misalignment within the positioning tolerance, we calculate the residual wavefront rms aberration of the first-6 to first-35 terms along with the 3rd-5th terms of aberrations corrected, and the combined first-13 terms of aberrations are also studied under the same quantity of misalignment. However, the correction effect of high-order aberrations does not meliorate along with the increase of the high-order terms under some misalignment, moreover, some simple combined terms correction can achieve similar result as complex combinations. These results suggest that it is unnecessary to correct too much the terms of high-order aberrations which are difficult to accomplish in practice, and gives confidence to correct high-order aberrations out of the laboratory
Directory of Open Access Journals (Sweden)
L. Iaccarino
2011-09-01
Full Text Available Objective: To investigate the reliability of the immunoblot method in the detection of serum immunoreactivity towards the B/B’ polypeptides of U small nuclear ribonucleoproteins (UsnRNP and to assess the significance of these antibodies in connective tissue disease (CTD patients. Methods: We tested the sera of 348 patients with CTD (101 SLE, 51 systemic sclerosis, 53 primary Sjogren’s syndrome, 27 poly/dermatomyositis, 15 rheumatoid arthritis and 101 overlap CTD, of 31 matched healthy subjects and 13 patients with primary Epstein-Barr virus (EBV infection with high titre IgG anti-EBV antibodies. IgG anti-UsnRNP antibodies were determined by immunoblotting on nuclear extract from Raji cells (an EBV-immortalised human B lymphoid cell line and Jurkat cells (a human T lymphoid cell line. Anti-dsDNA antibodies were detected by indirect immunofluorescence on Crithidia luciliae and anti-ENA by counterimmunoelectrophoresis. Anti-dsDNA activity and avidity were measured in SLE sera by ELISA with Scatchard analysis. Results were statistically analysed by chi-square and Mann-Whitney tests. Results: A high frequency of anti-B/B’ antibodies was found in the sera of CTD patients, confined to SLE (54.4% and overlap CTD with SLE features (55,2%. Anti-B/B’ immune reactivity was closely associated with other anti-UsnRNP specificities, gel precipitating anti-nRNP and anti-P antibodies. Nine out of 15 (60% anti-B/B’ positive/anti-ENA negative lupus sera on Raji blots were confirmed to be positive also on Jurkat blots. The sera from patients with EBV infection provided, on Raji blots, completely different band patterns from those obtained with auto-immune sera. Conclusions. The Sm B/B’ proteins are the predominant or, at least, the most frequently targeted antigens of the UsnRNP auto-immune response in SLE and “lupus-like” overlap CTD. Moreover, anti-B/B’ is diagnostically specific for CTD with SLE features. Immunoblotting on human B lymphoid cells
U1 snRNP Alteration and Neuronal Cell Cycle Reentry in Alzheimer Disease
Directory of Open Access Journals (Sweden)
Bing Bai
2018-03-01
Full Text Available The aberrancy of U1 small nuclear ribonucleoprotein (snRNP complex and RNA splicing has been demonstrated in Alzheimer’s disease (AD. Importantly, the U1 proteopathy is AD-specific, widespread and early-occurring, thus providing a very unique clue to the AD pathogenesis. The prominent feature of U1 histopathology is its nuclear depletion and redistribution in the neuronal cytoplasm. According to the preliminary data, the initial U1 cytoplasmic distribution pattern is similar to the subcellular translocation of the spliceosome in cells undergoing mitosis. This implies that the U1 mislocalization might reflect the neuronal cell cycle-reentry (CCR which has been extensively evidenced in AD brains. The CCR phenomenon explains the major molecular and cellular events in AD brains, such as Tau and amyloid precursor protein (APP phosphorylation, and the possible neuronal death through mitotic catastrophe (MC. Furthermore, the CCR might be mechanistically linked to inflammation, a critical factor in the AD etiology according to the genetic evidence. Therefore, the discovery of U1 aberrancy might strengthen the involvement of CCR in the AD neuronal degeneration.
Tumor Classification Using High-Order Gene Expression Profiles Based on Multilinear ICA
Directory of Open Access Journals (Sweden)
Ming-gang Du
2009-01-01
Full Text Available Motivation. Independent Components Analysis (ICA maximizes the statistical independence of the representational components of a training gene expression profiles (GEP ensemble, but it cannot distinguish relations between the different factors, or different modes, and it is not available to high-order GEP Data Mining. In order to generalize ICA, we introduce Multilinear-ICA and apply it to tumor classification using high order GEP. Firstly, we introduce the basis conceptions and operations of tensor and recommend Support Vector Machine (SVM classifier and Multilinear-ICA. Secondly, the higher score genes of original high order GEP are selected by using t-statistics and tabulate tensors. Thirdly, the tensors are performed by Multilinear-ICA. Finally, the SVM is used to classify the tumor subtypes. Results. To show the validity of the proposed method, we apply it to tumor classification using high order GEP. Though we only use three datasets, the experimental results show that the method is effective and feasible. Through this survey, we hope to gain some insight into the problem of high order GEP tumor classification, in aid of further developing more effective tumor classification algorithms.
Somarelli, J A; Mesa, A; Rodriguez, R; Avellan, R; Martinez, L; Zang, Y J; Greidinger, E L; Herrera, R J
2011-03-01
Systemic lupus erythematosus (SLE) and mixed connective tissue disease (MCTD) are autoimmune illnesses characterized by the presence of high titers of autoantibodies directed against a wide range of 'self ' antigens. Proteins of the U1 small nuclear ribonucleoprotein particle (U1 snRNP) are among the most immunogenic molecules in patients with SLE and MCTD. The recent release of a crystallized U1 snRNP provides a unique opportunity to evaluate the effects of tertiary and quaternary structures on autoantigenicity within the U1 snRNP. In the present study, an epitope map was created using the U1 snRNP crystal structure. A total of 15 peptides were tested in a cohort of 68 patients with SLE, 29 with MCTD and 26 healthy individuals and mapped onto the U1 snRNP structure. Antigenic sites were detected in a variety of structures and appear to include RNA binding domains, but mostly exclude regions necessary for protein-protein interactions. These data suggest that while some autoantibodies may target U1 snRNP proteins as monomers or apoptosis-induced, protease-digested fragments, others may recognize epitopes on assembled protein subcomplexes of the U1 snRNP. Although nearly all of the peptides are strong predictors of autoimmune illness, none were successful at distinguishing between SLE and MCTD. The antigenicity of some peptides significantly correlated with several clinical symptoms. This investigation implicitly highlights the complexities of autoimmune epitopes, and autoimmune illnesses in general, and demonstrates the variability of antigens in patient populations, all of which contribute to difficult clinical diagnoses.
Compact high order schemes with gradient-direction derivatives for absorbing boundary conditions
Gordon, Dan; Gordon, Rachel; Turkel, Eli
2015-09-01
We consider several compact high order absorbing boundary conditions (ABCs) for the Helmholtz equation in three dimensions. A technique called "the gradient method" (GM) for ABCs is also introduced and combined with the high order ABCs. GM is based on the principle of using directional derivatives in the direction of the wavefront propagation. The new ABCs are used together with the recently introduced compact sixth order finite difference scheme for variable wave numbers. Experiments on problems with known analytic solutions produced very accurate results, demonstrating the efficacy of the high order schemes, particularly when combined with GM. The new ABCs are then applied to the SEG/EAGE Salt model, showing the advantages of the new schemes.
High-order conservative discretizations for some cases of the rigid body motion
International Nuclear Information System (INIS)
Kozlov, Roman
2008-01-01
Modified vector fields can be used to construct high-order structure-preserving numerical integrators for ordinary differential equations. In the present Letter we consider high-order integrators based on the implicit midpoint rule, which conserve quadratic first integrals. It is shown that these integrators are particularly suitable for the rigid body motion with an additional quadratic first integral. In this case high-order integrators preserve all four first integrals of motion. The approach is illustrated on the Lagrange top (a rotationally symmetric rigid body with a fixed point on the symmetry axis). The equations of motion are considered in the space fixed frame because in this frame Lagrange top admits a neat description. The Lagrange top motion includes the spherical pendulum and the planar pendulum, which swings in a vertical plane, as particular cases
High-order harmonic propagation in gases within the discrete dipole approximation
International Nuclear Information System (INIS)
Hernandez-Garcia, C.; Perez-Hernandez, J. A.; Ramos, J.; Jarque, E. Conejero; Plaja, L.; Roso, L.
2010-01-01
We present an efficient approach for computing high-order harmonic propagation based on the discrete dipole approximation. In contrast with other approaches, our strategy is based on computing the total field as the superposition of the driving field with the field radiated by the elemental emitters of the sample. In this way we avoid the numerical integration of the wave equation, as Maxwell's equations have an analytical solution for an elementary (pointlike) emitter. The present strategy is valid for low-pressure gases interacting with strong fields near the saturation threshold (i.e., partially ionized), which is a common situation in the experiments of high-order harmonic generation. We use this tool to study the dependence of phase matching of high-order harmonics with the relative position between the beam focus and the gas jet.
Polarization control of high order harmonics in the EUV photon energy range.
Vodungbo, Boris; Barszczak Sardinha, Anna; Gautier, Julien; Lambert, Guillaume; Valentin, Constance; Lozano, Magali; Iaquaniello, Grégory; Delmotte, Franck; Sebban, Stéphane; Lüning, Jan; Zeitoun, Philippe
2011-02-28
We report the generation of circularly polarized high order harmonics in the extreme ultraviolet range (18-27 nm) from a linearly polarized infrared laser (40 fs, 0.25 TW) focused into a neon filled gas cell. To circularly polarize the initially linearly polarized harmonics we have implemented a four-reflector phase-shifter. Fully circularly polarized radiation has been obtained with an efficiency of a few percents, thus being significantly more efficient than currently demonstrated direct generation of elliptically polarized harmonics. This demonstration opens up new experimental capabilities based on high order harmonics, for example, in biology and materials science. The inherent femtosecond time resolution of high order harmonic generating table top laser sources renders these an ideal tool for the investigation of ultrafast magnetization dynamics now that the magnetic circular dichroism at the absorption M-edges of transition metals can be exploited.
Giant Faraday Rotation of High-Order Plasmonic Modes in Graphene-Covered Nanowires.
Kuzmin, Dmitry A; Bychkov, Igor V; Shavrov, Vladimir G; Temnov, Vasily V
2016-07-13
Plasmonic Faraday rotation in nanowires manifests itself in the rotation of the spatial intensity distribution of high-order surface plasmon polariton (SPP) modes around the nanowire axis. Here we predict theoretically the giant Faraday rotation for SPPs propagating on graphene-coated magneto-optically active nanowires. Upon the reversal of the external magnetic field pointing along the nanowire axis some high-order plasmonic modes may be rotated by up to ∼100° on the length scale of about 500 nm at mid-infrared frequencies. Tuning the carrier concentration in graphene by chemical doping or gate voltage allows for controlling SPP-properties and notably the rotation angle of high-order azimuthal modes. Our results open the door to novel plasmonic applications ranging from nanowire-based Faraday isolators to the magnetic control in quantum-optical applications.
Energy Technology Data Exchange (ETDEWEB)
Wang, Yimeng; Zhou, Jianhong; Du, Yuchun, E-mail: ydu@uark.edu
2014-01-20
The NS1 protein of influenza viruses is a major virulence factor and exerts its function through interacting with viral/cellular RNAs and proteins. In this study, we identified heterogeneous nuclear ribonucleoprotein A2/B1 (hnRNP A2/B1) as an interacting partner of NS1 proteins by a proteomic method. Knockdown of hnRNP A2/B1 by small interfering RNA (siRNA) resulted in higher levels of NS vRNA, NS1 mRNA, and NS1 protein in the virus-infected cells. In addition, we demonstrated that hnRNP A2/B1 proteins are associated with NS1 and NS2 mRNAs and that knockdown of hnRNP A2/B1 promotes transport of NS1 mRNA from the nucleus to the cytoplasm in the infected cells. Lastly, we showed that knockdown of hnRNP A2/B1 leads to enhanced virus replication. Our results suggest that hnRNP A2/B1 plays an inhibitory role in the replication of influenza A virus in host cells potentially through suppressing NS1 RNA/protein levels and NS1 mRNA nucleocytoplasmic translocation. - Highlights: • Cellular protein hnRNP A2/B1 interacts with influenza viral protein NS1. • hnRNP A2/B1 suppresses the levels of NS1 protein, vRNA and mRNA in infected cells. • hnRNP A2/B1 protein is associated with NS1 and NS2 mRNAs. • hnRNP A2/B1 inhibits the nuclear export of NS1 mRNAs. • hnRNP A2/B1 inhibits influenza virus replication.
High order scheme for the non-local transport in ICF plasmas
Energy Technology Data Exchange (ETDEWEB)
Feugeas, J.L.; Nicolai, Ph.; Schurtz, G. [Bordeaux-1 Univ., Centre Lasers Intenses et Applications (UMR 5107), 33 - Talence (France); Charrier, P.; Ahusborde, E. [Bordeaux-1 Univ., MAB, 33 - Talence (France)
2006-06-15
A high order practical scheme for a model of non-local transport is here proposed to be used in multidimensional radiation hydrodynamic codes. A high order scheme is necessary to solve non-local problems on strongly deformed meshes that are on hot point or ablation front zones. It is shown that the errors made by a classical 5 point scheme on a disturbed grid can be of the same order of magnitude as the non-local effects. The use of a 9 point scheme in a simulation of inertial confinement fusion appears to be essential.
On the exact solutions of high order wave equations of KdV type (I)
Bulut, Hasan; Pandir, Yusuf; Baskonus, Haci Mehmet
2014-12-01
In this paper, by means of a proper transformation and symbolic computation, we study high order wave equations of KdV type (I). We obtained classification of exact solutions that contain soliton, rational, trigonometric and elliptic function solutions by using the extended trial equation method. As a result, the motivation of this paper is to utilize the extended trial equation method to explore new solutions of high order wave equation of KdV type (I). This method is confirmed by applying it to this kind of selected nonlinear equations.
High-Order Entropy Stable Finite Difference Schemes for Nonlinear Conservation Laws: Finite Domains
Fisher, Travis C.; Carpenter, Mark H.
2013-01-01
Developing stable and robust high-order finite difference schemes requires mathematical formalism and appropriate methods of analysis. In this work, nonlinear entropy stability is used to derive provably stable high-order finite difference methods with formal boundary closures for conservation laws. Particular emphasis is placed on the entropy stability of the compressible Navier-Stokes equations. A newly derived entropy stable weighted essentially non-oscillatory finite difference method is used to simulate problems with shocks and a conservative, entropy stable, narrow-stencil finite difference approach is used to approximate viscous terms.
Study of a high-order-mode gyrotron traveling-wave amplifier
International Nuclear Information System (INIS)
Chiu, C. C.; Tsai, C. Y.; Kao, S. H.; Chu, K. R.; Barnett, L. R.; Luhmann, N. C. Jr.
2010-01-01
Physics and performance issues of a TE 01 -mode gyrotron traveling-wave amplifier are studied in theory. For a high order mode, absolute instabilities on neighboring modes at the fundamental and higher cyclotron harmonic frequencies impose severe constraints to the device capability. Methods for their stabilization are outlined, on the basis of which the performance characteristics are examined in a multidimensional parameter space under the marginal stability criterion. The results demonstrate the viability of a high-order-mode traveling-wave amplifier and provide a roadmap for design tradeoffs among power, bandwidth, and efficiency. General trends are observed and illustrated with specific examples.
Computational Aero-Acoustic Using High-order Finite-Difference Schemes
DEFF Research Database (Denmark)
Zhu, Wei Jun; Shen, Wen Zhong; Sørensen, Jens Nørkær
2007-01-01
are solved using the in-house flow solver EllipSys2D/3D which is a second-order finite volume code. The acoustic solution is found by solving the acoustic equations using high-order finite difference schemes. The incompressible flow equations and the acoustic equations are solved at the same time levels......In this paper, a high-order technique to accurately predict flow-generated noise is introduced. The technique consists of solving the viscous incompressible flow equations and inviscid acoustic equations using a incompressible/compressible splitting technique. The incompressible flow equations...
Wave-mixing with high-order harmonics in extreme ultraviolet region
International Nuclear Information System (INIS)
Dao, Lap Van; Dinh, Khuong Ba; Le, Hoang Vu; Gaffney, Naylyn; Hannaford, Peter
2015-01-01
We report studies of the wave-mixing process in the extreme ultraviolet region with two near-infrared driving and controlling pulses with incommensurate frequencies (at 1400 nm and 800 nm). A non-collinear scheme for the two beams is used in order to spatially separate and to characterise the properties of the high-order wave-mixing field. We show that the extreme ultraviolet frequency mixing can be treated by perturbative, very high-order nonlinear optics; the modification of the wave-packet of the free electron needs to be considered in this process
Phase matching of high-order harmonics in a semi-infinite gas cell
International Nuclear Information System (INIS)
Steingrube, Daniel S.; Vockerodt, Tobias; Schulz, Emilia; Morgner, Uwe; Kovacev, Milutin
2009-01-01
Phase matching of high-order harmonic generation is investigated experimentally for various parameters in a semi-infinite gas-cell (SIGC) geometry. The optimized harmonic yield is identified using two different noble gases (Xe and He) and its parameter dependence is studied in a systematic way. Beside the straightforward setup of the SIGC, this geometry promises a high photon flux due to a large interaction region. Moreover, since the experimental parameters within this cell are known accurately, direct comparison to simulations is performed. Spectral splitting and blueshift of high-order harmonics are observed.
Nuclear material enrichment identification method based on cross-correlation and high order spectra
International Nuclear Information System (INIS)
Yang Fan; Wei Biao; Feng Peng; Mi Deling; Ren Yong
2013-01-01
In order to enhance the sensitivity of nuclear material identification system (NMIS) against the change of nuclear material enrichment, the principle of high order statistic feature is introduced and applied to traditional NMIS. We present a new enrichment identification method based on cross-correlation and high order spectrum algorithm. By applying the identification method to NMIS, the 3D graphs with nuclear material character are presented and can be used as new signatures to identify the enrichment of nuclear materials. The simulation result shows that the identification method could suppress the background noises, electronic system noises, and improve the sensitivity against enrichment change to exponential order with no system structure modification. (authors)
The hnRNP-Q protein LIF2 participates in the plant immune response.
Directory of Open Access Journals (Sweden)
Clémentine Le Roux
Full Text Available Eukaryotes have evolved complex defense pathways to combat invading pathogens. Here, we investigated the role of the Arabidopsis thaliana heterogeneous nuclear ribonucleoprotein (hnRNP-Q LIF2 in the plant innate immune response. We show that LIF2 loss-of-function in A. thaliana leads to changes in the basal expression of the salicylic acid (SA- and jasmonic acid (JA- dependent defense marker genes PR1 and PDF1.2, respectively. Whereas the expression of genes involved in SA and JA biosynthesis and signaling was also affected in the lif2-1 mutant, no change in SA and JA hormonal contents was detected. In addition, the composition of glucosinolates, a class of defense-related secondary metabolites, was altered in the lif2-1 mutant in the absence of pathogen challenge. The lif2-1 mutant exhibited reduced susceptibility to the hemi-biotrophic pathogen Pseudomonas syringae and the necrotrophic ascomycete Botrytis cinerea. Furthermore, the lif2-1 sid2-2 double mutant was less susceptible than the wild type to P. syringae infection, suggesting that the lif2 response to pathogens was independent of SA accumulation. Together, our data suggest that lif2-1 exhibits a basal primed defense state, resulting from complex deregulation of gene expression, which leads to increased resistance to pathogens with various infection strategies. Therefore, LIF2 may function as a suppressor of cell-autonomous immunity. Similar to its human homolog, NSAP1/SYNCRIP, a trans-acting factor involved in both cellular processes and the viral life cycle, LIF2 may regulate the conflicting aspects of development and defense programs, suggesting that a conserved evolutionary trade-off between growth and defense pathways exists in eukaryotes.
Differential expression of THOC1 and ALY mRNP biogenesis/export factors in human cancers
International Nuclear Information System (INIS)
Domínguez-Sánchez, María S; Sáez, Carmen; Japón, Miguel A; Aguilera, Andrés; Luna, Rosa
2011-01-01
One key step in gene expression is the biogenesis of mRNA ribonucleoparticle complexes (mRNPs). Formation of the mRNP requires the participation of a number of conserved factors such as the THO complex. THO interacts physically and functionally with the Sub2/UAP56 RNA-dependent ATPase, and the Yra1/REF1/ALY RNA-binding protein linking transcription, mRNA export and genome integrity. Given the link between genome instability and cancer, we have performed a comparative analysis of the expression patterns of THOC1, a THO complex subunit, and ALY in tumor samples. The mRNA levels were measured by quantitative real-time PCR and hybridization of a tumor tissue cDNA array; and the protein levels and distribution by immunostaining of a custom tissue array containing a set of paraffin-embedded samples of different tumor and normal tissues followed by statistical analysis. We show that the expression of two mRNP factors, THOC1 and ALY are altered in several tumor tissues. THOC1 mRNA and protein levels are up-regulated in ovarian and lung tumors and down-regulated in those of testis and skin, whereas ALY is altered in a wide variety of tumors. In contrast to THOC1, ALY protein is highly detected in normal proliferative cells, but poorly in high-grade cancers. These results suggest a differential connection between tumorogenesis and the expression levels of human THO and ALY. This study opens the possibility of defining mRNP biogenesis factors as putative players in cell proliferation that could contribute to tumor development
Energy Technology Data Exchange (ETDEWEB)
Leder, Verena [Molecular Cell Physiology, Faculty of Biology, Bielefeld University (Germany); Biomolecular Photonics, Faculty of Physics, Bielefeld University (Germany); Lummer, Martina [Molecular Cell Physiology, Faculty of Biology, Bielefeld University (Germany); Tegeler, Kathrin [Molecular Cell Physiology, Faculty of Biology, Bielefeld University (Germany); Biomolecular Photonics, Faculty of Physics, Bielefeld University (Germany); Humpert, Fabian [Biomolecular Photonics, Faculty of Physics, Bielefeld University (Germany); Lewinski, Martin [Molecular Cell Physiology, Faculty of Biology, Bielefeld University (Germany); Schüttpelz, Mark [Biomolecular Photonics, Faculty of Physics, Bielefeld University (Germany); Staiger, Dorothee, E-mail: dorothee.staiger@uni-bielefeld.de [Molecular Cell Physiology, Faculty of Biology, Bielefeld University (Germany)
2014-10-10
Highlights: • We use FCS to investigate binding site requirements for the hnRNP-like protein AtGRP7. • We identify three nucleotides critical for AtGRP7 binding to its own intron. • Mutation of the conserved R{sup 49} abolishes binding altogether. • The paralogue AtGRP8 binds to an overlapping motif with different sequence requirement. • The glycine-rich stretch of a plant hnRNP-like protein contributes to binding. - Abstract: Arabidopsis thaliana glycine-rich RNA binding protein 7 (AtGRP7) is part of a negative feedback loop through which it regulates alternative splicing and steady-state abundance of its pre-mRNA. Here we use fluorescence correlation spectroscopy to investigate the requirements for AtGRP7 binding to its intron using fluorescently-labelled synthetic oligonucleotides. By systematically introducing point mutations we identify three nucleotides that lead to an increased K{sub d} value when mutated and thus are critical for AtGRP7 binding. Simultaneous mutation of all three residues abrogates binding. The paralogue AtGRP8 binds to an overlapping motif but with a different sequence preference, in line with overlapping but not identical functions of this protein pair. Truncation of the glycine-rich domain reduces the binding affinity of AtGRP7, showing for the first time that the glycine-rich stretch of a plant hnRNP-like protein contributes to binding. Mutation of the conserved R{sup 49} that is crucial for AtGRP7 function in pathogen defence and splicing abolishes binding.
International Nuclear Information System (INIS)
Leder, Verena; Lummer, Martina; Tegeler, Kathrin; Humpert, Fabian; Lewinski, Martin; Schüttpelz, Mark; Staiger, Dorothee
2014-01-01
Highlights: • We use FCS to investigate binding site requirements for the hnRNP-like protein AtGRP7. • We identify three nucleotides critical for AtGRP7 binding to its own intron. • Mutation of the conserved R 49 abolishes binding altogether. • The paralogue AtGRP8 binds to an overlapping motif with different sequence requirement. • The glycine-rich stretch of a plant hnRNP-like protein contributes to binding. - Abstract: Arabidopsis thaliana glycine-rich RNA binding protein 7 (AtGRP7) is part of a negative feedback loop through which it regulates alternative splicing and steady-state abundance of its pre-mRNA. Here we use fluorescence correlation spectroscopy to investigate the requirements for AtGRP7 binding to its intron using fluorescently-labelled synthetic oligonucleotides. By systematically introducing point mutations we identify three nucleotides that lead to an increased K d value when mutated and thus are critical for AtGRP7 binding. Simultaneous mutation of all three residues abrogates binding. The paralogue AtGRP8 binds to an overlapping motif but with a different sequence preference, in line with overlapping but not identical functions of this protein pair. Truncation of the glycine-rich domain reduces the binding affinity of AtGRP7, showing for the first time that the glycine-rich stretch of a plant hnRNP-like protein contributes to binding. Mutation of the conserved R 49 that is crucial for AtGRP7 function in pathogen defence and splicing abolishes binding
Directory of Open Access Journals (Sweden)
Robinson Melvin L
2005-07-01
Full Text Available Abstract Background The Cajal body (CB is a nuclear suborganelle involved in the biogenesis of small nuclear ribonucleoproteins (snRNPs, which are vital for pre-mRNA splicing. Newly imported Sm-class snRNPs traffic through CBs, where the snRNA component of the snRNP is modified, and then target to other nuclear domains such as speckles and perichromatin fibrils. It is not known how nascent snRNPs localize to the CB and are released from this structure after modification. The marker protein for CBs, coilin, may play a role in snRNP biogenesis given that it can interact with snRNPs and SMN, the protein mutated in Spinal Muscular Atrophy. Loss of coilin function in mice leads to significant viability and fertility problems and altered CB formation. Results In this report, we identify a minor isoform of the mitochondrial Tim50, Tim50a, as a coilin interacting protein. The Tim50a transcript can be detected in some cancer cell lines and normal brain tissue. The Tim50a protein differs only from Tim50 in that it contains an additional 103 aa N-terminal to the translation start of Tim50. Importantly, a putative nuclear localization signal is found within these 103 residues. In contrast to Tim50, which localizes to the cytoplasm and mitochondria, Tim50a is strictly nuclear and is enriched in speckles with snRNPs. In addition to coilin, Tim50a interacts with snRNPs and SMN. Competition binding experiments demonstrate that coilin competes with Sm proteins of snRNPs and SMN for binding sites on Tim50a. Conclusion Tim50a may play a role in snRNP biogenesis given its cellular localization and protein interaction characteristics. We hypothesize that Tim50a takes part in the release of snRNPs and SMN from the CB.
Overlay control methodology comparison: field-by-field and high-order methods
Huang, Chun-Yen; Chiu, Chui-Fu; Wu, Wen-Bin; Shih, Chiang-Lin; Huang, Chin-Chou Kevin; Huang, Healthy; Choi, DongSub; Pierson, Bill; Robinson, John C.
2012-03-01
Overlay control in advanced integrated circuit (IC) manufacturing is becoming one of the leading lithographic challenges in the 3x and 2x nm process nodes. Production overlay control can no longer meet the stringent emerging requirements based on linear composite wafer and field models with sampling of 10 to 20 fields and 4 to 5 sites per field, which was the industry standard for many years. Methods that have emerged include overlay metrology in many or all fields, including the high order field model method called high order control (HOC), and field by field control (FxFc) methods also called correction per exposure. The HOC and FxFc methods were initially introduced as relatively infrequent scanner qualification activities meant to supplement linear production schemes. More recently, however, it is clear that production control is also requiring intense sampling, similar high order and FxFc methods. The added control benefits of high order and FxFc overlay methods need to be balanced with the increased metrology requirements, however, without putting material at risk. Of critical importance is the proper control of edge fields, which requires intensive sampling in order to minimize signatures. In this study we compare various methods of overlay control including the performance levels that can be achieved.
Developing Student-Centered Learning Model to Improve High Order Mathematical Thinking Ability
Saragih, Sahat; Napitupulu, Elvis
2015-01-01
The purpose of this research was to develop student-centered learning model aiming to improve high order mathematical thinking ability of junior high school students of based on curriculum 2013 in North Sumatera, Indonesia. The special purpose of this research was to analyze and to formulate the purpose of mathematics lesson in high order…
DEFF Research Database (Denmark)
Etches, Adam; Madsen, Christian Bruun; Madsen, Lars Bojer
2010-01-01
A recent paper reported elliptically polarized high-order harmonics from aligned N2 using a linearly polarized driving field [X. Zhou et al., Phys. Rev. Lett. 102, 073902 (2009)]. This observation cannot be explained in the standard treatment of the Lewenstein model and has been ascribed to many...
Zhang, Kemei; Zhao, Cong-Ran; Xie, Xue-Jun
2015-12-01
This paper considers the problem of output feedback stabilisation for stochastic high-order feedforward nonlinear systems with time-varying delay. By using the homogeneous domination theory and solving several troublesome obstacles in the design and analysis, an output feedback controller is constructed to drive the closed-loop system globally asymptotically stable in probability.
Highly ordered three-dimensional macroporous carbon spheres for determination of heavy metal ions
Energy Technology Data Exchange (ETDEWEB)
Zhang, Yuxiao; Zhang, Jianming [Institute of Functional Nano and Soft Materials (FUNSOM) and Jiangsu Key Laboratory for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou 215123 (China); Liu, Yang, E-mail: yangl@suda.edu.cn [Institute of Functional Nano and Soft Materials (FUNSOM) and Jiangsu Key Laboratory for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou 215123 (China); Huang, Hui [Institute of Functional Nano and Soft Materials (FUNSOM) and Jiangsu Key Laboratory for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou 215123 (China); Kang, Zhenhui, E-mail: zhkang@suda.edu.cn [Institute of Functional Nano and Soft Materials (FUNSOM) and Jiangsu Key Laboratory for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou 215123 (China)
2012-04-15
Highlights: Black-Right-Pointing-Pointer Highly ordered three dimensional macroporous carbon spheres (MPCSs) were prepared. Black-Right-Pointing-Pointer MPCS was covalently modified by cysteine (MPCS-CO-Cys). Black-Right-Pointing-Pointer MPCS-CO-Cys was first time used in electrochemical detection of heavy metal ions. Black-Right-Pointing-Pointer Heavy metal ions such as Pb{sup 2+} and Cd{sup 2+} can be simultaneously determined. -- Abstract: An effective voltammetric method for detection of trace heavy metal ions using chemically modified highly ordered three dimensional macroporous carbon spheres electrode surfaces is described. The highly ordered three dimensional macroporous carbon spheres were prepared by carbonization of glucose in silica crystal bead template, followed by removal of the template. The highly ordered three dimensional macroporous carbon spheres were covalently modified by cysteine, an amino acid with high affinities towards some heavy metals. The materials were characterized by physical adsorption of nitrogen, scanning electron microscopy, and transmission electron microscopy techniques. While the Fourier-transform infrared spectroscopy was used to characterize the functional groups on the surface of carbon spheres. High sensitivity was exhibited when this material was used in electrochemical detection (square wave anodic stripping voltammetry) of heavy metal ions due to the porous structure. And the potential application for simultaneous detection of heavy metal ions was also investigated.
Highly ordered three-dimensional macroporous carbon spheres for determination of heavy metal ions
International Nuclear Information System (INIS)
Zhang, Yuxiao; Zhang, Jianming; Liu, Yang; Huang, Hui; Kang, Zhenhui
2012-01-01
Highlights: ► Highly ordered three dimensional macroporous carbon spheres (MPCSs) were prepared. ► MPCS was covalently modified by cysteine (MPCS–CO–Cys). ► MPCS–CO–Cys was first time used in electrochemical detection of heavy metal ions. ► Heavy metal ions such as Pb 2+ and Cd 2+ can be simultaneously determined. -- Abstract: An effective voltammetric method for detection of trace heavy metal ions using chemically modified highly ordered three dimensional macroporous carbon spheres electrode surfaces is described. The highly ordered three dimensional macroporous carbon spheres were prepared by carbonization of glucose in silica crystal bead template, followed by removal of the template. The highly ordered three dimensional macroporous carbon spheres were covalently modified by cysteine, an amino acid with high affinities towards some heavy metals. The materials were characterized by physical adsorption of nitrogen, scanning electron microscopy, and transmission electron microscopy techniques. While the Fourier-transform infrared spectroscopy was used to characterize the functional groups on the surface of carbon spheres. High sensitivity was exhibited when this material was used in electrochemical detection (square wave anodic stripping voltammetry) of heavy metal ions due to the porous structure. And the potential application for simultaneous detection of heavy metal ions was also investigated.
2007-12-06
high order well-balanced schemes to a class of hyperbolic systems with source terms, Boletin de la Sociedad Espanola de Matematica Aplicada, v34 (2006...schemes to a class of hyperbolic systems with source terms, Boletin de la Sociedad Espanola de Matematica Aplicada, v34 (2006), pp.69-80. 39. Y. Xu and C.-W
Bayesian Modeling of ChIP-chip Data Through a High-Order Ising Model
Mo, Qianxing; Liang, Faming
2010-01-01
approach to ChIP-chip data through an Ising model with high-order interactions. The proposed method naturally takes into account the intrinsic spatial structure of the data and can be used to analyze data from multiple platforms with different genomic
Dynamic analysis of high-order Cohen-Grossberg neural networks with time delay
International Nuclear Information System (INIS)
Chen Zhang; Zhao Donghua; Ruan Jiong
2007-01-01
In this paper, a class of high-order Cohen-Grossberg neural networks with time delay is studied. Several sufficient conditions are obtained for global asymptotic stability and global exponential stability using Lyapunov and LMI method. Finally, two examples are given to illustrate the effectiveness of our method
M. Denche; A. L. Marhoune
2003-01-01
In this paper, we study a mixed problem with integral boundary conditions for a high order partial differential equation of mixed type. We prove the existence and uniqueness of the solution. The proof is based on energy inequality, and on the density of the range of the operator generated by the considered problem.
A hierarchy of high-order theories for modes in an elastic layer
DEFF Research Database (Denmark)
Sorokin, Sergey V.; Chapman, C. John
2015-01-01
A hierarchy of high-order theories for symmetric and skew-symmetric modes in an infinitely long elastic layer of the constant thickness is derived. For each member of the hierarchy, boundary conditions for layers of the finite length are formulated. The forcing problems at several approximation...
High order curvilinear finite elements for elastic–plastic Lagrangian dynamics
International Nuclear Information System (INIS)
Dobrev, Veselin A.; Kolev, Tzanio V.; Rieben, Robert N.
2014-01-01
This paper presents a high-order finite element method for calculating elastic–plastic flow on moving curvilinear meshes and is an extension of our general high-order curvilinear finite element approach for solving the Euler equations of gas dynamics in a Lagrangian frame [1,2]. In order to handle transition to plastic flow, we formulate the stress–strain relation in rate (or incremental) form and augment our semi-discrete equations for Lagrangian hydrodynamics with an additional evolution equation for the deviatoric stress which is valid for arbitrary order spatial discretizations of the kinematic and thermodynamic variables. The semi-discrete equation for the deviatoric stress rate is developed for 2D planar, 2D axisymmetric and full 3D geometries. For each case, the strain rate is approximated via a collocation method at zone quadrature points while the deviatoric stress is approximated using an L 2 projection onto the thermodynamic basis. We apply high order, energy conserving, explicit time stepping methods to the semi-discrete equations to develop the fully discrete method. We conclude with numerical results from an extensive series of verification tests that demonstrate several practical advantages of using high-order finite elements for elastic–plastic flow
Exact Sampling and Decoding in High-Order Hidden Markov Models
Carter, S.; Dymetman, M.; Bouchard, G.
2012-01-01
We present a method for exact optimization and sampling from high order Hidden Markov Models (HMMs), which are generally handled by approximation techniques. Motivated by adaptive rejection sampling and heuristic search, we propose a strategy based on sequentially refining a lower-order language
High-Order Approximation of Chromatographic Models using a Nodal Discontinuous Galerkin Approach
DEFF Research Database (Denmark)
Meyer, Kristian; Huusom, Jakob Kjøbsted; Abildskov, Jens
2018-01-01
by Javeed et al. (2011a,b, 2013) with an efficient quadrature-free implementation. The framework is used to simulate linear and non-linear multicomponent chromatographic systems. The results confirm arbitrary high-order accuracy and demonstrate the potential for accuracy and speed-up gains obtainable...
High Order Sliding Mode Control of Doubly-fed Induction Generator under Unbalanced Grid Faults
DEFF Research Database (Denmark)
Zhu, Rongwu; Chen, Zhe; Wu, Xiaojie
2013-01-01
This paper deals with a doubly-fed induction generator-based (DFIG) wind turbine system under grid fault conditions such as: unbalanced grid voltage, three-phase grid fault, using a high order sliding mode control (SMC). A second order sliding mode controller, which is robust with respect...
Li, Xiaofan; Nie, Qing
2009-07-01
Many applications in materials involve surface diffusion of elastically stressed solids. Study of singularity formation and long-time behavior of such solid surfaces requires accurate simulations in both space and time. Here we present a high-order boundary integral method for an elastically stressed solid with axi-symmetry due to surface diffusions. In this method, the boundary integrals for isotropic elasticity in axi-symmetric geometry are approximated through modified alternating quadratures along with an extrapolation technique, leading to an arbitrarily high-order quadrature; in addition, a high-order (temporal) integration factor method, based on explicit representation of the mean curvature, is used to reduce the stability constraint on time-step. To apply this method to a periodic (in axial direction) and axi-symmetric elastically stressed cylinder, we also present a fast and accurate summation method for the periodic Green's functions of isotropic elasticity. Using the high-order boundary integral method, we demonstrate that in absence of elasticity the cylinder surface pinches in finite time at the axis of the symmetry and the universal cone angle of the pinching is found to be consistent with the previous studies based on a self-similar assumption. In the presence of elastic stress, we show that a finite time, geometrical singularity occurs well before the cylindrical solid collapses onto the axis of symmetry, and the angle of the corner singularity on the cylinder surface is also estimated.
J.F. Schouten revisited : pitch of complex tones having many high-order harmonics
Smurzynski, J.; Houtsma, A.J.M.
1988-01-01
Four experiments are reported which deal with pitch perception of harmonic complex tones containing many high-order, aurally unresolvable partials. Melodic-interval identilication performance ill the case of sounds with increasing harmonic order remains significantly above chalice level, even if the
DEFF Research Database (Denmark)
Etches, Adam; Madsen, Christian Bruun; Madsen, Lars Bojer
A correction term is introduced in the stationary-point analysis on high-order harmonic generation (HHG) from aligned molecules. Arising from a multi-centre expansion of the electron wave function, this term brings our numerical calculations of the Lewenstein model into qualitative agreement...
High-order finite difference solution for 3D nonlinear wave-structure interaction
DEFF Research Database (Denmark)
Ducrozet, Guillaume; Bingham, Harry B.; Engsig-Karup, Allan Peter
2010-01-01
This contribution presents our recent progress on developing an efficient fully-nonlinear potential flow model for simulating 3D wave-wave and wave-structure interaction over arbitrary depths (i.e. in coastal and offshore environment). The model is based on a high-order finite difference scheme O...
Comparison of high order algorithms in Aerosol and Aghora for compressible flows
Directory of Open Access Journals (Sweden)
Mbengoue D. A.
2013-12-01
Full Text Available This article summarizes the work done within the Colargol project during CEMRACS 2012. The aim of this project is to compare the implementations of high order finite element methods for compressible flows that have been developed at ONERA and at INRIA for about one year, within the Aghora and Aerosol libraries.
International Nuclear Information System (INIS)
Berglund, Fredrik M.; Clarke, Paul R.
2009-01-01
Cellular responses to DNA damage are orchestrated by the large phosphoinositol-3-kinase related kinases ATM, ATR and DNA-PK. We have developed a cell-free system to dissect the biochemical mechanisms of these kinases. Using this system, we identify heterogeneous nuclear ribonucleoprotein U (hnRNP-U), also termed scaffold attachment factor A (SAF-A), as a specific substrate for DNA-PK. We show that hnRNP-U is phosphorylated at Ser59 by DNA-PK in vitro and in cells in response to DNA double-strand breaks. Phosphorylation of hnRNP-U suggests novel functions for DNA-PK in the response to DNA damage.
Construction of Low Dissipative High Order Well-Balanced Filter Schemes for Non-Equilibrium Flows
Wang, Wei; Yee, H. C.; Sjogreen, Bjorn; Magin, Thierry; Shu, Chi-Wang
2009-01-01
The goal of this paper is to generalize the well-balanced approach for non-equilibrium flow studied by Wang et al. [26] to a class of low dissipative high order shock-capturing filter schemes and to explore more advantages of well-balanced schemes in reacting flows. The class of filter schemes developed by Yee et al. [30], Sjoegreen & Yee [24] and Yee & Sjoegreen [35] consist of two steps, a full time step of spatially high order non-dissipative base scheme and an adaptive nonlinear filter containing shock-capturing dissipation. A good property of the filter scheme is that the base scheme and the filter are stand alone modules in designing. Therefore, the idea of designing a well-balanced filter scheme is straightforward, i.e., choosing a well-balanced base scheme with a well-balanced filter (both with high order). A typical class of these schemes shown in this paper is the high order central difference schemes/predictor-corrector (PC) schemes with a high order well-balanced WENO filter. The new filter scheme with the well-balanced property will gather the features of both filter methods and well-balanced properties: it can preserve certain steady state solutions exactly; it is able to capture small perturbations, e.g., turbulence fluctuations; it adaptively controls numerical dissipation. Thus it shows high accuracy, efficiency and stability in shock/turbulence interactions. Numerical examples containing 1D and 2D smooth problems, 1D stationary contact discontinuity problem and 1D turbulence/shock interactions are included to verify the improved accuracy, in addition to the well-balanced behavior.
High-order FDTD methods via derivative matching for Maxwell's equations with material interfaces
International Nuclear Information System (INIS)
Zhao Shan; Wei, G.W.
2004-01-01
This paper introduces a series of novel hierarchical implicit derivative matching methods to restore the accuracy of high-order finite-difference time-domain (FDTD) schemes of computational electromagnetics (CEM) with material interfaces in one (1D) and two spatial dimensions (2D). By making use of fictitious points, systematic approaches are proposed to locally enforce the physical jump conditions at material interfaces in a preprocessing stage, to arbitrarily high orders of accuracy in principle. While often limited by numerical instability, orders up to 16 and 12 are achieved, respectively, in 1D and 2D. Detailed stability analyses are presented for the present approach to examine the upper limit in constructing embedded FDTD methods. As natural generalizations of the high-order FDTD schemes, the proposed derivative matching methods automatically reduce to the standard FDTD schemes when the material interfaces are absent. An interesting feature of the present approach is that it encompasses a variety of schemes of different orders in a single code. Another feature of the present approach is that it can be robustly implemented with other high accuracy time-domain approaches, such as the multiresolution time-domain method and the local spectral time-domain method, to cope with material interfaces. Numerical experiments on both 1D and 2D problems are carried out to test the convergence, examine the stability, access the efficiency, and explore the limitation of the proposed methods. It is found that operating at their best capacity, the proposed high-order schemes could be over 2000 times more efficient than their fourth-order versions in 2D. In conclusion, the present work indicates that the proposed hierarchical derivative matching methods might lead to practical high-order schemes for numerical solution of time-domain Maxwell's equations with material interfaces
Quantum-orbit theory of high-order atomic processes in strong fields
International Nuclear Information System (INIS)
Milosevic, D.B.
2005-01-01
Full text: Atoms submitted to strong laser fields can emit electrons and photons of very high energies. These processes find a highly intuitive and also quantitative explanation in terms of Feynman's path integral and the concept of quantum orbits. The quantum-orbit formalism is particularly useful for high-order atomic processes in strong laser fields. For such multi-step processes there is an intermediate step during which the electron is approximately under the influence of the laser field only and can absorb energy from the field. This leads to the appearance of the plateau structures in the emitted electron or photon spectra. Usual examples of such processes are high-order harmonic generation (HHG) and high-order above threshold ionization (HATI). These structures were also observed in high-order above-threshold detachment, laser-assisted x-ray-atom scattering, laser-assisted electron-ion recombination, and electron-atom scattering. We will present high-order strong-field approximation (SFA) and show how the quantum-orbit formalism follows from it. This will be done for various above-mentioned processes. For HHG a classification of quantum orbits will be given [10) and generalized to the presence of a static field. The low-energy part of the HHG spectra and the enhancement of HHG near the channel closings can be explained taking into account a large number of quantum orbits. For HATI we will concentrate on the case of few-cycle laser pulse. The influence of the carrier-envelope relative phase on the HATI spectrum can easily be explained in terms of quantum orbits. The SFA and the quantum-orbit results will be compared with the results obtained by Dieter Bauer using ab initio solutions of the time-dependent Schroedinger equation. It will be shown that the Coulomb effects are important for low-energy electron spectra. Refs. 11 (author)
Directory of Open Access Journals (Sweden)
Henrik Gross
Full Text Available The Epstein-Barr Virus (EBV -encoded EBNA2 protein, which is essential for the in vitro transformation of B-lymphocytes, interferes with cellular processes by binding to proteins via conserved sequence motifs. Its Arginine-Glycine (RG repeat element contains either symmetrically or asymmetrically di-methylated arginine residues (SDMA and ADMA, respectively. EBNA2 binds via its SDMA-modified RG-repeat to the survival motor neurons protein (SMN and via the ADMA-RG-repeat to the NP9 protein of the human endogenous retrovirus K (HERV-K (HML-2 Type 1. The hypothesis of this work was that the methylated RG-repeat mimics an epitope shared with cellular proteins that is used for interaction with target structures. With monoclonal antibodies against the modified RG-repeat, we indeed identified cellular homologues that apparently have the same surface structure as methylated EBNA2. With the SDMA-specific antibodies, we precipitated the Sm protein D3 (SmD3 which, like EBNA2, binds via its SDMA-modified RG-repeat to SMN. With the ADMA-specific antibodies, we precipitated the heterogeneous ribonucleoprotein K (hnRNP K. Specific binding of the ADMA- antibody to hnRNP K was demonstrated using E. coli expressed/ADMA-methylated hnRNP K. In addition, we show that EBNA2 and hnRNP K form a complex in EBV- infected B-cells. Finally, hnRNP K, when co-expressed with EBNA2, strongly enhances viral latent membrane protein 2A (LMP2A expression by an unknown mechanism as we did not detect a direct association of hnRNP K with DNA-bound EBNA2 in gel shift experiments. Our data support the notion that the methylated surface of EBNA2 mimics the surface structure of cellular proteins to interfere with or co-opt their functional properties.
Qin, Wanwan; Yang, Jianjun
2017-07-01
We report a new one-step maskless method to fabricate high-order nanoarray metal structures comprising periodic grooves and particle chains on a single-crystal Cu surface using femtosecond laser pulses at the central wavelength of 400 nm. Remarkably, when a circularly polarized infrared femtosecond laser pulse (spectrally centered at 800 nm) pre-irradiates the sample surface, the geometric dimensions of the composite structure can be well controlled. With increasing the energy fluence of the infrared laser pulse, both the groove width and particle diameter are observed to reduce, while the measured spacing-to-diameter ratio of the nanoparticles tends to present an increasing tendency. A physical scenario is proposed to elucidate the underlying mechanisms: as the infrared femtosecond laser pulse pre-irradiates the target, the copper surface is triggered to display anomalous transient physical properties, on which the subsequently incident Gaussian blue laser pulse is spatially modulated into fringe-like energy depositions via the excitation of ultrafast surface plasmon. During the following relaxation processes, the periodically heated thin-layer regions can be transferred into the metastable liquid rivulets and then they break up into nanodroplet arrays owing to the modified Rayleigh-like instability. This investigation indicates a simple integrated approach for active designing and large-scale assembly of complexed functional nanostructures on bulk materials.
A Highly Ordered Magnetic Field in a Crushed Pulsar Wind Nebula in G327.1-1.1
Ma, Yik Ki; Ng, Chi-Yung; Bucciantini, Niccolò; Gaensler, Bryan M.; Slane, Patrick O.; Temim, Tea
2015-01-01
A significant fraction of a pulsar's spin-down luminosity is in the form of a relativistic magnetized particle outflow known as a pulsar wind. Confinement of the wind by the ambient medium creates a synchrotron-emitting bubble called a pulsar wind nebula (PWN). Studies of PWNe is important for understanding the physics of relativistic shocks and particle acceleration. Simulations suggest that a PWN will be crushed by the reverse shock of its surrounding supernova remnant at an age of ~10^4 yr, resulting in a turbulent environment. However, given the short timescale of the interaction stage, only a few such systems are observed.We present radio polarization observations of the PWN in supernova remnant G327.1-1.1, taken with the Australia Telescope Compact Array. Previous works suggest that this system has recently interacted with the supernova reverse shock, providing a rare example for the study of magnetic field in a crushed PWN. We found a highly ordered magnetic field in the PWN, which is unexpected given the presumed turbulent interior of the nebula. This suggests that the magnetic pressure in the PWN could play an important role in the interaction with supernova reverse shock.The Australia Telescope Compact Array is part of the Australia Telescope National Facility which is funded by the Commonwealth of Australia for operation as a National Facility managed by CSIRO.YKM and CYN are supported by a ECS grant of the Hong Kong Government under HKU 709713P
Quantum Key Distribution with High Order Fibonacci-like Orbital Angular Momentum States
Pan, Ziwen; Cai, Jiarui; Wang, Chuan
2017-08-01
The coding space in quantum communication could be expanded to high-dimensional space by using orbital angular momentum (OAM) states of photons, as both the capacity of the channel and security are enhanced. Here we present a novel approach to realize high-capacity quantum key distribution (QKD) by exploiting OAM states. The innovation of the proposed approach relies on a unique type of entangled-photon source which produces entangled photons with OAM randomly distributed among high order Fiboncci-like numbers and a new physical mechanism for efficiently sharing keys. This combination of entanglement with mathematical properties of high order Fibonacci sequences provides the QKD protocol immunity to photon-number-splitting attacks and allows secure generation of long keys from few photons. Unlike other protocols, reference frame alignment and active modulation of production and detection bases are unnecessary.
High order aberrations calculation of a hexapole corrector using a differential algebra method
Energy Technology Data Exchange (ETDEWEB)
Kang, Yongfeng, E-mail: yfkang@mail.xjtu.edu.cn [Key Laboratory for Physical Electronics and Devices of the Ministry of Education, Xi' an Jiaotong University, Xi' an 710049 (China); Liu, Xing [Key Laboratory for Physical Electronics and Devices of the Ministry of Education, Xi' an Jiaotong University, Xi' an 710049 (China); Zhao, Jingyi, E-mail: jingyi.zhao@foxmail.com [School of Science, Chang’an University, Xi’an 710064 (China); Tang, Tiantong [Key Laboratory for Physical Electronics and Devices of the Ministry of Education, Xi' an Jiaotong University, Xi' an 710049 (China)
2017-02-21
A differential algebraic (DA) method is proved as an unusual and effective tool in numerical analysis. It implements conveniently differentiation up to arbitrary high order, based on the nonstandard analysis. In this paper, the differential algebra (DA) method has been employed to compute the high order aberrations up to the fifth order of a practical hexapole corrector including round lenses and hexapole lenses. The program has been developed and tested as well. The electro-magnetic fields of arbitrary point are obtained by local analytic expressions, then field potentials are transformed into new forms which can be operated in the DA calculation. In this paper, the geometric and chromatic aberrations up to fifth order of a practical hexapole corrector system are calculated by the developed program.
High-order dispersion control of 10-petawatt Ti:sapphire laser facility.
Li, Shuai; Wang, Cheng; Liu, Yanqi; Xu, Yi; Li, Yanyan; Liu, Xingyan; Gan, Zebiao; Yu, Lianghong; Liang, Xiaoyan; Leng, Yuxin; Li, Ruxin
2017-07-24
A grism pair is utilized to control the high-order dispersion of the Shanghai Superintense Ultrafast Lasers Facility, which is a large-scale project aimed at delivering 10-PW laser pulses. We briefly present the characteristics of the laser system and calculate the cumulative B-integral, which determines the nonlinear phase shift influence on material dispersion. Three parameters are selected, grism separation, angle of incidence and slant distance of grating compressor, to determine their optimal values through an iterative searching procedure. Both the numerical and experimental results confirm that the spectral phase distortion is controlled, and the recompressed pulse with a duration of 24 fs is obtained in the single-shot mode. The distributions and stabilities of the pulse duration at different positions of the recompressed beam are also investigated. This approach offers a new feasible solution for the high-order dispersion compensation of femtosecond petawatt laser systems.
A multiresolution method for solving the Poisson equation using high order regularization
DEFF Research Database (Denmark)
Hejlesen, Mads Mølholm; Walther, Jens Honore
2016-01-01
We present a novel high order multiresolution Poisson solver based on regularized Green's function solutions to obtain exact free-space boundary conditions while using fast Fourier transforms for computational efficiency. Multiresolution is a achieved through local refinement patches and regulari......We present a novel high order multiresolution Poisson solver based on regularized Green's function solutions to obtain exact free-space boundary conditions while using fast Fourier transforms for computational efficiency. Multiresolution is a achieved through local refinement patches...... and regularized Green's functions corresponding to the difference in the spatial resolution between the patches. The full solution is obtained utilizing the linearity of the Poisson equation enabling super-position of solutions. We show that the multiresolution Poisson solver produces convergence rates...
A Reconstruction Approach to High-Order Schemes Including Discontinuous Galerkin for Diffusion
Huynh, H. T.
2009-01-01
We introduce a new approach to high-order accuracy for the numerical solution of diffusion problems by solving the equations in differential form using a reconstruction technique. The approach has the advantages of simplicity and economy. It results in several new high-order methods including a simplified version of discontinuous Galerkin (DG). It also leads to new definitions of common value and common gradient quantities at each interface shared by the two adjacent cells. In addition, the new approach clarifies the relations among the various choices of new and existing common quantities. Fourier stability and accuracy analyses are carried out for the resulting schemes. Extensions to the case of quadrilateral meshes are obtained via tensor products. For the two-point boundary value problem (steady state), it is shown that these schemes, which include most popular DG methods, yield exact common interface quantities as well as exact cell average solutions for nearly all cases.
Quantum-path control in high-order harmonic generation at high photon energies
International Nuclear Information System (INIS)
Zhang Xiaoshi; Lytle, Amy L; Cohen, Oren; Murnane, Margaret M; Kapteyn, Henry C
2008-01-01
We show through experiment and calculations how all-optical quasi-phase-matching of high-order harmonic generation can be used to selectively enhance emission from distinct quantum trajectories at high photon energies. Electrons rescattered in a strong field can traverse short and long quantum trajectories that exhibit differing coherence lengths as a result of variations in intensity of the driving laser along the direction of propagation. By varying the separation of the pulses in a counterpropagating pulse train, we selectively enhance either the long or the short quantum trajectory, and observe distinct spectral signatures in each case. This demonstrates a new type of coupling between the coherence of high-order harmonic beams and the attosecond time-scale quantum dynamics inherent in the process
Retrieval of interatomic separations of molecules from laser-induced high-order harmonic spectra
International Nuclear Information System (INIS)
Le, Van-Hoang; Nguyen, Ngoc-Ty; Jin, C; Le, Anh-Thu; Lin, C D
2008-01-01
We illustrate an iterative method for retrieving the internuclear separations of N 2 , O 2 and CO 2 molecules using the high-order harmonics generated from these molecules by intense infrared laser pulses. We show that accurate results can be retrieved with a small set of harmonics and with one or few alignment angles of the molecules. For linear molecules the internuclear separations can also be retrieved from harmonics generated using isotropically distributed molecules. By extracting the transition dipole moment from the high-order harmonic spectra, we further demonstrated that it is preferable to retrieve the interatomic separation iteratively by fitting the extracted dipole moment. Our results show that time-resolved chemical imaging of molecules using infrared laser pulses with femtosecond temporal resolutions is possible
Optimal Design of High-Order Passive-Damped Filters for Grid-Connected Applications
DEFF Research Database (Denmark)
Beres, Remus Narcis; Wang, Xiongfei; Blaabjerg, Frede
2016-01-01
Harmonic stability problems caused by the resonance of high-order filters in power electronic systems are ever increasing. The use of passive damping does provide a robust solution to address these issues, but at the price of reduced efficiency due to the presence of additional passive components....... Hence, a new method is proposed in this paper to optimally design the passive damping circuit for the LCL filters and LCL with multi-tuned LC traps. In short, the optimization problem reduces to the proper choice of the multi-split capacitors or inductors in the high-order filter. Compared to existing...... filter resonance. The passive filters are designed, built and validated both analytically and experimentally for verification....
Pricing Exotic Options under a High-Order Markovian Regime Switching Model
Directory of Open Access Journals (Sweden)
Wai-Ki Ching
2007-10-01
Full Text Available We consider the pricing of exotic options when the price dynamics of the underlying risky asset are governed by a discrete-time Markovian regime-switching process driven by an observable, high-order Markov model (HOMM. We assume that the market interest rate, the drift, and the volatility of the underlying risky asset's return switch over time according to the states of the HOMM, which are interpreted as the states of an economy. We will then employ the well-known tool in actuarial science, namely, the Esscher transform to determine an equivalent martingale measure for option valuation. Moreover, we will also investigate the impact of the high-order effect of the states of the economy on the prices of some path-dependent exotic options, such as Asian options, lookback options, and barrier options.
Multiple-state Feshbach resonances mediated by high-order couplings
International Nuclear Information System (INIS)
Hemming, Christopher J.; Krems, Roman V.
2008-01-01
We present a study of multistate Feshbach resonances mediated by high-order couplings. Our analysis focuses on a system with one open scattering state and multiple bound states. The scattering state is coupled to one off-resonant bound state and multiple Feshbach resonances are induced by a sequence of indirect couplings between the closed channels. We derive a general recursive expression that can be used to fit the experimental data on multistate Feshbach resonances involving one continuum state and several bound states and present numerical solutions for several model systems. Our results elucidate general features of multistate Feshbach resonances induced by high-order couplings and suggest mechanisms for controlling collisions of ultracold atoms and molecules with external fields
Decomposition of conditional probability for high-order symbolic Markov chains
Melnik, S. S.; Usatenko, O. V.
2017-07-01
The main goal of this paper is to develop an estimate for the conditional probability function of random stationary ergodic symbolic sequences with elements belonging to a finite alphabet. We elaborate on a decomposition procedure for the conditional probability function of sequences considered to be high-order Markov chains. We represent the conditional probability function as the sum of multilinear memory function monomials of different orders (from zero up to the chain order). This allows us to introduce a family of Markov chain models and to construct artificial sequences via a method of successive iterations, taking into account at each step increasingly high correlations among random elements. At weak correlations, the memory functions are uniquely expressed in terms of the high-order symbolic correlation functions. The proposed method fills the gap between two approaches, namely the likelihood estimation and the additive Markov chains. The obtained results may have applications for sequential approximation of artificial neural network training.
Energy stable and high-order-accurate finite difference methods on staggered grids
O'Reilly, Ossian; Lundquist, Tomas; Dunham, Eric M.; Nordström, Jan
2017-10-01
For wave propagation over distances of many wavelengths, high-order finite difference methods on staggered grids are widely used due to their excellent dispersion properties. However, the enforcement of boundary conditions in a stable manner and treatment of interface problems with discontinuous coefficients usually pose many challenges. In this work, we construct a provably stable and high-order-accurate finite difference method on staggered grids that can be applied to a broad class of boundary and interface problems. The staggered grid difference operators are in summation-by-parts form and when combined with a weak enforcement of the boundary conditions, lead to an energy stable method on multiblock grids. The general applicability of the method is demonstrated by simulating an explosive acoustic source, generating waves reflecting against a free surface and material discontinuity.
Learning High-Order Filters for Efficient Blind Deconvolution of Document Photographs
Xiao, Lei
2016-09-16
Photographs of text documents taken by hand-held cameras can be easily degraded by camera motion during exposure. In this paper, we propose a new method for blind deconvolution of document images. Observing that document images are usually dominated by small-scale high-order structures, we propose to learn a multi-scale, interleaved cascade of shrinkage fields model, which contains a series of high-order filters to facilitate joint recovery of blur kernel and latent image. With extensive experiments, we show that our method produces high quality results and is highly efficient at the same time, making it a practical choice for deblurring high resolution text images captured by modern mobile devices. © Springer International Publishing AG 2016.
Retrieval of interatomic separations of molecules from laser-induced high-order harmonic spectra
Energy Technology Data Exchange (ETDEWEB)
Le, Van-Hoang; Nguyen, Ngoc-Ty [Department of Physics, University of Pedagogy, 280 An Duong Vuong, Ward 5, Ho Chi Minh City (Viet Nam); Jin, C; Le, Anh-Thu; Lin, C D [J. R. Macdonald Laboratory, Department of Physics, Kansas State University, Manhattan, KS 66506 (United States)
2008-04-28
We illustrate an iterative method for retrieving the internuclear separations of N{sub 2}, O{sub 2} and CO{sub 2} molecules using the high-order harmonics generated from these molecules by intense infrared laser pulses. We show that accurate results can be retrieved with a small set of harmonics and with one or few alignment angles of the molecules. For linear molecules the internuclear separations can also be retrieved from harmonics generated using isotropically distributed molecules. By extracting the transition dipole moment from the high-order harmonic spectra, we further demonstrated that it is preferable to retrieve the interatomic separation iteratively by fitting the extracted dipole moment. Our results show that time-resolved chemical imaging of molecules using infrared laser pulses with femtosecond temporal resolutions is possible.
Efficient and tunable high-order harmonic light sources for photoelectron spectroscopy at surfaces
International Nuclear Information System (INIS)
Chiang, Cheng-Tien; Huth, Michael; Trützschler, Andreas; Schumann, Frank O.; Kirschner, Jürgen; Widdra, Wolf
2015-01-01
Highlights: • An overview of photoelectron spectroscopy using high-order harmonics is presented. • Photoemission spectra on Ag(0 0 1) using megahertz harmonics are shown. • A gas recycling system for harmonic generation is presented. • Non-stop operation of megahertz harmonics up to 76 h is demonstrated. • The bandwidth and pulse duration of the harmonics are discussed. - Abstract: With the recent progress in high-order harmonic generation (HHG) using femtosecond lasers, laboratory photoelectron spectroscopy with an ultrafast, widely tunable vacuum-ultraviolet light source has become available. Despite the well-established technique of HHG-based photoemission experiments at kilohertz repetition rates, the efficiency of these setups can be intrinsically limited by the space-charge effects. Here we present recent developments of compact HHG light sources for photoelectron spectroscopy at high repetition rates up to megahertz, and examples for angle-resolved photoemission experiments are demonstrated.
Level set methods for detonation shock dynamics using high-order finite elements
Energy Technology Data Exchange (ETDEWEB)
Dobrev, V. A. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Grogan, F. C. [Univ. of California, San Diego, CA (United States); Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Kolev, T. V. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Rieben, R [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Tomov, V. Z. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
2017-05-26
Level set methods are a popular approach to modeling evolving interfaces. We present a level set ad- vection solver in two and three dimensions using the discontinuous Galerkin method with high-order nite elements. During evolution, the level set function is reinitialized to a signed distance function to maintain ac- curacy. Our approach leads to stable front propagation and convergence on high-order, curved, unstructured meshes. The ability of the solver to implicitly track moving fronts lends itself to a number of applications; in particular, we highlight applications to high-explosive (HE) burn and detonation shock dynamics (DSD). We provide results for two- and three-dimensional benchmark problems as well as applications to DSD.
European Workshop on High Order Nonlinear Numerical Schemes for Evolutionary PDEs
Beaugendre, Héloïse; Congedo, Pietro; Dobrzynski, Cécile; Perrier, Vincent; Ricchiuto, Mario
2014-01-01
This book collects papers presented during the European Workshop on High Order Nonlinear Numerical Methods for Evolutionary PDEs (HONOM 2013) that was held at INRIA Bordeaux Sud-Ouest, Talence, France in March, 2013. The central topic is high order methods for compressible fluid dynamics. In the workshop, and in this proceedings, greater emphasis is placed on the numerical than the theoretical aspects of this scientific field. The range of topics is broad, extending through algorithm design, accuracy, large scale computing, complex geometries, discontinuous Galerkin, finite element methods, Lagrangian hydrodynamics, finite difference methods and applications and uncertainty quantification. These techniques find practical applications in such fields as fluid mechanics, magnetohydrodynamics, nonlinear solid mechanics, and others for which genuinely nonlinear methods are needed.
Duru, Kenneth
2014-12-01
© 2014 Elsevier Inc. In this paper, we develop a stable and systematic procedure for numerical treatment of elastic waves in discontinuous and layered media. We consider both planar and curved interfaces where media parameters are allowed to be discontinuous. The key feature is the highly accurate and provably stable treatment of interfaces where media discontinuities arise. We discretize in space using high order accurate finite difference schemes that satisfy the summation by parts rule. Conditions at layer interfaces are imposed weakly using penalties. By deriving lower bounds of the penalty strength and constructing discrete energy estimates we prove time stability. We present numerical experiments in two space dimensions to illustrate the usefulness of the proposed method for simulations involving typical interface phenomena in elastic materials. The numerical experiments verify high order accuracy and time stability.
Validation of a RANS transition model using a high-order weighted compact nonlinear scheme
Tu, GuoHua; Deng, XiaoGang; Mao, MeiLiang
2013-04-01
A modified transition model is given based on the shear stress transport (SST) turbulence model and an intermittency transport equation. The energy gradient term in the original model is replaced by flow strain rate to saving computational costs. The model employs local variables only, and then it can be conveniently implemented in modern computational fluid dynamics codes. The fifth-order weighted compact nonlinear scheme and the fourth-order staggered scheme are applied to discrete the governing equations for the purpose of minimizing discretization errors, so as to mitigate the confusion between numerical errors and transition model errors. The high-order package is compared with a second-order TVD method on simulating the transitional flow of a flat plate. Numerical results indicate that the high-order package give better grid convergence property than that of the second-order method. Validation of the transition model is performed for transitional flows ranging from low speed to hypersonic speed.
Frequency dependence of quantum path interference in non-collinear high-order harmonic generation
International Nuclear Information System (INIS)
Zhong Shi-Yang; He Xin-Kui; Teng Hao; Ye Peng; Wang Li-Feng; He Peng; Wei Zhi-Yi
2016-01-01
High-order harmonic generation (HHG) driven by two non-collinear beams including a fundamental and its weak second harmonic is numerically studied. The interference of harmonics from adjacent electron quantum paths is found to be dependent on the relative delay of the driving pulse, and the dependences are different for different harmonic orders. This frequency dependence of the interference is attributed to the spatial frequency chirp in the HHG beam resulting from the harmonic dipole phase, which in turn provides a potential way to gain an insight into the generation of high-order harmonics. As an example, the intensity dependent dipole phase coefficient α is retrieved from the interference fringe. (paper)
Intense multimicrojoule high-order harmonics generated from neutral atoms of In2O3 nanoparticles
International Nuclear Information System (INIS)
Elouga Bom, L. B.; Abdul-Hadi, J.; Vidal, F.; Ozaki, T.; Ganeev, R. A.
2009-01-01
We studied high-order harmonic generation from plasma that contains an abundance of indium oxide nanoparticles. We found that harmonics from nanoparticle-containing plasma are considerably more intense than from plasma produced on the In 2 O 3 bulk target, with high-order harmonic energy ranging from 6 μJ (for the ninth harmonic) to 1 μJ (for the 17th harmonic) in the former case. The harmonic cutoff from nanoparticles was at the 21st order, which is lower than that observed using indium oxide solid target. By comparing the harmonic spectra obtained from solid and nanoparticle indium oxide targets, we concluded that intense harmonics in the latter case are dominantly generated from neutral atoms of the In 2 O 3 nanoparticles
Dependence of high order harmonics intensity on laser focal spot position in preformed plasma plumes
International Nuclear Information System (INIS)
Singhal, H.; Ganeev, R.; Naik, P. A.; Arora, V.; Chakravarty, U.; Gupta, P. D.
2008-01-01
The dependence of the high-order harmonic intensity on the laser focal spot position in laser produced plasma plumes is experimentally studied. High order harmonics up to the 59th order (λ∼13.5 nm) were generated by focusing 48 fs laser pulses from a Ti:sapphire laser system in silver plasma plume produced using 300 ps uncompressed laser radiation as the prepulse. The intensity of harmonics nearly vanished when the best focus was located in the plume center, whereas it peaked on either side with unequal intensity. The focal spot position corresponding to the peak harmonic intensity moved away from the plume center for higher order harmonics. The results are explained in terms of the variation of phase mismatch between the driving laser beam and harmonics radiation produced, relativistic drift of electrons, and defocusing effect due to radial ionization gradient in the plasma for different focal spot positions
Development of a high-order finite volume method with multiblock partition techniques
Directory of Open Access Journals (Sweden)
E. M. Lemos
2012-03-01
Full Text Available This work deals with a new numerical methodology to solve the Navier-Stokes equations based on a finite volume method applied to structured meshes with co-located grids. High-order schemes used to approximate advective, diffusive and non-linear terms, connected with multiblock partition techniques, are the main contributions of this paper. Combination of these two techniques resulted in a computer code that involves high accuracy due the high-order schemes and great flexibility to generate locally refined meshes based on the multiblock approach. This computer code has been able to obtain results with higher or equal accuracy in comparison with results obtained using classical procedures, with considerably less computational effort.
Enhancement of high-order harmonic generation in the presence of noise
Energy Technology Data Exchange (ETDEWEB)
Yavuz, I; Altun, Z [Department of Physics, Marmara University, 34722 Ziverbey, Istanbul (Turkey); Topcu, T, E-mail: ilhan.yavuz@marmara.edu.tr [Department of Physics, Auburn University, AL 36849-5311 (United States)
2011-07-14
We report on our simulations of the generation of high-order harmonics from atoms driven by an intense femtosecond laser field in the presence of noise. We numerically solve the non-perturbative stochastic time-dependent Schroedinger equation and observe how varying noise levels affect the frequency components of the high harmonic spectrum. Our calculations show that when an optimum amount of noise is present in the driving laser field, roughly a factor of 45 net enhancement can be achieved in high-order harmonic yield, especially, around the cut-off region. We observe that, for a relatively weak noise, the enhancement mechanism is sensitive to the carrier-envelope phase. We also investigate the possibility of generating ultra-short intense attosecond pulses by combining the laser field and noise and observe that a roughly four orders of magnitude enhanced isolated attosecond burst can be generated.
Enhancement of high-order harmonic generation in the presence of noise
International Nuclear Information System (INIS)
Yavuz, I; Altun, Z; Topcu, T
2011-01-01
We report on our simulations of the generation of high-order harmonics from atoms driven by an intense femtosecond laser field in the presence of noise. We numerically solve the non-perturbative stochastic time-dependent Schroedinger equation and observe how varying noise levels affect the frequency components of the high harmonic spectrum. Our calculations show that when an optimum amount of noise is present in the driving laser field, roughly a factor of 45 net enhancement can be achieved in high-order harmonic yield, especially, around the cut-off region. We observe that, for a relatively weak noise, the enhancement mechanism is sensitive to the carrier-envelope phase. We also investigate the possibility of generating ultra-short intense attosecond pulses by combining the laser field and noise and observe that a roughly four orders of magnitude enhanced isolated attosecond burst can be generated.
Highly ordered uniform single-crystal Bi nanowires: fabrication and characterization
International Nuclear Information System (INIS)
Bisrat, Y; Luo, Z P; Davis, D; Lagoudas, D
2007-01-01
A mechanical pressure injection technique has been used to fabricate uniform bismuth (Bi) nanowires in the pores of an anodic aluminum oxide (AAO) template. The AAO template was prepared from general purity aluminum by a two-step anodization followed by heat treatment to achieve highly ordered nanochannels. The nanowires were then fabricated by an injection technique whereby the molten Bi was injected into the AAO template using a hydraulic pressure method. The Bi nanowires prepared by this method were found to be dense and continuous with uniform diameter throughout the length. Electron diffraction experiments using the transmission electron microscope on cross-sectional and free-standing longitudinal Bi nanowires showed that the majority of the individual nanowires were single crystalline, with preferred orientation of growth along the [011] zone axis of the pseudo-cubic structure. The work presented here provides an inexpensive and effective way of fabricating highly ordered single-crystalline Bi nanowires, with uniform size distributions
Energy Technology Data Exchange (ETDEWEB)
Chaimayo, Chutikarn [Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642 (United States); Department of Microbiology, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok 10700 (Thailand); Hayashi, Tsuyoshi; Underwood, Andrew; Hodges, Erin [Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642 (United States); Takimoto, Toru, E-mail: toru_takimoto@urmc.rochester.edu [Department of Microbiology and Immunology, University of Rochester Medical Center, Rochester, NY 14642 (United States)
2017-05-15
Influenza A viruses contain eight single-stranded, negative-sense RNA segments as viral genomes in the form of viral ribonucleoproteins (vRNPs). During genome replication in the nucleus, positive-sense complementary RNPs (cRNPs) are produced as replicative intermediates, which are not incorporated into progeny virions. To analyze the mechanism of selective vRNP incorporation into progeny virions, we quantified vRNPs and cRNPs in the nuclear and cytosolic fractions of infected cells, using a strand-specific qRT-PCR. Unexpectedly, we found that cRNPs were also exported to the cytoplasm. This export was chromosome region maintenance 1 (CRM1)-independent unlike that of vRNPs. Although both vRNPs and cRNPs were present in the cytosol, viral matrix (M1) protein, a key regulator for viral assembly, preferentially bound vRNPs over cRNPs. These results indicate that influenza A viruses selectively uptake cytosolic vRNPs through a specific interaction with M1 during viral assembly. - Highlights: •Influenza cRNPs are exported from the nucleus of an infected cell via a CRM1-independent pathway. •Influenza A viruses selectively incorporate cytosolic vRNPs through a specific interaction with M1 during viral assembly. •M1 dissociates from vRNP export complex after nuclear export, and is re-associated with vRNPs at the plasma membrane.
Assembly and dynamics of the U4/U6 di-snRNP by single-molecule FRET
Hardin, John W.; Warnasooriya, Chandani; Kondo, Yasushi; Nagai, Kiyoshi; Rueda, David
2015-01-01
In large ribonucleoprotein machines, such as ribosomes and spliceosomes, RNA functions as an assembly scaffold as well as a critical catalytic component. Protein binding to the RNA scaffold can induce structural changes, which in turn modulate subsequent binding of other components. The spliceosomal U4/U6 di-snRNP contains extensively base paired U4 and U6 snRNAs, Snu13, Prp31, Prp3 and Prp4, seven Sm and seven LSm proteins. We have studied successive binding of all protein components to the snRNA duplex during di-snRNP assembly by electrophoretic mobility shift assay and accompanying conformational changes in the U4/U6 RNA 3-way junction by single-molecule FRET. Stems I and II of the duplex were found to co-axially stack in free RNA and function as a rigid scaffold during the entire assembly, but the U4 snRNA 5′ stem-loop adopts alternative orientations each stabilized by Prp31 and Prp3/4 binding accounting for altered Prp3/4 binding affinities in presence of Prp31. PMID:26503251
International Nuclear Information System (INIS)
Chaimayo, Chutikarn; Hayashi, Tsuyoshi; Underwood, Andrew; Hodges, Erin; Takimoto, Toru
2017-01-01
Influenza A viruses contain eight single-stranded, negative-sense RNA segments as viral genomes in the form of viral ribonucleoproteins (vRNPs). During genome replication in the nucleus, positive-sense complementary RNPs (cRNPs) are produced as replicative intermediates, which are not incorporated into progeny virions. To analyze the mechanism of selective vRNP incorporation into progeny virions, we quantified vRNPs and cRNPs in the nuclear and cytosolic fractions of infected cells, using a strand-specific qRT-PCR. Unexpectedly, we found that cRNPs were also exported to the cytoplasm. This export was chromosome region maintenance 1 (CRM1)-independent unlike that of vRNPs. Although both vRNPs and cRNPs were present in the cytosol, viral matrix (M1) protein, a key regulator for viral assembly, preferentially bound vRNPs over cRNPs. These results indicate that influenza A viruses selectively uptake cytosolic vRNPs through a specific interaction with M1 during viral assembly. - Highlights: •Influenza cRNPs are exported from the nucleus of an infected cell via a CRM1-independent pathway. •Influenza A viruses selectively incorporate cytosolic vRNPs through a specific interaction with M1 during viral assembly. •M1 dissociates from vRNP export complex after nuclear export, and is re-associated with vRNPs at the plasma membrane.
Identification of human hnRNP C1/C2 as a dengue virus NS1-interacting protein
International Nuclear Information System (INIS)
Noisakran, Sansanee; Sengsai, Suchada; Thongboonkerd, Visith; Kanlaya, Rattiyaporn; Sinchaikul, Supachok; Chen, Shui-Tein; Puttikhunt, Chunya
2008-01-01
Dengue virus nonstructural protein 1 (NS1) is a key glycoprotein involved in the production of infectious virus and the pathogenesis of dengue diseases. Very little is known how NS1 interacts with host cellular proteins and functions in dengue virus-infected cells. This study aimed at identifying NS1-interacting host cellular proteins in dengue virus-infected cells by employing co-immunoprecipitation, two-dimensional gel electrophoresis, and mass spectrometry. Using lysates of dengue virus-infected human embryonic kidney cells (HEK 293T), immunoprecipitation with an anti-NS1 monoclonal antibody revealed eight isoforms of dengue virus NS1 and a 40-kDa protein, which was subsequently identified by quadrupole time-of-flight tandem mass spectrometry (Q-TOF MS/MS) as human heterogeneous nuclear ribonucleoprotein (hnRNP) C1/C2. Further investigation by co-immunoprecipitation and co-localization confirmed the association of hnRNP C1/C2 and dengue virus NS1 proteins in dengue virus-infected cells. Their interaction may have implications in virus replication and/or cellular responses favorable to survival of the virus in host cells
Siswoyo, Siswoyo; Sunaryo, Sunaryo
2017-01-01
Abstract This study investigated the implementation of High Order Thinking Skills in high school physics teaching focused on the analysis of the questions that were developed by teachers in Jakarta. Data obtained in training physics teachers in Jakarta. Teachers followed training on how to develop the learning of physics to develop higher order thinking skills. Then the teachers were asked to develop physics problems test as an instrument measuring tool of learning physics at school. Pro...
Lattice Boltzmann model for high-order nonlinear partial differential equations
Chai, Zhenhua; He, Nanzhong; Guo, Zhaoli; Shi, Baochang
2018-01-01
In this paper, a general lattice Boltzmann (LB) model is proposed for the high-order nonlinear partial differential equation with the form ∂tϕ +∑k=1mαk∂xkΠk(ϕ ) =0 (1 ≤k ≤m ≤6 ), αk are constant coefficients, Πk(ϕ ) are some known differential functions of ϕ . As some special cases of the high-order nonlinear partial differential equation, the classical (m)KdV equation, KdV-Burgers equation, K (n ,n ) -Burgers equation, Kuramoto-Sivashinsky equation, and Kawahara equation can be solved by the present LB model. Compared to the available LB models, the most distinct characteristic of the present model is to introduce some suitable auxiliary moments such that the correct moments of equilibrium distribution function can be achieved. In addition, we also conducted a detailed Chapman-Enskog analysis, and found that the high-order nonlinear partial differential equation can be correctly recovered from the proposed LB model. Finally, a large number of simulations are performed, and it is found that the numerical results agree with the analytical solutions, and usually the present model is also more accurate than the existing LB models [H. Lai and C. Ma, Sci. China Ser. G 52, 1053 (2009), 10.1007/s11433-009-0149-3; H. Lai and C. Ma, Phys. A (Amsterdam) 388, 1405 (2009), 10.1016/j.physa.2009.01.005] for high-order nonlinear partial differential equations.
Further results on global state feedback stabilization of nonlinear high-order feedforward systems.
Xie, Xue-Jun; Zhang, Xing-Hui
2014-03-01
In this paper, by introducing a combined method of sign function, homogeneous domination and adding a power integrator, and overcoming several troublesome obstacles in the design and analysis, the problem of state feedback control for a class of nonlinear high-order feedforward systems with the nonlinearity's order being relaxed to an interval rather than a fixed point is solved. Copyright © 2013 ISA. Published by Elsevier Ltd. All rights reserved.
International Nuclear Information System (INIS)
Wilcox, Lucas C.; Stadler, Georg; Burstedde, Carsten; Ghattas, Omar
2010-01-01
We introduce a high-order discontinuous Galerkin (dG) scheme for the numerical solution of three-dimensional (3D) wave propagation problems in coupled elastic-acoustic media. A velocity-strain formulation is used, which allows for the solution of the acoustic and elastic wave equations within the same unified framework. Careful attention is directed at the derivation of a numerical flux that preserves high-order accuracy in the presence of material discontinuities, including elastic-acoustic interfaces. Explicit expressions for the 3D upwind numerical flux, derived as an exact solution for the relevant Riemann problem, are provided. The method supports h-non-conforming meshes, which are particularly effective at allowing local adaptation of the mesh size to resolve strong contrasts in the local wavelength, as well as dynamic adaptivity to track solution features. The use of high-order elements controls numerical dispersion, enabling propagation over many wave periods. We prove consistency and stability of the proposed dG scheme. To study the numerical accuracy and convergence of the proposed method, we compare against analytical solutions for wave propagation problems with interfaces, including Rayleigh, Lamb, Scholte, and Stoneley waves as well as plane waves impinging on an elastic-acoustic interface. Spectral rates of convergence are demonstrated for these problems, which include a non-conforming mesh case. Finally, we present scalability results for a parallel implementation of the proposed high-order dG scheme for large-scale seismic wave propagation in a simplified earth model, demonstrating high parallel efficiency for strong scaling to the full size of the Jaguar Cray XT5 supercomputer.
Fast magnetic energy dissipation in relativistic plasma induced by high order laser modes
Czech Academy of Sciences Publication Activity Database
Gu, Yanjun; Yu, Q.; Klimo, Ondřej; Esirkepov, T.Z.; Bulanov, S.V.; Weber, Stefan A.; Korn, Georg
2016-01-01
Roč. 4, Jun (2016), 1-5, č. článku e19. ISSN 2095-4719 R&D Projects: GA MŠk EF15_008/0000162 Grant - others:ELI Beamlines(XE) CZ.02.1.01/0.0/0.0/15_008/0000162 Institutional support: RVO:68378271 Keywords : high order laser mode * laser–plasma interaction * magnetic annihilation Subject RIV: BL - Plasma and Gas Discharge Physics
On global exponential stability of high-order neural networks with time-varying delays
International Nuclear Information System (INIS)
Zhang Baoyong; Xu Shengyuan; Li Yongmin; Chu Yuming
2007-01-01
This Letter investigates the problem of stability analysis for a class of high-order neural networks with time-varying delays. The delays are bounded but not necessarily differentiable. Based on the Lyapunov stability theory together with the linear matrix inequality (LMI) approach and the use of Halanay inequality, sufficient conditions guaranteeing the global exponential stability of the equilibrium point of the considered neural networks are presented. Two numerical examples are provided to demonstrate the effectiveness of the proposed stability criteria
On global exponential stability of high-order neural networks with time-varying delays
Energy Technology Data Exchange (ETDEWEB)
Zhang Baoyong [School of Automation, Nanjing University of Science and Technology, Nanjing 210094, Jiangsu (China)]. E-mail: baoyongzhang@yahoo.com.cn; Xu Shengyuan [School of Automation, Nanjing University of Science and Technology, Nanjing 210094, Jiangsu (China)]. E-mail: syxu02@yahoo.com.cn; Li Yongmin [School of Automation, Nanjing University of Science and Technology, Nanjing 210094, Jiangsu (China) and Department of Mathematics, Huzhou Teacher' s College, Huzhou 313000, Zhejiang (China)]. E-mail: ymlwww@163.com; Chu Yuming [Department of Mathematics, Huzhou Teacher' s College, Huzhou 313000, Zhejiang (China)
2007-06-18
This Letter investigates the problem of stability analysis for a class of high-order neural networks with time-varying delays. The delays are bounded but not necessarily differentiable. Based on the Lyapunov stability theory together with the linear matrix inequality (LMI) approach and the use of Halanay inequality, sufficient conditions guaranteeing the global exponential stability of the equilibrium point of the considered neural networks are presented. Two numerical examples are provided to demonstrate the effectiveness of the proposed stability criteria.
International Nuclear Information System (INIS)
Mamou, M.; Xu, H.; Khalid, M.
2004-01-01
The present paper contains a comprehensive literature survey on helicopter flow analyses and describes some true unsteady flows past helicopter rotors obtained using low and high order CFD models. The low order model is based on a panel method coupled with a viscous boundary layer approach and a compressibility correction. The USAERO software is used for the computations. The high order model is based on Euler and Navier-Stokes equations. For the high order models, a true unsteady scheme, as implemented in the CFD-FASTRAN code using the Euler equations, is considered for flows past hovering rotor. On the other hand, a quasi-steady approach, using the WIND code with the Navier-Stokes equations and the SST turbulence model, is used to assess the validity of the approach for the simulation of flows past a helicopter in forward flight conditions. When using the high order models, a Chimera grid technique is used to describe the blade motions within the parent stationary grid. Comparisons with experimental data are performed and the true unsteady simulations provide a reasonable agreement with the available experimental data. The panel method and the quasisteady approach are found to overestimate the loads on the helicopter rotors. The USAERO panel code is found to produce more thrust owing to some error sources in the computations when a wake-surface collision occurs, as the blades interact with their own wakes. The automatic cutting of the wake sheets, as they approach the model surface, is not working properly at every time step. (author)
Energy Technology Data Exchange (ETDEWEB)
Mamou, M.; Xu, H.; Khalid, M. [National Research Council of Canada, Inst. for Aerospace Research, Ottawa, Ontario (Canada)]. E-mail: Mahmoud.Mamou@nrc-cnrc.gc.ca
2004-07-01
The present paper contains a comprehensive literature survey on helicopter flow analyses and describes some true unsteady flows past helicopter rotors obtained using low and high order CFD models. The low order model is based on a panel method coupled with a viscous boundary layer approach and a compressibility correction. The USAERO software is used for the computations. The high order model is based on Euler and Navier-Stokes equations. For the high order models, a true unsteady scheme, as implemented in the CFD-FASTRAN code using the Euler equations, is considered for flows past hovering rotor. On the other hand, a quasi-steady approach, using the WIND code with the Navier-Stokes equations and the SST turbulence model, is used to assess the validity of the approach for the simulation of flows past a helicopter in forward flight conditions. When using the high order models, a Chimera grid technique is used to describe the blade motions within the parent stationary grid. Comparisons with experimental data are performed and the true unsteady simulations provide a reasonable agreement with the available experimental data. The panel method and the quasisteady approach are found to overestimate the loads on the helicopter rotors. The USAERO panel code is found to produce more thrust owing to some error sources in the computations when a wake-surface collision occurs, as the blades interact with their own wakes. The automatic cutting of the wake sheets, as they approach the model surface, is not working properly at every time step. (author)
A high-order q-difference equation for q-Hahn multiple orthogonal polynomials
DEFF Research Database (Denmark)
Arvesú, J.; Esposito, Chiara
2012-01-01
A high-order linear q-difference equation with polynomial coefficients having q-Hahn multiple orthogonal polynomials as eigenfunctions is given. The order of the equation coincides with the number of orthogonality conditions that these polynomials satisfy. Some limiting situations when are studie....... Indeed, the difference equation for Hahn multiple orthogonal polynomials given in Lee [J. Approx. Theory (2007), ), doi: 10.1016/j.jat.2007.06.002] is obtained as a limiting case....
Entropy Viscosity Method for High-Order Approximations of Conservation Laws
Guermond, J. L.
2010-09-17
A stabilization technique for conservation laws is presented. It introduces in the governing equations a nonlinear dissipation function of the residual of the associated entropy equation and bounded from above by a first order viscous term. Different two-dimensional test cases are simulated - a 2D Burgers problem, the "KPP rotating wave" and the Euler system - using high order methods: spectral elements or Fourier expansions. Details on the tuning of the parameters controlling the entropy viscosity are given. © 2011 Springer.
Lattice Boltzmann model for high-order nonlinear partial differential equations.
Chai, Zhenhua; He, Nanzhong; Guo, Zhaoli; Shi, Baochang
2018-01-01
In this paper, a general lattice Boltzmann (LB) model is proposed for the high-order nonlinear partial differential equation with the form ∂_{t}ϕ+∑_{k=1}^{m}α_{k}∂_{x}^{k}Π_{k}(ϕ)=0 (1≤k≤m≤6), α_{k} are constant coefficients, Π_{k}(ϕ) are some known differential functions of ϕ. As some special cases of the high-order nonlinear partial differential equation, the classical (m)KdV equation, KdV-Burgers equation, K(n,n)-Burgers equation, Kuramoto-Sivashinsky equation, and Kawahara equation can be solved by the present LB model. Compared to the available LB models, the most distinct characteristic of the present model is to introduce some suitable auxiliary moments such that the correct moments of equilibrium distribution function can be achieved. In addition, we also conducted a detailed Chapman-Enskog analysis, and found that the high-order nonlinear partial differential equation can be correctly recovered from the proposed LB model. Finally, a large number of simulations are performed, and it is found that the numerical results agree with the analytical solutions, and usually the present model is also more accurate than the existing LB models [H. Lai and C. Ma, Sci. China Ser. G 52, 1053 (2009)1672-179910.1007/s11433-009-0149-3; H. Lai and C. Ma, Phys. A (Amsterdam) 388, 1405 (2009)PHYADX0378-437110.1016/j.physa.2009.01.005] for high-order nonlinear partial differential equations.
Research on Appraisal System of Procurator Performance by Using High-Order CFA Model
Directory of Open Access Journals (Sweden)
Yong-mao Huang
2014-01-01
Full Text Available The prosecutor is the main body of procuratorial organs. The performance appraisal system plays an important role in promoting the work efficiency of procurator. In this paper, we establish the performance appraisal system of procurators by high-order confirmatory factor analysis method and evaluate procurators’ performance by fuzzy comprehensive evaluation method based on the 360 degrees. The results have some help to performance management of procuratorial organs.
High order P-G finite elements for convection-dominated problems
International Nuclear Information System (INIS)
Carmo, E.D. do; Galeao, A.C.
1989-06-01
From the error analysis presented in this paper it is shown that de CCAU method derived by Dutra do Carmo and Galeao [3] preserves the same order of approximation obtained with SUPH (cf. Books and Hughes [2]) when advection-diffusion regular solutions are considered, and improves the accuracy of the approximate boundary layer solution when high order interpolating polynomials are used near sharp layers [pt
High-Order Hyperbolic Residual-Distribution Schemes on Arbitrary Triangular Grids
2015-06-22
for efficient CFD calculations in high-order methods,3 because the grid adaptation almost necessarily introduces irregularity in the grid. In fact...problems. References 1P.A. Gnoffo. Multi-dimensional, inviscid flux reconstruction for simulation of hypersonic heating on tetrahedral grids. In Proc. of...Kitamura, E. Shima, Y. Nakamura, and P.L. Roe. Evaluation of euler fluxes for hypersonic heating computations. AIAA J., 48(4):763–776, 2010. 3Z.J. Wang, K
Detecting high-order interactions of single nucleotide polymorphisms using genetic programming.
Nunkesser, Robin; Bernholt, Thorsten; Schwender, Holger; Ickstadt, Katja; Wegener, Ingo
2007-12-15
Not individual single nucleotide polymorphisms (SNPs), but high-order interactions of SNPs are assumed to be responsible for complex diseases such as cancer. Therefore, one of the major goals of genetic association studies concerned with such genotype data is the identification of these high-order interactions. This search is additionally impeded by the fact that these interactions often are only explanatory for a relatively small subgroup of patients. Most of the feature selection methods proposed in the literature, unfortunately, fail at this task, since they can either only identify individual variables or interactions of a low order, or try to find rules that are explanatory for a high percentage of the observations. In this article, we present a procedure based on genetic programming and multi-valued logic that enables the identification of high-order interactions of categorical variables such as SNPs. This method called GPAS cannot only be used for feature selection, but can also be employed for discrimination. In an application to the genotype data from the GENICA study, an association study concerned with sporadic breast cancer, GPAS is able to identify high-order interactions of SNPs leading to a considerably increased breast cancer risk for different subsets of patients that are not found by other feature selection methods. As an application to a subset of the HapMap data shows, GPAS is not restricted to association studies comprising several 10 SNPs, but can also be employed to analyze whole-genome data. Software can be downloaded from http://ls2-www.cs.uni-dortmund.de/~nunkesser/#Software
Tsunami generation, propagation, and run-up with a high-order Boussinesq model
DEFF Research Database (Denmark)
Fuhrman, David R.; Madsen, Per A.
2009-01-01
In this work we extend a high-order Boussinesq-type (finite difference) model, capable of simulating waves out to wavenumber times depth kh landslide-induced tsunamis. The extension is straight forward, requiring only....... The Boussinesq-type model is then used to simulate numerous tsunami-type events generated from submerged landslides, in both one and two horizontal dimensions. The results again compare well against previous experiments and/or numerical simulations. The new extension compliments recently developed run...
Entropy Viscosity Method for High-Order Approximations of Conservation Laws
Guermond, J. L.; Pasquetti, R.
2010-01-01
A stabilization technique for conservation laws is presented. It introduces in the governing equations a nonlinear dissipation function of the residual of the associated entropy equation and bounded from above by a first order viscous term. Different two-dimensional test cases are simulated - a 2D Burgers problem, the "KPP rotating wave" and the Euler system - using high order methods: spectral elements or Fourier expansions. Details on the tuning of the parameters controlling the entropy viscosity are given. © 2011 Springer.
Modulated phase matching and high-order harmonic enhancement mediated by the carrier-envelope phase
International Nuclear Information System (INIS)
Faccio, Daniele; Serrat, Carles; Cela, Jose M.; Farres, Albert; Di Trapani, Paolo; Biegert, Jens
2010-01-01
The process of high-order harmonic generation in gases is numerically investigated in the presence of a few-cycle pulsed-Bessel-beam pump, featuring a periodic modulation in the peak intensity due to large carrier-envelope-phase mismatch. A two-decade enhancement in the conversion efficiency is observed and interpreted as the consequence of a mechanism known as a nonlinearly induced modulation in the phase mismatch.
Calculation of neutron flux and reactivity by perturbation theory at high order
International Nuclear Information System (INIS)
Silva, W.L.P. da; Silva, F.C. da; Thome Filho, Z.D.
1982-01-01
A high order pertubation theory is studied, independent of time, applied to integral parameter calculation of a nuclear reactor. A pertubative formulation, based on flux difference technique, which gives directy the reactivity and neutron flux up to the aproximation order required, is presented. As an application of the method, global pertubations represented by fuel temperature variations, are used. Tests were done aiming to verify the relevancy of the approximation order for several intensities of the pertubations considered. (E.G.) [pt
Li, Xiaofan; Nie, Qing
2009-01-01
Many applications in materials involve surface diffusion of elastically stressed solids. Study of singularity formation and long-time behavior of such solid surfaces requires accurate simulations in both space and time. Here we present a high-order boundary integral method for an elastically stressed solid with axi-symmetry due to surface diffusions. In this method, the boundary integrals for isotropic elasticity in axi-symmetric geometry are approximated through modified alternating quadratu...
High-Order Multioperator Compact Schemes for Numerical Simulation of Unsteady Subsonic Airfoil Flow
Savel'ev, A. D.
2018-02-01
On the basis of high-order schemes, the viscous gas flow over the NACA2212 airfoil is numerically simulated at a free-stream Mach number of 0.3 and Reynolds numbers ranging from 103 to 107. Flow regimes sequentially varying due to variations in the free-stream viscosity are considered. Vortex structures developing on the airfoil surface are investigated, and a physical interpretation of this phenomenon is given.
Global stability of stochastic high-order neural networks with discrete and distributed delays
International Nuclear Information System (INIS)
Wang Zidong; Fang Jianan; Liu Xiaohui
2008-01-01
High-order neural networks can be considered as an expansion of Hopfield neural networks, and have stronger approximation property, faster convergence rate, greater storage capacity, and higher fault tolerance than lower-order neural networks. In this paper, the global asymptotic stability analysis problem is considered for a class of stochastic high-order neural networks with discrete and distributed time-delays. Based on an Lyapunov-Krasovskii functional and the stochastic stability analysis theory, several sufficient conditions are derived, which guarantee the global asymptotic convergence of the equilibrium point in the mean square. It is shown that the stochastic high-order delayed neural networks under consideration are globally asymptotically stable in the mean square if two linear matrix inequalities (LMIs) are feasible, where the feasibility of LMIs can be readily checked by the Matlab LMI toolbox. It is also shown that the main results in this paper cover some recently published works. A numerical example is given to demonstrate the usefulness of the proposed global stability criteria
Jiang, Zhen-Hua; Yan, Chao; Yu, Jian
2013-08-01
Two types of implicit algorithms have been improved for high order discontinuous Galerkin (DG) method to solve compressible Navier-Stokes (NS) equations on triangular grids. A block lower-upper symmetric Gauss-Seidel (BLU-SGS) approach is implemented as a nonlinear iterative scheme. And a modified LU-SGS (LLU-SGS) approach is suggested to reduce the memory requirements while retain the good convergence performance of the original LU-SGS approach. Both implicit schemes have the significant advantage that only the diagonal block matrix is stored. The resulting implicit high-order DG methods are applied, in combination with Hermite weighted essentially non-oscillatory (HWENO) limiters, to solve viscous flow problems. Numerical results demonstrate that the present implicit methods are able to achieve significant efficiency improvements over explicit counterparts and for viscous flows with shocks, and the HWENO limiters can be used to achieve the desired essentially non-oscillatory shock transition and the designed high-order accuracy simultaneously.
Time-Frequency Analysis Using Warped-Based High-Order Phase Modeling
Directory of Open Access Journals (Sweden)
Ioana Cornel
2005-01-01
Full Text Available The high-order ambiguity function (HAF was introduced for the estimation of polynomial-phase signals (PPS embedded in noise. Since the HAF is a nonlinear operator, it suffers from noise-masking effects and from the appearance of undesired cross-terms when multicomponents PPS are analyzed. In order to improve the performances of the HAF, the multi-lag HAF concept was proposed. Based on this approach, several advanced methods (e.g., product high-order ambiguity function (PHAF have been recently proposed. Nevertheless, performances of these new methods are affected by the error propagation effect which drastically limits the order of the polynomial approximation. This phenomenon acts especially when a high-order polynomial modeling is needed: representation of the digital modulation signals or the acoustic transient signals. This effect is caused by the technique used for polynomial order reduction, common for existing approaches: signal multiplication with the complex conjugated exponentials formed with the estimated coefficients. In this paper, we introduce an alternative method to reduce the polynomial order, based on the successive unitary signal transformation, according to each polynomial order. We will prove that this method reduces considerably the effect of error propagation. Namely, with this order reduction method, the estimation error at a given order will depend only on the performances of the estimation method.
Energy Technology Data Exchange (ETDEWEB)
Ray, Jaideep; Lefantzi, Sophia; Najm, Habib N.; Kennedy, Christopher A.
2006-01-01
Block-structured adaptively refined meshes (SAMR) strive for efficient resolution of partial differential equations (PDEs) solved on large computational domains by clustering mesh points only where required by large gradients. Previous work has indicated that fourth-order convergence can be achieved on such meshes by using a suitable combination of high-order discretizations, interpolations, and filters and can deliver significant computational savings over conventional second-order methods at engineering error tolerances. In this paper, we explore the interactions between the errors introduced by discretizations, interpolations and filters. We develop general expressions for high-order discretizations, interpolations, and filters, in multiple dimensions, using a Fourier approach, facilitating the high-order SAMR implementation. We derive a formulation for the necessary interpolation order for given discretization and derivative orders. We also illustrate this order relationship empirically using one and two-dimensional model problems on refined meshes. We study the observed increase in accuracy with increasing interpolation order. We also examine the empirically observed order of convergence, as the effective resolution of the mesh is increased by successively adding levels of refinement, with different orders of discretization, interpolation, or filtering.
Impact of leakage delay on bifurcation in high-order fractional BAM neural networks.
Huang, Chengdai; Cao, Jinde
2018-02-01
The effects of leakage delay on the dynamics of neural networks with integer-order have lately been received considerable attention. It has been confirmed that fractional neural networks more appropriately uncover the dynamical properties of neural networks, but the results of fractional neural networks with leakage delay are relatively few. This paper primarily concentrates on the issue of bifurcation for high-order fractional bidirectional associative memory(BAM) neural networks involving leakage delay. The first attempt is made to tackle the stability and bifurcation of high-order fractional BAM neural networks with time delay in leakage terms in this paper. The conditions for the appearance of bifurcation for the proposed systems with leakage delay are firstly established by adopting time delay as a bifurcation parameter. Then, the bifurcation criteria of such system without leakage delay are successfully acquired. Comparative analysis wondrously detects that the stability performance of the proposed high-order fractional neural networks is critically weakened by leakage delay, they cannot be overlooked. Numerical examples are ultimately exhibited to attest the efficiency of the theoretical results. Copyright © 2017 Elsevier Ltd. All rights reserved.
International Nuclear Information System (INIS)
Kylberg, Karin; Bjoerk, Petra; Fomproix, Nathalie; Ivarsson, Birgitta; Wieslander, Lars; Daneholt, Bertil
2010-01-01
We have studied the nucleocytoplasmic transport of a specific messenger RNP (mRNP) particle, named Balbiani ring (BR) granule, and ribosomal RNP (rRNP) particles in the salivary glands of the dipteran Chironomus tentans. The passage of the RNPs through the nuclear pore complex (NPC) was inhibited with the nucleoporin-binding wheat germ agglutinin, and the effects were examined by electron microscopy. BR mRNPs bound to the nuclear basket increased in number, while BR mRNPs translocating through the central channel decreased, suggesting that the initiation of translocation proper had been inhibited. The rRNPs accumulated heavily in nucleoplasm, while no or very few rRNPs were recorded within nuclear baskets. Thus, the transport of rRNPs had been blocked prior to the entry into the baskets. Remarkably, the rRNPs had been excluded both from baskets and the space in between the baskets. We propose that normally basket fibrils move freely and repel RNPs from the exclusion zone unless the particles have affinity for and bind to nucleoporins within the baskets.
Cui, Yunxi; Koirala, Deepak; Kang, HyunJin; Dhakal, Soma; Yangyuoru, Philip; Hurley, Laurence H; Mao, Hanbin
2014-05-01
Minute difference in free energy change of unfolding among structures in an oligonucleotide sequence can lead to a complex population equilibrium, which is rather challenging for ensemble techniques to decipher. Herein, we introduce a new method, molecular population dynamics (MPD), to describe the intricate equilibrium among non-B deoxyribonucleic acid (DNA) structures. Using mechanical unfolding in laser tweezers, we identified six DNA species in a cytosine (C)-rich bcl-2 promoter sequence. Population patterns of these species with and without a small molecule (IMC-76 or IMC-48) or the transcription factor hnRNP LL are compared to reveal the MPD of different species. With a pattern recognition algorithm, we found that IMC-48 and hnRNP LL share 80% similarity in stabilizing i-motifs with 60 s incubation. In contrast, IMC-76 demonstrates an opposite behavior, preferring flexible DNA hairpins. With 120-180 s incubation, IMC-48 and hnRNP LL destabilize i-motifs, which has been previously proposed to activate bcl-2 transcriptions. These results provide strong support, from the population equilibrium perspective, that small molecules and hnRNP LL can modulate bcl-2 transcription through interaction with i-motifs. The excellent agreement with biochemical results firmly validates the MPD analyses, which, we expect, can be widely applicable to investigate complex equilibrium of biomacromolecules. © 2014 The Author(s). Published by Oxford University Press [on behalf of Nucleic Acids Research].
Chun, Younghwa; Kim, Raehyung; Lee, Soojin
2016-01-01
Background Recent studies have shown that heterogeneous nuclear ribonucleoprotein U (hnRNP U), a component of the hnRNP complex, contributes to stabilize the kinetochore-microtubule interaction during mitosis. CENP-W was identified as an inner centromere component that plays crucial roles in the formation of a functional kinetochore complex. Results We report that hnRNP U interacts with CENP-W, and the interaction between hnRNP U and CENP-W mutually increased each other’s protein stability by inhibiting the proteasome-mediated degradation. Further, their co-localization was observed chiefly in the nuclear matrix region and at the microtubule-kinetochore interface during interphase and mitosis, respectively. Both microtubule-stabilizing and microtubule-destabilizing agents significantly decreased the protein stability of CENP-W. Furthermore, loss of microtubules and defects in microtubule organization were observed in CENP-W-depleted cells. Conclusion Our data imply that CENP-W plays an important role in the attachment and interaction between microtubules and kinetochore during mitosis. PMID:26881882
Liu, Xiaolin; Lauer, Kathryn K; Ward, Barney D; Rao, Stephen M; Li, Shi-Jiang; Hudetz, Anthony G
2012-10-01
Current theories suggest that disrupting cortical information integration may account for the mechanism of general anesthesia in suppressing consciousness. Human cognitive operations take place in hierarchically structured neural organizations in the brain. The process of low-order neural representation of sensory stimuli becoming integrated in high-order cortices is also known as cognitive binding. Combining neuroimaging, cognitive neuroscience, and anesthetic manipulation, we examined how cognitive networks involved in auditory verbal memory are maintained in wakefulness, disrupted in propofol-induced deep sedation, and re-established in recovery. Inspired by the notion of cognitive binding, an functional magnetic resonance imaging-guided connectivity analysis was utilized to assess the integrity of functional interactions within and between different levels of the task-defined brain regions. Task-related responses persisted in the primary auditory cortex (PAC), but vanished in the inferior frontal gyrus (IFG) and premotor areas in deep sedation. For connectivity analysis, seed regions representing sensory and high-order processing of the memory task were identified in the PAC and IFG. Propofol disrupted connections from the PAC seed to the frontal regions and thalamus, but not the connections from the IFG seed to a set of widely distributed brain regions in the temporal, frontal, and parietal lobes (with exception of the PAC). These later regions have been implicated in mediating verbal comprehension and memory. These results suggest that propofol disrupts cognition by blocking the projection of sensory information to high-order processing networks and thus preventing information integration. Such findings contribute to our understanding of anesthetic mechanisms as related to information and integration in the brain. Copyright © 2011 Wiley Periodicals, Inc.
A comparison of high-order polynomial and wave-based methods for Helmholtz problems
Lieu, Alice; Gabard, Gwénaël; Bériot, Hadrien
2016-09-01
The application of computational modelling to wave propagation problems is hindered by the dispersion error introduced by the discretisation. Two common strategies to address this issue are to use high-order polynomial shape functions (e.g. hp-FEM), or to use physics-based, or Trefftz, methods where the shape functions are local solutions of the problem (typically plane waves). Both strategies have been actively developed over the past decades and both have demonstrated their benefits compared to conventional finite-element methods, but they have yet to be compared. In this paper a high-order polynomial method (p-FEM with Lobatto polynomials) and the wave-based discontinuous Galerkin method are compared for two-dimensional Helmholtz problems. A number of different benchmark problems are used to perform a detailed and systematic assessment of the relative merits of these two methods in terms of interpolation properties, performance and conditioning. It is generally assumed that a wave-based method naturally provides better accuracy compared to polynomial methods since the plane waves or Bessel functions used in these methods are exact solutions of the Helmholtz equation. Results indicate that this expectation does not necessarily translate into a clear benefit, and that the differences in performance, accuracy and conditioning are more nuanced than generally assumed. The high-order polynomial method can in fact deliver comparable, and in some cases superior, performance compared to the wave-based DGM. In addition to benchmarking the intrinsic computational performance of these methods, a number of practical issues associated with realistic applications are also discussed.
Large-eddy simulation in a mixing tee junction: High-order turbulent statistics analysis
International Nuclear Information System (INIS)
Howard, Richard J.A.; Serre, Eric
2015-01-01
Highlights: • Mixing and thermal fluctuations in a junction are studied using large eddy simulation. • Adiabatic and conducting steel wall boundaries are tested. • Wall thermal fluctuations are not the same between the flow and the solid. • Solid thermal fluctuations cannot be predicted from the fluid thermal fluctuations. • High-order turbulent statistics show that the turbulent transport term is important. - Abstract: This study analyses the mixing and thermal fluctuations induced in a mixing tee junction with circular cross-sections when cold water flowing in a pipe is joined by hot water from a branch pipe. This configuration is representative of industrial piping systems in which temperature fluctuations in the fluid may cause thermal fatigue damage on the walls. Implicit large-eddy simulations (LES) are performed for equal inflow rates corresponding to a bulk Reynolds number Re = 39,080. Two different thermal boundary conditions are studied for the pipe walls; an insulating adiabatic boundary and a conducting steel wall boundary. The predicted flow structures show a satisfactory agreement with the literature. The velocity and thermal fields (including high-order statistics) are not affected by the heat transfer with the steel walls. However, predicted thermal fluctuations at the boundary are not the same between the flow and the solid, showing that solid thermal fluctuations cannot be predicted by the knowledge of the fluid thermal fluctuations alone. The analysis of high-order turbulent statistics provides a better understanding of the turbulence features. In particular, the budgets of the turbulent kinetic energy and temperature variance allows a comparative analysis of dissipation, production and transport terms. It is found that the turbulent transport term is an important term that acts to balance the production. We therefore use a priori tests to evaluate three different models for the triple correlation
Effects of high-order deformation on high-K isomers in superheavy nuclei
International Nuclear Information System (INIS)
Liu, H. L.; Bertulani, C. A.; Xu, F. R.; Walker, P. M.
2011-01-01
Using, for the first time, configuration-constrained potential-energy-surface calculations with the inclusion of β 6 deformation, we find remarkable effects of the high-order deformation on the high-K isomers in 254 No, the focus of recent spectroscopy experiments on superheavy nuclei. For shapes with multipolarity six, the isomers are more tightly bound and, microscopically, have enhanced deformed shell gaps at N=152 and Z=100. The inclusion of β 6 deformation significantly improves the description of the very heavy high-K isomers.
Fast Algorithms for High-Order Sparse Linear Prediction with Applications to Speech Processing
DEFF Research Database (Denmark)
Jensen, Tobias Lindstrøm; Giacobello, Daniele; van Waterschoot, Toon
2016-01-01
In speech processing applications, imposing sparsity constraints on high-order linear prediction coefficients and prediction residuals has proven successful in overcoming some of the limitation of conventional linear predictive modeling. However, this modeling scheme, named sparse linear prediction...... problem with lower accuracy than in previous work. In the experimental analysis, we clearly show that a solution with lower accuracy can achieve approximately the same performance as a high accuracy solution both objectively, in terms of prediction gain, as well as with perceptual relevant measures, when...... evaluated in a speech reconstruction application....
Synchronization of a coupled Hodgkin-Huxley neurons via high order sliding-mode feedback
Energy Technology Data Exchange (ETDEWEB)
Aguilar-Lopez, R. [Division de Ciencias Basicas e Ingenieria, Universidad Autonoma Metropolitana, Av. San Pablo No. 180, Reynosa-Tamaulipas, 02200 Azcapotzalco, Mexico, D.F. (Mexico)], E-mail: raguilar@correo.azc.uam.mx; Martinez-Guerra, R. [Departamento de Control Automatico, CINVESTAV-IPN, Apartado Postal 14-740, Mexico, D.F. C.P. 07360 (Mexico)], E-mail: rguerra@ctrl.cinvestav.mx
2008-07-15
This work deals with the synchronizations of two both coupled Hodgkin-Huxley (H-H) neurons, where the master neuron posses inner noise and the slave neuron is considered in a resting state, (without inner noise) and an exciting state (with inner noise). The synchronization procedure is done via a feedback control, considering a class of high order sliding-mode controller which provides chattering reduction and finite time synchronization convergence, with a satisfactory performance. Theoretical analysis is done in order to show the closed-loop stability of the proposed controller and the calculated finite time for convergence. The main results are illustrated via numerical experiments.
Synchronization of a coupled Hodgkin-Huxley neurons via high order sliding-mode feedback
International Nuclear Information System (INIS)
Aguilar-Lopez, R.; Martinez-Guerra, R.
2008-01-01
This work deals with the synchronizations of two both coupled Hodgkin-Huxley (H-H) neurons, where the master neuron posses inner noise and the slave neuron is considered in a resting state, (without inner noise) and an exciting state (with inner noise). The synchronization procedure is done via a feedback control, considering a class of high order sliding-mode controller which provides chattering reduction and finite time synchronization convergence, with a satisfactory performance. Theoretical analysis is done in order to show the closed-loop stability of the proposed controller and the calculated finite time for convergence. The main results are illustrated via numerical experiments
Matrix form of Legendre polynomials for solving linear integro-differential equations of high order
Kammuji, M.; Eshkuvatov, Z. K.; Yunus, Arif A. M.
2017-04-01
This paper presents an effective approximate solution of high order of Fredholm-Volterra integro-differential equations (FVIDEs) with boundary condition. Legendre truncated series is used as a basis functions to estimate the unknown function. Matrix operation of Legendre polynomials is used to transform FVIDEs with boundary conditions into matrix equation of Fredholm-Volterra type. Gauss Legendre quadrature formula and collocation method are applied to transfer the matrix equation into system of linear algebraic equations. The latter equation is solved by Gauss elimination method. The accuracy and validity of this method are discussed by solving two numerical examples and comparisons with wavelet and methods.
A high-order solver for aerodynamic flow simulations and comparison of different numerical schemes
Mikhaylov, Sergey; Morozov, Alexander; Podaruev, Vladimir; Troshin, Alexey
2017-11-01
An implementation of high order of accuracy Discontinuous Galerkin method is presented. Reconstruction is done for the conservative variables. Gradients are calculated using the BR2 method. Coordinate transformations are done by serendipity elements. In computations with schemes of order higher than 2, curvature of the mesh lines is taken into account. A comparison with finite volume methods is performed, including WENO method with linear weights and single quadrature point on a cell side. The results of the following classical tests are presented: subsonic flow around a circular cylinder in an ideal gas, convection of two-dimensional isentropic vortex, and decay of the Taylor-Green vortex.
Orbiting binary black hole evolutions with a multipatch high order finite-difference approach
International Nuclear Information System (INIS)
Pazos, Enrique; Tiglio, Manuel; Duez, Matthew D.; Kidder, Lawrence E.; Teukolsky, Saul A.
2009-01-01
We present numerical simulations of orbiting black holes for around 12 cycles, using a high order multipatch approach. Unlike some other approaches, the computational speed scales almost perfectly for thousands of processors. Multipatch methods are an alternative to adaptive mesh refinement, with benefits of simplicity and better scaling for improving the resolution in the wave zone. The results presented here pave the way for multipatch evolutions of black hole-neutron star and neutron star-neutron star binaries, where high resolution grids are needed to resolve details of the matter flow.
Guiding of low-energy electrons by highly ordered Al2 O3 nanocapillaries
DEFF Research Database (Denmark)
Milosavljević, A.R.; Víkor, G.; Pešić, Z.D.
2007-01-01
We report an experimental study of guided transmission of low-energy (200-350 eV) electrons through highly ordered Al2 O3 nanocapillaries with large aspect ratio (140 nm diameter and 15 μm length). The nanochannel array was prepared using self-ordering phenomena during a two-step anodization...... process of a high-purity aluminum foil. The experimental results clearly show the existence of the guiding effect, as found for highly charged ions. The guiding of the electron beam was observed for tilt angles up to 12°. As seen for highly charged ions, the guiding efficiency increases with decreasing...
HIERtalker: A default hierarchy of high order neural networks that learns to read English aloud
Energy Technology Data Exchange (ETDEWEB)
An, Z.G.; Mniszewski, S.M.; Lee, Y.C.; Papcun, G.; Doolen, G.D.
1988-01-01
A new learning algorithm based on a default hierarchy of high order neural networks has been developed that is able to generalize as well as handle exceptions. It learns the ''building blocks'' or clusters of symbols in a stream that appear repeatedly and convey certain messages. The default hierarchy prevents a combinatoric explosion of rules. A simulator of such a hierarchy, HIERtalker, has been applied to the conversion of English words to phonemes. Achieved accuracy is 99% for trained words and ranges from 76% to 96% for sets of new words. 8 refs., 4 figs., 1 tab.
FEA identification of high order generalized equivalent circuits for MF high voltage transformers
Candolfi, Sylvain; Cros, Jérôme; Aguglia, Davide
2015-01-01
This paper presents a specific methodology to derive high order generalized equivalent circuits from electromagnetic finite element analysis for high voltage medium frequency and pulse transformers by splitting the main windings in an arbitrary number of elementary windings. With this modeling approach, the dynamic model of the transformer over a large bandwidth is improved and the order of the generalized equivalent circuit can be adapted to a specified bandwidth. This efficient tool can be used by the designer to quantify the influence of the local structure of transformers on their dynamic behavior. The influence of different topologies and winding configurations is investigated. Several application examples and an experimental validation are also presented.
High-order FDTD methods for transverse electromagnetic systems in dispersive inhomogeneous media.
Zhao, Shan
2011-08-15
This Letter introduces a novel finite-difference time-domain (FDTD) formulation for solving transverse electromagnetic systems in dispersive media. Based on the auxiliary differential equation approach, the Debye dispersion model is coupled with Maxwell's equations to derive a supplementary ordinary differential equation for describing the regularity changes in electromagnetic fields at the dispersive interface. The resulting time-dependent jump conditions are rigorously enforced in the FDTD discretization by means of the matched interface and boundary scheme. High-order convergences are numerically achieved for the first time in the literature in the FDTD simulations of dispersive inhomogeneous media. © 2011 Optical Society of America
High Order Finite Element Method for the Lambda modes problem on hexagonal geometry
International Nuclear Information System (INIS)
Gonzalez-Pintor, S.; Ginestar, D.; Verdu, G.
2009-01-01
A High Order Finite Element Method to approximate the Lambda modes problem for reactors with hexagonal geometry has been developed. This method is based on the expansion of the neutron flux in terms of the modified Dubiner's polynomials on a triangular mesh. This mesh is fixed and the accuracy of the method is improved increasing the degree of the polynomial expansions without the necessity of remeshing. The performance of method has been tested obtaining the dominant Lambda modes of different 2D reactor benchmark problems.
Fabrication of Highly Ordered Anodic Aluminium Oxide Templates on Silicon Substrates
2007-01-01
followed by the first anodisation step at 40 V in a 0.3 M oxalic acid at 10 8C for several hours. After chemically removing the anodised Al in the...M phosphoric acid or by dry-etching using chlorine-based gases. For a second method of forming a highly ordered nano- pore array in a thin Al film on...together, e apply a wet-etching process, using a mixture of 6% 3PO4 and 1.8% CrO3 with dispersant of polymethacrylic cid or Gum Arabic, which we developed
High-order Boussinesq-type modelling of nonlinear wave phenomena in deep and shallow water
DEFF Research Database (Denmark)
Madsen, Per A.; Fuhrman, David R.
2010-01-01
In this work, we start with a review of the development of Boussinesq theory for water waves covering the period from 1872 to date. Previous reviews have been given by Dingemans,1 Kirby,2,3 and Madsen & Schäffer.4 Next, we present our most recent high-order Boussinesq-type formulation valid for f...... from an undular sea bed; (8) Run-up of non-breaking solitary waves on a beach; and (9) Tsunami generation from submerged landslides....
Temporally coherent x-ray laser with the high order harmonic light
International Nuclear Information System (INIS)
Hasegawa, Noboru; Kawachi, Tetsuya; Kishimoto, Maki; Sukegawa, Kouta; Tanaka, Momoko; Ochi, Yoshihiro; Nishikino, Masaharu; Kawazome, Hayato; Nagashima, Keisuke
2005-01-01
We obtained the neon-like manganese x-ray laser with the injection of the high order harmonic light as the seed x-ray at the wavelength of 26.9 nm for the purpose of generation of the temporally coherent x-ray laser. The x-ray amplifier, which has quite narrow spectral width, selected and amplified the temporally coherent mode of the harmonic light. The temporal coherence of the mode selected harmonic light was nearly transform limited pulse, and the obtained x-ray laser with the seed x-ray expected to be nearly temporally coherent x-ray. (author)
Bolea, Mario; Mora, José; Ortega, Beatriz; Capmany, José
2013-11-18
We present a high-order UWB pulses generator based on a microwave photonic filter which provides a set of positive and negative samples by using the slicing of an incoherent optical source and the phase inversion in a Mach-Zehnder modulator. The simple scalability and high reconfigurability of the system permit a better accomplishment of the FCC requirements. Moreover, the proposed scheme permits an easy adaptation to pulse amplitude modulation, bi phase modulation, pulse shape modulation and pulse position modulation. The flexibility of the scheme for being adaptable to multilevel modulation formats permits to increase the transmission bit rate by using hybrid modulation formats.
Computation of nonlinear water waves with a high-order Boussinesq model
DEFF Research Database (Denmark)
Fuhrman, David R.; Madsen, Per A.; Bingham, Harry
2005-01-01
Computational highlights from a recently developed high-order Boussinesq model are shown. The model is capable of treating fully nonlinear waves (up to the breaking point) out to dimensionless depths of (wavenumber times depth) kh \\approx 25. Cases considered include the study of short......-crested waves in shallow/deep water, resulting in hexagonal/rectangular surface patterns; crescent waves, resulting from unstable perturbations of plane progressive waves; and highly-nonlinear wave-structure interactions. The emphasis is on physically demanding problems, and in eachcase qualitative and (when...
Finite-time output feedback stabilization of high-order uncertain nonlinear systems
Jiang, Meng-Meng; Xie, Xue-Jun; Zhang, Kemei
2018-06-01
This paper studies the problem of finite-time output feedback stabilization for a class of high-order nonlinear systems with the unknown output function and control coefficients. Under the weaker assumption that output function is only continuous, by using homogeneous domination method together with adding a power integrator method, introducing a new analysis method, the maximal open sector Ω of output function is given. As long as output function belongs to any closed sector included in Ω, an output feedback controller can be developed to guarantee global finite-time stability of the closed-loop system.
Tunneling-induced shift of the cutoff law for high-order above-threshold ionization
International Nuclear Information System (INIS)
Lai, X. Y.; Quan, W.; Liu, X.
2011-01-01
We investigate the cutoff law for high-order above-threshold ionization (HATI) within a semiclassical framework. By explicitly adopting the tunneling effect and considering the initial position shift of the tunneled electron from the origin in the model, the cutoff energy position in HATI spectrum exhibits a well-defined upshift from the simple-man model prediction. The comparison between numerical results from our improved semiclassical model and the quantum-orbit theory shows a good agreement for small values of the Keldysh parameter γ, implying the important role of the inherent quantum tunneling effect in HATI dynamics.
Enhancement of high-order harmonics in a plasma waveguide formed in clustered Ar gas.
Geng, Xiaotao; Zhong, Shiyang; Chen, Guanglong; Ling, Weijun; He, Xinkui; Wei, Zhiyi; Kim, Dong Eon
2018-02-05
Generation of high-order harmonics (HHs) is intensified by using a plasma waveguide created by a laser in a clustered gas jet. The formation of a plasma waveguide and the guiding of a laser beam are also demonstrated. Compared to the case without a waveguide, harmonics were strengthened up to nine times, and blue-shifted. Numerical simulation by solving the time-dependent Schrödinger equation in strong field approximation agreed well with experimental results. This result reveals that the strengthening is the result of improved phase matching and that the blue shift is a result of change in fundamental laser frequency due to self-phase modulation (SPM).
Propagation effects in the generation process of high-order vortex harmonics.
Zhang, Chaojin; Wu, Erheng; Gu, Mingliang; Liu, Chengpu
2017-09-04
We numerically study the propagation of a Laguerre-Gaussian beam through polar molecular media via the exact solution of full-wave Maxwell-Bloch equations where the rotating-wave and slowly-varying-envelope approximations are not included. It is found that beyond the coexistence of odd-order and even-order vortex harmonics due to inversion asymmetry of the system, the light propagation effect results in the intensity enhancement of a high-order vortex harmonics. Moreover, the orbital momentum successfully transfers from the fundamental laser driver to the vortex harmonics which topological charger number is directly proportional to its order.
Westling, Katarina; Julander, Inger; Ljungman, Per; Vondracek, Martin; Wretlind, Bengt; Jalal, Shah
2008-03-01
Viridans group streptococci (VGS) cause severe diseases such as infective endocarditis and septicaemia. Genetically, VGS species are very close to each other and it is difficult to identify them to species level with conventional methods. The aims of the present study were to use sequence analysis of the RNase P RNA gene (rnpB) to identify VGS species in clinical blood culture isolates, and to compare the results with the API 20 Strep system that is based on phenotypical characteristics. Strains from patients with septicaemia or endocarditis were analysed with PCR amplification and sequence analysis of the rnpB gene. Clinical data were registered as well. One hundred and thirty two VGS clinical blood culture isolates from patients with septicaemia (n=95) or infective endocarditis (n=36) were analysed; all but one were identified by rnpB. Streptococcus oralis, Streptococcus sanguinis and Streptococcus gordonii strains were most common in the patients with infective endocarditis. In the isolates from patients with haematological diseases, Streptococcus mitis and S. oralis dominated. In addition in 76 of the isolates it was possible to compare the results from rnpB analysis and the API 20 Strep system. In 39/76 (51%) of the isolates the results were concordant to species level; in 55 isolates there were no results from API 20 Strep. Sequence analysis of the RNase P RNA gene (rnpB) showed that almost all isolates could be identified. This could be of importance for evaluation of the portal of entry in patients with septicaemia or infective endocarditis.
Mitri, F G; Fellah, Z E A
2011-08-01
The present investigation examines the instantaneous force resulting from the interaction of an acoustical high-order Bessel vortex beam (HOBVB) with a rigid sphere. The rigid sphere case is important in fluid dynamics applications because it perfectly simulates the interaction of instantaneous sound waves in a reduced gravity environment with a levitated spherical liquid soft drop in air. Here, a closed-form solution for the instantaneous force involving the total pressure field as well as the Bessel beam parameters is obtained for the case of progressive, stationary and quasi-stationary waves. Instantaneous force examples for progressive waves are computed for both a fixed and a movable rigid sphere. The results show how the instantaneous force per unit cross-sectional surface and unit pressure varies versus the dimensionless frequency ka (k is the wave number in the fluid medium and a is the sphere's radius), the half-cone angle β and the order m of the HOBVB. It is demonstrated here that the instantaneous force is determined only for (m,n) = (0,1) (where n is the partial-wave number), and vanishes for m>0 because of symmetry. In addition, the instantaneous force and normalized amplitude velocity results are computed and compared with those of a rigid immovable (fixed) sphere. It is shown that they differ significantly for ka values below 5. The proposed analysis may be of interest in the analysis of instantaneous forces on spherical particles for particle manipulation, filtering, trapping and drug delivery. The presented solutions may also serve as a method for comparison to other solutions obtained by strictly numerical or asymptotic approaches. Copyright © 2011 Elsevier B.V. All rights reserved.
Barnett, Alex H.; Nelson, Bradley J.; Mahoney, J. Matthew
2015-09-01
We apply boundary integral equations for the first time to the two-dimensional scattering of time-harmonic waves from a smooth obstacle embedded in a continuously-graded unbounded medium. In the case we solve, the square of the wavenumber (refractive index) varies linearly in one coordinate, i.e. (Δ + E +x2) u (x1 ,x2) = 0 where E is a constant; this models quantum particles of fixed energy in a uniform gravitational field, and has broader applications to stratified media in acoustics, optics and seismology. We evaluate the fundamental solution efficiently with exponential accuracy via numerical saddle-point integration, using the truncated trapezoid rule with typically 102 nodes, with an effort that is independent of the frequency parameter E. By combining with a high-order Nyström quadrature, we are able to solve the scattering from obstacles 50 wavelengths across to 11 digits of accuracy in under a minute on a desktop or laptop.
Gao, Xiang; Zhang, Xiaohong; Song, Jinlin; Xu, Xiao; Xu, Anxiu; Wang, Mengke; Xie, Bingwu; Huang, Enyi; Deng, Feng; Wei, Shicheng
2015-01-01
The construction of functional biomimetic scaffolds that recapitulate the topographical and biochemical features of bone tissue extracellular matrix is now of topical interest in bone tissue engineering. In this study, a novel surface-functionalized electrospun polycaprolactone (PCL) nanofiber scaffold with highly ordered structure was developed to simulate the critical features of native bone tissue via a single step of catechol chemistry. Specially, under slightly alkaline aqueous solution, polydopamine (pDA) was coated on the surface of aligned PCL nanofibers after electrospinning, followed by covalent immobilization of bone morphogenetic protein-7-derived peptides onto the pDA-coated nanofiber surface. Contact angle measurement, Raman spectroscopy, and X-ray photoelectron spectroscopy confirmed the presence of pDA and peptides on PCL nanofiber surface. Our results demonstrated that surface modification with osteoinductive peptides could improve cytocompatibility of nanofibers in terms of cell adhesion, spreading, and proliferation. Most importantly, Alizarin Red S staining, quantitative real-time polymerase chain reaction, immunostaining, and Western blot revealed that human mesenchymal stem cells cultured on aligned nanofibers with osteoinductive peptides exhibited enhanced osteogenic differentiation potential than cells on randomly oriented nanofibers. Furthermore, the aligned nanofibers with osteoinductive peptides could direct osteogenic differentiation of human mesenchymal stem cells even in the absence of osteoinducting factors, suggesting superior osteogenic efficacy of biomimetic design that combines the advantages of osteoinductive peptide signal and highly ordered nanofibers on cell fate decision. The presented peptide-decorated bone-mimic nanofiber scaffolds hold a promising potential in the context of bone tissue engineering.
Zhou, Anran; Xie, Weixin; Pei, Jihong
2018-06-01
Accurate detection of maritime targets in infrared imagery under various sea clutter conditions is always a challenging task. The fractional Fourier transform (FRFT) is the extension of the Fourier transform in the fractional order, and has richer spatial-frequency information. By combining it with the high order statistic filtering, a new ship detection method is proposed. First, the proper range of angle parameter is determined to make it easier for the ship components and background to be separated. Second, a new high order statistic curve (HOSC) at each fractional frequency point is designed. It is proved that maximal peak interval in HOSC reflects the target information, while the points outside the interval reflect the background. And the value of HOSC relative to the ship is much bigger than that to the sea clutter. Then, search the curve's maximal target peak interval and extract the interval by bandpass filtering in fractional Fourier domain. The value outside the peak interval of HOSC decreases rapidly to 0, so the background is effectively suppressed. Finally, the detection result is obtained by the double threshold segmenting and the target region selection method. The results show the proposed method is excellent for maritime targets detection with high clutters.
Shah, Syed Awais Wahab
2017-11-24
This paper addresses the problem of blind demixing of instantaneous mixtures in a multiple-input multiple-output communication system. The main objective is to present efficient blind source separation (BSS) algorithms dedicated to moderate or high-order QAM constellations. Four new iterative batch BSS algorithms are presented dealing with the multimodulus (MM) and alphabet matched (AM) criteria. For the optimization of these cost functions, iterative methods of Givens and hyperbolic rotations are used. A pre-whitening operation is also utilized to reduce the complexity of design problem. It is noticed that the designed algorithms using Givens rotations gives satisfactory performance only for large number of samples. However, for small number of samples, the algorithms designed by combining both Givens and hyperbolic rotations compensate for the ill-whitening that occurs in this case and thus improves the performance. Two algorithms dealing with the MM criterion are presented for moderate order QAM signals such as 16-QAM. The other two dealing with the AM criterion are presented for high-order QAM signals. These methods are finally compared with the state of art batch BSS algorithms in terms of signal-to-interference and noise ratio, symbol error rate and convergence rate. Simulation results show that the proposed methods outperform the contemporary batch BSS algorithms.
High-Order Model and Dynamic Filtering for Frame Rate Up-Conversion.
Bao, Wenbo; Zhang, Xiaoyun; Chen, Li; Ding, Lianghui; Gao, Zhiyong
2018-08-01
This paper proposes a novel frame rate up-conversion method through high-order model and dynamic filtering (HOMDF) for video pixels. Unlike the constant brightness and linear motion assumptions in traditional methods, the intensity and position of the video pixels are both modeled with high-order polynomials in terms of time. Then, the key problem of our method is to estimate the polynomial coefficients that represent the pixel's intensity variation, velocity, and acceleration. We propose to solve it with two energy objectives: one minimizes the auto-regressive prediction error of intensity variation by its past samples, and the other minimizes video frame's reconstruction error along the motion trajectory. To efficiently address the optimization problem for these coefficients, we propose the dynamic filtering solution inspired by video's temporal coherence. The optimal estimation of these coefficients is reformulated into a dynamic fusion of the prior estimate from pixel's temporal predecessor and the maximum likelihood estimate from current new observation. Finally, frame rate up-conversion is implemented using motion-compensated interpolation by pixel-wise intensity variation and motion trajectory. Benefited from the advanced model and dynamic filtering, the interpolated frame has much better visual quality. Extensive experiments on the natural and synthesized videos demonstrate the superiority of HOMDF over the state-of-the-art methods in both subjective and objective comparisons.
Moosavifard, Seyyed E; El-Kady, Maher F; Rahmanifar, Mohammad S; Kaner, Richard B; Mousavi, Mir F
2015-03-04
The increasing demand for energy has triggered tremendous research efforts for the development of lightweight and durable energy storage devices. Herein, we report a simple, yet effective, strategy for high-performance supercapacitors by building three-dimensional pseudocapacitive CuO frameworks with highly ordered and interconnected bimodal nanopores, nanosized walls (∼4 nm) and large specific surface area of 149 m(2) g(-1). This interesting electrode structure plays a key role in providing facilitated ion transport, short ion and electron diffusion pathways and more active sites for electrochemical reactions. This electrode demonstrates excellent electrochemical performance with a specific capacitance of 431 F g(-1) (1.51 F cm(-2)) at 3.5 mA cm(-2) and retains over 70% of this capacitance when operated at an ultrafast rate of 70 mA cm(-2). When this highly ordered CuO electrode is assembled in an asymmetric cell with an activated carbon electrode, the as-fabricated device demonstrates remarkable performance with an energy density of 19.7 W h kg(-1), power density of 7 kW kg(-1), and excellent cycle life. This work presents a new platform for high-performance asymmetric supercapacitors for the next generation of portable electronics and electric vehicles.
Electrochemical synthesis of highly ordered polypyrrole on copper modified aluminium substrates
International Nuclear Information System (INIS)
Siddaramanna, Ashoka; Saleema, N.; Sarkar, D.K.
2014-01-01
Fabrication of highly ordered conducting polymers on metal surfaces has received a significant interest owing to their potential applications in organic electronic devices. In this context, we have developed a simple method for the synthesis of highly ordered polypyrrole (PPy) on copper modified aluminium surfaces via electrochemical polymerization process. A series of characteristic peaks of PPy evidenced on the infrared spectra of these surfaces confirm the formation of PPy. The X-ray diffraction (XRD) pattern of PPy deposited on copper modified aluminium surfaces also confirmed the deposition of PPy as a sharp and intense peak at 2θ angle of 23° attributable to PPy is observed while this peak is absent on PPy deposited on as-received aluminium surfaces. An atomic model of the interface of PPy/Cu has been presented based on the inter-atomic distance of copper–copper of (1 0 0) plane and the inter-monomer distance of PPy, to describe the ordering of PPy on Cu modified Al surfaces.
Effective high-order solver with thermally perfect gas model for hypersonic heating prediction
International Nuclear Information System (INIS)
Jiang, Zhenhua; Yan, Chao; Yu, Jian; Qu, Feng; Ma, Libin
2016-01-01
Highlights: • Design proper numerical flux for thermally perfect gas. • Line-implicit LUSGS enhances efficiency without extra memory consumption. • Develop unified framework for both second-order MUSCL and fifth-order WENO. • The designed gas model can be applied to much wider temperature range. - Abstract: Effective high-order solver based on the model of thermally perfect gas has been developed for hypersonic heat transfer computation. The technique of polynomial curve fit coupling to thermodynamics equation is suggested to establish the current model and particular attention has been paid to the design of proper numerical flux for thermally perfect gas. We present procedures that unify five-order WENO (Weighted Essentially Non-Oscillatory) scheme in the existing second-order finite volume framework and a line-implicit method that improves the computational efficiency without increasing memory consumption. A variety of hypersonic viscous flows are performed to examine the capability of the resulted high order thermally perfect gas solver. Numerical results demonstrate its superior performance compared to low-order calorically perfect gas method and indicate its potential application to hypersonic heating predictions for real-life problem.
Reliability-based design optimization via high order response surface method
International Nuclear Information System (INIS)
Li, Hong Shuang
2013-01-01
To reduce the computational effort of reliability-based design optimization (RBDO), the response surface method (RSM) has been widely used to evaluate reliability constraints. We propose an efficient methodology for solving RBDO problems based on an improved high order response surface method (HORSM) that takes advantage of an efficient sampling method, Hermite polynomials and uncertainty contribution concept to construct a high order response surface function with cross terms for reliability analysis. The sampling method generates supporting points from Gauss-Hermite quadrature points, which can be used to approximate response surface function without cross terms, to identify the highest order of each random variable and to determine the significant variables connected with point estimate method. The cross terms between two significant random variables are added to the response surface function to improve the approximation accuracy. Integrating the nested strategy, the improved HORSM is explored in solving RBDO problems. Additionally, a sampling based reliability sensitivity analysis method is employed to reduce the computational effort further when design variables are distributional parameters of input random variables. The proposed methodology is applied on two test problems to validate its accuracy and efficiency. The proposed methodology is more efficient than first order reliability method based RBDO and Monte Carlo simulation based RBDO, and enables the use of RBDO as a practical design tool.
Shah, Syed Awais Wahab; Abed-Meraim, Karim; Al-Naffouri, Tareq Y.
2017-01-01
This paper addresses the problem of blind demixing of instantaneous mixtures in a multiple-input multiple-output communication system. The main objective is to present efficient blind source separation (BSS) algorithms dedicated to moderate or high-order QAM constellations. Four new iterative batch BSS algorithms are presented dealing with the multimodulus (MM) and alphabet matched (AM) criteria. For the optimization of these cost functions, iterative methods of Givens and hyperbolic rotations are used. A pre-whitening operation is also utilized to reduce the complexity of design problem. It is noticed that the designed algorithms using Givens rotations gives satisfactory performance only for large number of samples. However, for small number of samples, the algorithms designed by combining both Givens and hyperbolic rotations compensate for the ill-whitening that occurs in this case and thus improves the performance. Two algorithms dealing with the MM criterion are presented for moderate order QAM signals such as 16-QAM. The other two dealing with the AM criterion are presented for high-order QAM signals. These methods are finally compared with the state of art batch BSS algorithms in terms of signal-to-interference and noise ratio, symbol error rate and convergence rate. Simulation results show that the proposed methods outperform the contemporary batch BSS algorithms.
An Automated Approach to Very High Order Aeroacoustic Computations in Complex Geometries
Dyson, Rodger W.; Goodrich, John W.
2000-01-01
Computational aeroacoustics requires efficient, high-resolution simulation tools. And for smooth problems, this is best accomplished with very high order in space and time methods on small stencils. But the complexity of highly accurate numerical methods can inhibit their practical application, especially in irregular geometries. This complexity is reduced by using a special form of Hermite divided-difference spatial interpolation on Cartesian grids, and a Cauchy-Kowalewslci recursion procedure for time advancement. In addition, a stencil constraint tree reduces the complexity of interpolating grid points that are located near wall boundaries. These procedures are used to automatically develop and implement very high order methods (>15) for solving the linearized Euler equations that can achieve less than one grid point per wavelength resolution away from boundaries by including spatial derivatives of the primitive variables at each grid point. The accuracy of stable surface treatments is currently limited to 11th order for grid aligned boundaries and to 2nd order for irregular boundaries.
High-Intensity High-order Harmonics Generated from Low-Density Plasma
International Nuclear Information System (INIS)
Ozaki, T.; Bom, L. B. Elouga; Abdul-Hadi, J.; Ganeev, R. A.; Haessler, S.; Salieres, P.
2009-01-01
We study the generation of high-order harmonics from lowly ionized plasma, using the 10 TW, 10 Hz laser of the Advanced Laser Light Source (ALLS). We perform detailed studies on the enhancement of a single order of the high-order harmonic spectrum generated in plasma using the fundamental and second harmonic of the ALLS beam line. We observe quasi-monochromatic harmonics for various targets, including Mn, Cr, Sn, and In. We identify most of the ionic/neutral transitions responsible for the enhancement, which all have strong oscillator strengths. We demonstrate intensity enhancements of the 13th, 17th, 29th, and 33rd harmonics from these targets using the 800 nm pump laser and varying its chirp. We also characterized the attosecond nature of such plasma harmonics, measuring attosecond pulse trains with 360 as duration for chromium plasma, using the technique of ''Reconstruction of Attosecond Beating by Interference of Two-photon Transitions''(RABBIT). These results show that plasma harmonics are intense source of ultrashort coherent soft x-rays.
High-order harmonic generation in a laser plasma: a review of recent achievements
International Nuclear Information System (INIS)
Ganeev, R A
2007-01-01
A review of studies of high-order harmonic generation in plasma plumes is presented. The generation of high-order harmonics (up to the 101st order, λ = 7.9 nm) of Ti:sapphire laser radiation during the propagation of short laser pulses through a low-excited, low-ionized plasma produced on the surfaces of different targets is analysed. The observation of considerable resonance-induced enhancement of a single harmonic (λ = 61.2 nm) at the plateau region with 10 -4 conversion efficiency in the case of an In plume can offer some expectations that analogous processes can be realized in other plasma samples in the shorter wavelength range. Recent achievements of single-harmonic enhancement at mid- and end-plateau regions are discussed. Various methods for the optimization of harmonic generation are analysed, such as the application of the second harmonic of driving radiation and the application of prepulses of different durations. The enhancement of harmonic generation efficiency during the propagation of femtosecond pulses through a nanoparticle-containing plasma is discussed. (topical review)
High-order moments of spin-orbit energy in a multielectron configuration
Na, Xieyu; Poirier, M.
2016-07-01
In order to analyze the energy-level distribution in complex ions such as those found in warm dense plasmas, this paper provides values for high-order moments of the spin-orbit energy in a multielectron configuration. Using second-quantization results and standard angular algebra or fully analytical expressions, explicit values are given for moments up to 10th order for the spin-orbit energy. Two analytical methods are proposed, using the uncoupled or coupled orbital and spin angular momenta. The case of multiple open subshells is considered with the help of cumulants. The proposed expressions for spin-orbit energy moments are compared to numerical computations from Cowan's code and agree with them. The convergence of the Gram-Charlier expansion involving these spin-orbit moments is analyzed. While a spectrum with infinitely thin components cannot be adequately represented by such an expansion, a suitable convolution procedure ensures the convergence of the Gram-Charlier series provided high-order terms are accounted for. A corrected analytical formula for the third-order moment involving both spin-orbit and electron-electron interactions turns out to be in fair agreement with Cowan's numerical computations.
A study and simulation of the impact of high-order aberrations to overlay error distribution
Sun, G.; Wang, F.; Zhou, C.
2011-03-01
With reduction of design rules, a number of corresponding new technologies, such as i-HOPC, HOWA and DBO have been proposed and applied to eliminate overlay error. When these technologies are in use, any high-order error distribution needs to be clearly distinguished in order to remove the underlying causes. Lens aberrations are normally thought to mainly impact the Matching Machine Overlay (MMO). However, when using Image-Based overlay (IBO) measurement tools, aberrations become the dominant influence on single machine overlay (SMO) and even on stage repeatability performance. In this paper, several measurements of the error distributions of the lens of SMEE SSB600/10 prototype exposure tool are presented. Models that characterize the primary influence from lens magnification, high order distortion, coma aberration and telecentricity are shown. The contribution to stage repeatability (as measured with IBO tools) from the above errors was predicted with simulator and compared to experiments. Finally, the drift of every lens distortion that impact to SMO over several days was monitored and matched with the result of measurements.
High-order-harmonic generation from H2+ molecular ions near plasmon-enhanced laser fields
Yavuz, I.; Tikman, Y.; Altun, Z.
2015-08-01
Simulations of plasmon-enhanced high-order-harmonic generation are performed for a H2+ molecular cation near the metallic nanostructures. We employ the numerical solution of the time-dependent Schrödinger equation in reduced coordinates. We assume that the main axis of H2+ is aligned perfectly with the polarization direction of the plasmon-enhanced field. We perform systematic calculations on plasmon-enhanced harmonic generation based on an infinite-mass approximation, i.e., pausing nuclear vibrations. Our simulations show that molecular high-order-harmonic generation from plasmon-enhanced laser fields is possible. We observe the dispersion of a plateau of harmonics when the laser field is plasmon enhanced. We find that the maximum kinetic energy of the returning electron follows 4 Up . We also find that when nuclear vibrations are enabled, the efficiency of the harmonics is greatly enhanced relative to that of static nuclei. However, the maximum kinetic energy 4 Up is largely maintained.
Pump-probe study of atoms and small molecules with laser driven high order harmonics
Cao, Wei
A commercially available modern laser can emit over 1015 photons within a time window of a few tens of femtoseconds (10-15second), which can be focused into a spot size of about 10 mum, resulting in a peak intensity above 1014W/cm2. This paves the way for table-top strong field physics studies such as above threshold ionization (ATI), non-sequential double ionization (NSDI), high order harmonic generation (HHG), etc.. Among these strong laser-matter interactions, high order harmonic generation, which combines many photons of the fundamental laser field into a single photon, offers a unique way to generate light sources in the vacuum ultraviolet (VUV) or extreme ultraviolet (EUV) region. High order harmonic photons are emitted within a short time window from a few tens of femtoseconds down to a few hundreds of attoseconds (10 -18second). This highly coherent nature of HHG allows it to be synchronized with an infrared (IR) laser pulse, and the pump-probe technique can be adopted to study ultrafast dynamic processes in a quantum system. The major work of this thesis is to develop a table-top VUV(EUV) light source based on HHG, and use it to study dynamic processes in atoms and small molecules with the VUV(EUV)-pump IR-probe method. A Cold Target Recoil Ion Momentum Spectroscopy (COLTRIMS) apparatus is used for momentum imaging of the interaction products. Two types of high harmonic pump pulses are generated and applied for pump-probe studies. The first one consists of several harmonics forming a short attosecond pulse train (APT) in the EUV regime (around 40 eV). We demonstrate that, (1) the auto-ionization process triggered by the EUV in cation carbon-monoxide and oxygen molecules can be modified by scanning the EUV-IR delay, (2) the phase information of quantum trajectories in bifurcated high harmonics can be extracted by performing an EUV-IR cross-correlation experiment, thus disclosing the macroscopic quantum control in HHG. The second type of high harmonic source
Dynamical evolution of space debris on high-elliptical orbits near high-order resonance zones
Kuznetsov, Eduard; Zakharova, Polina
Orbital evolution of objects on Molniya-type orbits is considered near high-order resonance zones. Initial conditions correspond to high-elliptical orbits with the critical inclination 63.4 degrees. High-order resonances are analyzed. Resonance orders are more than 5 and less than 50. Frequencies of perturbations caused by the effect of sectorial and tesseral harmonics of the Earth's gravitational potential are linear combinations of the mean motion of a satellite, angular velocities of motion of the pericenter and node of its orbit, and the angular velocity of the Earth. Frequencies of perturbations were calculated by taking into account secular perturbations from the Earth oblateness, the Moon, the Sun, and a solar radiation pressure. Resonance splitting effect leads to three sub-resonances. The study of dynamical evolution on long time intervals was performed on the basis of the results of numerical simulation. We used "A Numerical Model of the Motion of Artificial Earth's Satellites", developed by the Research Institute of Applied Mathematics and Mechanics of the Tomsk State University. The model of disturbing forces taken into account the main perturbing factors: the gravitational field of the Earth, the attraction of the Moon and the Sun, the tides in the Earth’s body, the solar radiation pressure, taking into account the shadow of the Earth, the Poynting-Robertson effect, and the atmospheric drag. Area-to-mass ratio varied from small values corresponding to satellites to big ones corresponding to space debris. The locations and sizes of resonance zones were refined from numerical simulation. The Poynting-Robertson effect results in a secular decrease in the semi-major axis of a spherically symmetrical satellite. In resonance regions the effect weakens slightly. Reliable estimates of secular perturbations of the semi-major axis were obtained from the numerical simulation. Under the Poynting-Robertson effect objects pass through the regions of high-order
A high-order Petrov-Galerkin method for the Boltzmann transport equation
International Nuclear Information System (INIS)
Pain, C.C.; Candy, A.S.; Piggott, M.D.; Buchan, A.; Eaton, M.D.; Goddard, A.J.H.; Oliveira, C.R.E. de
2005-01-01
We describe a new Petrov-Galerkin method using high-order terms to introduce dissipation in a residual-free formulation. The method is developed following both a Taylor series analysis and a variational principle, and the result has much in common with traditional Petrov-Galerkin, Self Adjoint Angular Flux (SAAF) and Even Parity forms of the Boltzmann transport equation. In addition, we consider the subtleties in constructing appropriate boundary conditions. In sub-grid scale (SGS) modelling of fluids the advantages of high-order dissipation are well known. Fourth-order terms, for example, are commonly used as a turbulence model with uniform dissipation. They have been shown to have superior properties to SGS models based upon second-order dissipation or viscosity. Even higher-order forms of dissipation (e.g. 16.-order) can offer further advantages, but are only easily realised by spectral methods because of the solution continuity requirements that these higher-order operators demand. Higher-order operators are more effective, bringing a higher degree of representation to the solution locally. Second-order operators, for example, tend to relax the solution to a linear variation locally, whereas a high-order operator will tend to relax the solution to a second-order polynomial locally. The form of the dissipation is also important. For example, the dissipation may only be applied (as it is in this work) in the streamline direction. While for many problems, for example Large Eddy Simulation (LES), simply adding a second or fourth-order dissipation term is a perfectly satisfactory SGS model, it is well known that a consistent residual-free formulation is required for radiation transport problems. This motivated the consideration of a new Petrov-Galerkin method that is residual-free, but also benefits from the advantageous features that SGS modelling introduces. We close with a demonstration of the advantages of this new discretization method over standard Petrov
Nodal DG-FEM solution of high-order Boussinesq-type equations
DEFF Research Database (Denmark)
Engsig-Karup, Allan Peter; Hesthaven, Jan S.; Bingham, Harry B.
2006-01-01
We present a discontinuous Galerkin finite element method (DG-FEM) solution to a set of high-order Boussinesq-type equations for modelling highly nonlinear and dispersive water waves in one and two horizontal dimensions. The continuous equations are discretized using nodal polynomial basis...... functions of arbitrary order in space on each element of an unstructured computational domain. A fourth order explicit Runge-Kutta scheme is used to advance the solution in time. Methods for introducing artificial damping to control mild nonlinear instabilities are also discussed. The accuracy...... and convergence of the model with both h (grid size) and p (order) refinement are verified for the linearized equations, and calculations are provided for two nonlinear test cases in one horizontal dimension: harmonic generation over a submerged bar; and reflection of a steep solitary wave from a vertical wall...
High-Order Finite-Difference Solution of the Poisson Equation with Interface Jump Conditions II
Marques, Alexandre; Nave, Jean-Christophe; Rosales, Rodolfo
2010-11-01
The Poisson equation with jump discontinuities across an interface is of central importance in Computational Fluid Dynamics. In prior work, Marques, Nave, and Rosales have introduced a method to obtain fourth-order accurate solutions for the constant coefficient Poisson problem. Here we present an extension of this method to solve the variable coefficient Poisson problem to fourth-order of accuracy. The extended method is based on local smooth extrapolations of the solution field across the interface. The extrapolation procedure uses a combination of cubic Hermite interpolants and a high-order representation of the interface using the Gradient-Augmented Level-Set technique. This procedure is compatible with the use of standard discretizations for the Laplace operator, and leads to modified linear systems which have the same sparsity pattern as the standard discretizations. As a result, standard Poisson solvers can be used with only minimal modifications. Details of the method and applications will be presented.
A fast, high-order solver for the Grad–Shafranov equation
International Nuclear Information System (INIS)
Pataki, Andras; Cerfon, Antoine J.; Freidberg, Jeffrey P.; Greengard, Leslie; O’Neil, Michael
2013-01-01
We present a new fast solver to calculate fixed-boundary plasma equilibria in toroidally axisymmetric geometries. By combining conformal mapping with Fourier and integral equation methods on the unit disk, we show that high-order accuracy can be achieved for the solution of the equilibrium equation and its first and second derivatives. Smooth arbitrary plasma cross-sections as well as arbitrary pressure and poloidal current profiles are used as initial data for the solver. Equilibria with large Shafranov shifts can be computed without difficulty. Spectral convergence is demonstrated by comparing the numerical solution with a known exact analytic solution. A fusion-relevant example of an equilibrium with a pressure pedestal is also presented
High-order sliding mode observer for fractional commensurate linear systems with unknown input
Belkhatir, Zehor
2017-05-20
In this paper, a high-order sliding mode observer (HOSMO) is proposed for the joint estimation of the pseudo-state and the unknown input of fractional commensurate linear systems with single unknown input and a single output. The convergence of the proposed observer is proved using a Lyapunov-based approach. In addition, an enhanced variant of the proposed fractional-HOSMO is introduced to avoid the peaking phenomenon and thus to improve the estimation results in the transient phase. Simulation results are provided to illustrate the performance of the proposed fractional observer in both noise-free and noisy cases. The effect of the observer’s gains on the estimated pseudo-state and unknown input is also discussed.
Single attosecond pulse from terahertz-assisted high-order harmonic generation
Balogh, Emeric; Kovacs, Katalin; Dombi, Peter; Fulop, Jozsef A.; Farkas, Gyozo; Hebling, Janos; Tosa, Valer; Varju, Katalin
2011-08-01
High-order harmonic generation by few-cycle 800 nm laser pulses in neon gas in the presence of a strong terahertz (THz) field is investigated numerically with propagation effects taken into account. Our calculations show that the combination of THz fields with up to 12 fs laser pulses can be an effective gating technique to generate single attosecond pulses. We show that in the presence of the strong THz field only a single attosecond burst can be phase matched, whereas radiation emitted during other half cycles disappears during propagation. The cutoff is extended and a wide supercontinuum appears in the near-field spectra, extending the available spectral width for isolated attosecond pulse generation from 23 to 93 eV. We demonstrate that phase-matching effects are responsible for the generation of isolated attosecond pulses, even in conditions when single-atom response yields an attosecond pulse train.
Single attosecond pulse from terahertz-assisted high-order harmonic generation
International Nuclear Information System (INIS)
Balogh, Emeric; Kovacs, Katalin; Dombi, Peter; Farkas, Gyozo; Fulop, Jozsef A.; Hebling, Janos; Tosa, Valer; Varju, Katalin
2011-01-01
High-order harmonic generation by few-cycle 800 nm laser pulses in neon gas in the presence of a strong terahertz (THz) field is investigated numerically with propagation effects taken into account. Our calculations show that the combination of THz fields with up to 12 fs laser pulses can be an effective gating technique to generate single attosecond pulses. We show that in the presence of the strong THz field only a single attosecond burst can be phase matched, whereas radiation emitted during other half cycles disappears during propagation. The cutoff is extended and a wide supercontinuum appears in the near-field spectra, extending the available spectral width for isolated attosecond pulse generation from 23 to 93 eV. We demonstrate that phase-matching effects are responsible for the generation of isolated attosecond pulses, even in conditions when single-atom response yields an attosecond pulse train.
Single attosecond pulse from terahertz-assisted high-order harmonic generation
Energy Technology Data Exchange (ETDEWEB)
Balogh, Emeric [Department of Optics and Quantum Electronics, University of Szeged, H-6701 Szeged (Hungary); Kovacs, Katalin [Department of Optics and Quantum Electronics, University of Szeged, H-6701 Szeged (Hungary); National Institute for R and D of Isotopic and Molecular Technologies, RO-400293 Cluj-Napoca (Romania); Dombi, Peter; Farkas, Gyozo [Research Institute for Solid State Physics and Optics, H-1525 Budapest (Hungary); Fulop, Jozsef A.; Hebling, Janos [Department of Experimental Physics, University of Pecs, H-7624 Pecs (Hungary); Tosa, Valer [National Institute for R and D of Isotopic and Molecular Technologies, RO-400293 Cluj-Napoca (Romania); Varju, Katalin [HAS Research Group on Laser Physics, University of Szeged, H-6701 Szeged (Hungary)
2011-08-15
High-order harmonic generation by few-cycle 800 nm laser pulses in neon gas in the presence of a strong terahertz (THz) field is investigated numerically with propagation effects taken into account. Our calculations show that the combination of THz fields with up to 12 fs laser pulses can be an effective gating technique to generate single attosecond pulses. We show that in the presence of the strong THz field only a single attosecond burst can be phase matched, whereas radiation emitted during other half cycles disappears during propagation. The cutoff is extended and a wide supercontinuum appears in the near-field spectra, extending the available spectral width for isolated attosecond pulse generation from 23 to 93 eV. We demonstrate that phase-matching effects are responsible for the generation of isolated attosecond pulses, even in conditions when single-atom response yields an attosecond pulse train.
High order spatial expansion for the method of characteristics applied to 3-D geometries
International Nuclear Information System (INIS)
Naymeh, L.; Masiello, E.; Sanchez, R.
2013-01-01
The method of characteristics is an efficient and flexible technique to solve the neutron transport equation and has been extensively used in two-dimensional calculations because it permits to deal with complex geometries. However, because of a very fast increase in storage requirements and number of floating operations, its direct application to three-dimensional routine transport calculations it is not still possible. In this work we introduce and analyze several modifications aimed to reduce memory requirements and to diminish the computing burden. We explore high-order spatial approximation, the use of intermediary trajectory-dependent flux expansions and the possibility of dynamic trajectory reconstruction from local tracking for typed subdomains. (authors)
Yan, Jie-Yun
2017-08-01
The theory of excitonic high-order sideband generation (HSG) in a semiconductor quantum well irradiated by two orthogonal terahertz (THz) fields (one frequency is an integral multiple of the other) is presented. The exact analytical solution to the sideband spectrum is given with the help of the generalized Bessel functions. As a special case, the HSG when the frequencies of these two THz fields are the same is derived and its dependence on the ellipticity of the THz field is discussed. The theory could explain the experiments, especially concerning the sensitive dependence of HSG signals on the ellipticity of the THz field: the signals are strong when the THz field has a linear polarization and totally vanish in case of a circular polarization. More interestingly, it was found that the strongest signal is not produced in the case of linear polarization for some sidebands. The theory is supported by numerical calculations.
Development of highly-ordered, ferroelectric inverse opal films using sol gel infiltration
Matsuura, N.; Yang, S.; Sun, P.; Ruda, H. E.
2005-07-01
Highly-ordered, ferroelectric, Pb-doped Ba0.7Sr0.3TiO3, inverse opal films were fabricated by spin-coating a sol gel precursor into a polystyrene artificial opal template followed by heat treatment. Thin films of the ferroelectric were independently studied and were shown to exhibit good dielectric properties and high refractive indices. The excellent quality of the final inverse opal film using this spin-coating infiltration method was confirmed by scanning electron microscopy images and the good correspondence between optical reflection data and theoretical simulations. Using this method, the structural and material parameters of the final ferroelectric inverse opal film were easily adjusted by template heating and through repeated infiltrations, without changes in the initial template or precursor. Also, crack-free inverse opal thin films were fabricated over areas comparable to that of the initial crack-free polystyrene template (˜100 by 100 μm2).
High-order Composite Likelihood Inference for Max-Stable Distributions and Processes
Castruccio, Stefano; Huser, Raphaë l; Genton, Marc G.
2015-01-01
In multivariate or spatial extremes, inference for max-stable processes observed at a large collection of locations is a very challenging problem in computational statistics, and current approaches typically rely on less expensive composite likelihoods constructed from small subsets of data. In this work, we explore the limits of modern state-of-the-art computational facilities to perform full likelihood inference and to efficiently evaluate high-order composite likelihoods. With extensive simulations, we assess the loss of information of composite likelihood estimators with respect to a full likelihood approach for some widely-used multivariate or spatial extreme models, we discuss how to choose composite likelihood truncation to improve the efficiency, and we also provide recommendations for practitioners. This article has supplementary material online.
Engineering of highly ordered TiO2 nanopore arrays by anodization
Wang, Huijie; Huang, Zhennan; Zhang, Li; Ding, Jie; Ma, Zhaoxia; Liu, Yong; Kou, Shengzhong; Yang, Hangsheng
2016-07-01
Finite element analysis was used to simulate the current density distributions in the TiO2 barrier layer formed at the initial stage of Ti anodization. The morphology modification of the barrier layer was found to induce current density distribution change. By starting the anodization with proper TiO2 barrier layer morphology, the current density distribution can be adjusted to favor the formation of either nanotube arrays or nanopore arrays of anodic TiO2. We also found that the addition of sodium acetate into the electrolyte suppressed both the field-assisted chemical dissolution of TiO2 and the TiF62- hydrolysis induced TiO2 deposition during anodization, and thus further favored the nanopore formation. Accordingly, highly ordered anodic TiO2 nanopore arrays, similar to anodic aluminum oxide nanopore arrays, were successfully prepared.
Solution of stochastic nonlinear PDEs using Wiener-Hermite expansion of high orders
El Beltagy, Mohamed
2016-01-06
In this work, the Wiener-Hermite Expansion (WHE) is used to solve stochastic nonlinear PDEs excited with noise. The generation of the equivalent set of deterministic integro-differential equations is automated and hence allows for high order terms of WHE. The automation difficulties are discussed, solved and implemented to output the final system to be solved. A numerical Pikard-like algorithm is suggested to solve the resulting deterministic system. The automated WHE is applied to the 1D diffusion equation and to the heat equation. The results are compared with previous solutions obtained with WHEP (WHE with perturbation) technique. The solution obtained using the suggested WHE technique is shown to be the limit of the WHEP solutions with infinite number of corrections. The automation is extended easily to account for white-noise of higher dimension and for general nonlinear PDEs.
High-order Composite Likelihood Inference for Max-Stable Distributions and Processes
Castruccio, Stefano
2015-09-29
In multivariate or spatial extremes, inference for max-stable processes observed at a large collection of locations is a very challenging problem in computational statistics, and current approaches typically rely on less expensive composite likelihoods constructed from small subsets of data. In this work, we explore the limits of modern state-of-the-art computational facilities to perform full likelihood inference and to efficiently evaluate high-order composite likelihoods. With extensive simulations, we assess the loss of information of composite likelihood estimators with respect to a full likelihood approach for some widely-used multivariate or spatial extreme models, we discuss how to choose composite likelihood truncation to improve the efficiency, and we also provide recommendations for practitioners. This article has supplementary material online.
Solution of stochastic nonlinear PDEs using Wiener-Hermite expansion of high orders
El Beltagy, Mohamed
2016-01-01
In this work, the Wiener-Hermite Expansion (WHE) is used to solve stochastic nonlinear PDEs excited with noise. The generation of the equivalent set of deterministic integro-differential equations is automated and hence allows for high order terms of WHE. The automation difficulties are discussed, solved and implemented to output the final system to be solved. A numerical Pikard-like algorithm is suggested to solve the resulting deterministic system. The automated WHE is applied to the 1D diffusion equation and to the heat equation. The results are compared with previous solutions obtained with WHEP (WHE with perturbation) technique. The solution obtained using the suggested WHE technique is shown to be the limit of the WHEP solutions with infinite number of corrections. The automation is extended easily to account for white-noise of higher dimension and for general nonlinear PDEs.
High-order sliding mode observer for fractional commensurate linear systems with unknown input
Belkhatir, Zehor; Laleg-Kirati, Taous-Meriem
2017-01-01
In this paper, a high-order sliding mode observer (HOSMO) is proposed for the joint estimation of the pseudo-state and the unknown input of fractional commensurate linear systems with single unknown input and a single output. The convergence of the proposed observer is proved using a Lyapunov-based approach. In addition, an enhanced variant of the proposed fractional-HOSMO is introduced to avoid the peaking phenomenon and thus to improve the estimation results in the transient phase. Simulation results are provided to illustrate the performance of the proposed fractional observer in both noise-free and noisy cases. The effect of the observer’s gains on the estimated pseudo-state and unknown input is also discussed.
Wang, Guoxiu; Liu, Hao; Horvat, Josip; Wang, Bei; Qiao, Shizhang; Park, Jinsoo; Ahn, Hyojun
2010-09-24
Highly ordered mesoporous Co(3)O(4) nanostructures were prepared using KIT-6 and SBA-15 silica as hard templates. The structures were confirmed by small angle X-ray diffraction, high resolution transmission electron microscopy, and N(2) adsorption-desorption isotherm analysis. Both KIT-6 cubic and SBA-15 hexagonal mesoporous Co(3)O(4) samples exhibited a low Néel temperature and bulk antiferromagnetic coupling due to geometric confinement of antiferromagnetic order within the nanoparticles. Mesoporous Co(3)O(4) electrode materials have demonstrated the high lithium storage capacity of more than 1200 mAh g(-1) with an excellent cycle life. They also exhibited a high specific capacitance of 370 F g(-1) as electrodes in supercapacitors.
Fabrication of highly ordered nanoporous alumina films by stable high-field anodization
International Nuclear Information System (INIS)
Li Yanbo; Zheng Maojun; Ma Li; Shen Wenzhong
2006-01-01
Stable high-field anodization (1500-4000 A m -2 ) for the fabrication of highly ordered porous anodic alumina films has been realized in a H 3 PO 4 -H 2 O-C 2 H 5 OH system. By maintaining the self-ordering voltage and adjusting the anodizing current density, high-quality self-ordered alumina films with a controllable inter-pore distance over a large range are achieved. The high anodizing current densities lead to high-speed film growth (4-10 μm min -1 ). The inter-pore distance is not solely dependent on the anodizing voltage, but is also influenced by the anodizing current density. This approach is simple and cost-effective, and is of great value for applications in diverse areas of nanotechnology
Synthesis of highly ordered nanopores on alumina by two-step anodization process
Energy Technology Data Exchange (ETDEWEB)
Bwana, Nicholas N. [University of Oxford, Department of Engineering Science (United Kingdom)], E-mail: Nicholas.Bwana@eng.ox.ac.uk
2008-02-15
Highly ordered anodic alumina was produced, on RF sputtered aluminium on a conductive glass substrate, by two step anodizing process in 0.4 M sulphuric acid at constant cell potentials of between 5 and 25 V and at a constant current density of 20 mA cm{sup -2}. The temperature was kept constant at 15 deg. C during both anodization processes. The effects of the anodizing potential, current density, and time on the pore diameters were established. Longer anodization periods result in wider irregular pores with reduced porosity for both constant potential and constant current density anodization processes. The current density increases with increasing constant anodizing potential and generally remains constant with time after a sharp rise. Potential drop during constant current density anodization behaves in a similar manner. We confirm that sulphuric acid has a self-ordering potential of 25 V above which burning occurs.
Effects of highly ordered TiO2 nanotube substrates on the nucleation of Cu electrodeposits.
Ryu, Won Hee; Park, Chan Jin; Kwon, Hyuk Sang
2010-05-01
We investigated the effects of TiO2 nanotube substrates on the nucleation density of Cu during electrodeposition in a solution of CuSO4 and H2SO4 at 50 degrees C compared with those of pure Ti and micro-porous TiO2 substrates. During electrodeposition, the density of Cu nuclei on the TiO2 nanotube substrate increased and the average size of Cu nuclei decreased with increasing anodizing voltage and time for the synthesis of the substrate. In addition, the nucleation density of Cu electrodeposits on the highly ordered TiO2 nanotube substrate was much higher than that on pure Ti and micro-porous TiO2 substrates.
Synthesis of highly ordered TiO2 nanotube in malonic acid solution by anodization.
Ryu, Won Hee; Park, Chan Jin; Kwon, Hyuk Sang
2008-10-01
We synthesized TiO2 nanotube array by anodizing in a solution of malonic acid (HOOCCH2COOH) and NH4F, and analyzed the morphology of the nanotube using scanning electron microscopy (SEM). The morphology of TiO2 nanotube was largely affected by anodizing time, anodizing voltage, and malonic acid concentration. With increasing the anodizing voltage from 5 V to 20 V, the diameter of TiO2 nanotube was increased from about 20 nm to 110 nm and its length from about 10 nm to 700 nm. In addition, the length of TiO2 nanotube was increased with increasing anodizing time up to 6 h at 20 V. We obtained the longest and the most highly ordered nanotube structure when anodizing Ti in a solution of 0.5 wt% NH4F and 1 M malonic acid at 20 V for 6 h.
An innovative approach to synthesize highly-ordered TiO2 nanotubes.
Isimjan, Tayirjan T; Yang, D Q; Rohani, Sohrab; Ray, Ajay K
2011-02-01
An innovative route to prepare highly-ordered and dimensionally controlled TiO2 nanotubes has been proposed using a mild sonication method. The nanotube arrays were prepared by the anodization of titanium in an electrolyte containing 3% NH4F and 5% H2O in glycerol. It is demonstrated that the TiO2 nanostructures has two layers: the top layer is TiO2 nanowire and underneath is well-ordered TiO2 nanotubes. The top layer can easily fall off and form nanowires bundles by implementing a mild sonication after a short annealing time. We found that the dimensions of the TiO2 nanotubes were only dependent on the anodizing condition. The proposed technique may be extended to fabricate reproducible well-ordered TiO2 nanotubes with large area on other metals.
Wang, Jie; Zong, Qun; Su, Rui; Tian, Bailing
2014-05-01
This paper investigates the problem of tracking control with uncertainties for a flexible air-breathing hypersonic vehicle (FAHV). In order to overcome the analytical intractability of this model, an Input-Output linearization model is constructed for the purpose of feedback control design. Then, the continuous finite time convergence high order sliding mode controller is designed for the Input-Output linearization model without uncertainties. In addition, a nonlinear disturbance observer is applied to estimate the uncertainties in order to compensate the controller and disturbance suppression, where disturbance observer and controller synthesis design is obtained. Finally, the synthesis of controller and disturbance observer is used to achieve the tracking for the velocity and altitude of the FAHV and simulations are presented to illustrate the effectiveness of the control strategies. Copyright © 2014 ISA. Published by Elsevier Ltd. All rights reserved.
Output Feedback Distributed Containment Control for High-Order Nonlinear Multiagent Systems.
Li, Yafeng; Hua, Changchun; Wu, Shuangshuang; Guan, Xinping
2017-01-31
In this paper, we study the problem of output feedback distributed containment control for a class of high-order nonlinear multiagent systems under a fixed undirected graph and a fixed directed graph, respectively. Only the output signals of the systems can be measured. The novel reduced order dynamic gain observer is constructed to estimate the unmeasured state variables of the system with the less conservative condition on nonlinear terms than traditional Lipschitz one. Via the backstepping method, output feedback distributed nonlinear controllers for the followers are designed. By means of the novel first virtual controllers, we separate the estimated state variables of different agents from each other. Consequently, the designed controllers show independence on the estimated state variables of neighbors except outputs information, and the dynamics of each agent can be greatly different, which make the design method have a wider class of applications. Finally, a numerical simulation is presented to illustrate the effectiveness of the proposed method.
Resonance Excitation of Longitudinal High Order Modes in Project X Linac
Energy Technology Data Exchange (ETDEWEB)
Khabiboulline, T.N.; Sukhanov, A.AUTHOR = Awida, M.; Gonin, I.; Lunin, A.AUTHOR = Solyak, N.; Yakovlev, V.; /Fermilab
2012-05-01
Results of simulation of power loss due to excitation of longitudinal high order modes (HOMs) in the accelerating superconducting RF system of CW linac of Project X are presented. Beam structures corresponding to the various modes of Project X operation are considered: CW regime for 3 GeV physics program; pulsed mode for neutrino experiments; and pulsed regime, when Project X linac operates as a driver for Neutrino Factory/Muon Collider. Power loss and associated heat load due to resonance excitation of longitudinal HOMs are shown to be small in all modes of operation. Conclusion is made that HOM couplers can be removed from the design of superconducting RF cavities of Project X linac.
A Modified AH-FDTD Unconditionally Stable Method Based on High-Order Algorithm
Directory of Open Access Journals (Sweden)
Zheng Pan
2017-01-01
Full Text Available The unconditionally stable method, Associated-Hermite FDTD, has attracted more and more attentions in computational electromagnetic for its time-frequency compact property. Because of the fewer orders of AH basis needed in signal reconstruction, the computational efficiency can be improved further. In order to further improve the accuracy of the traditional AH-FDTD, a high-order algorithm is introduced. Using this method, the dispersion error induced by the space grid can be reduced, which makes it possible to set coarser grid. The simulation results show that, on the condition of coarse grid, the waveforms obtained from the proposed method are matched well with the analytic result, and the accuracy of the proposed method is higher than the traditional AH-FDTD. And the efficiency of the proposed method is higher than the traditional FDTD method in analysing 2D waveguide problems with fine-structure.
Dynamic modification of the fragmentation of COq+ excited states generated with high-order harmonics
International Nuclear Information System (INIS)
Cao, W.; De, S.; Singh, K. P.; Chen, S.; Laurent, G.; Ray, D.; Ben-Itzhak, I.; Cocke, C. L.; Schoeffler, M. S.; Belkacem, A.; Osipov, T.; Rescigno, T.; Alnaser, A. S.; Bocharova, I. A.; Zherebtsov, S.; Kling, M. F.; Litvinyuk, I. V.
2010-01-01
The dynamic process of fragmentation of CO q+ excited states is investigated using a pump-probe approach. EUV radiation (32-48 eV) generated by high-order harmonics was used to ionize and excite CO molecules and a time-delayed infrared (IR) pulse (800 nm) was used to influence the evolution of the dissociating multichannel wave packet. Two groups of states, separable experimentally by their kinetic-energy release (KER), are populated by the EUV and lead to C + -O + fragmentation: direct double ionization of the neutral molecule and fragmentation of the cation leading to C + -O*, followed by autoionization of O*. The IR pulse was found to modify the KER of the latter group in a delay-dependent way which is explained with a model calculation.
Superconducting linac beam dynamics with high-order maps for RF resonators
Geraci, A A; Pardo, R C; 10.1016/j.nima.2003.11.177
2004-01-01
The arbitrary-order map beam optics code COSY Infinity has recently been adapted to calculate accurate high-order ion-optical maps for electrostatic and radio-frequency accelerating structures. The beam dynamics of the superconducting low-velocity positive-ion injector linac for the ATLAS accelerator at Argonne National Lab is used to demonstrate some advantages of the new simulation capability. The injector linac involves four different types of superconducting accelerating structures and has a total of 18 resonators. The detailed geometry for each of the accelerating cavities is included, allowing an accurate representation of the on- and off-axis electric fields. The fields are obtained within the code from a Poisson-solver for cylindrically symmetric electrodes of arbitrary geometry. The transverse focusing is done with superconducting solenoids. A detailed comparison of the transverse and longitudinal phase space is made with the conventional ray-tracing code LINRAY. The two codes are evaluated for ease ...
Sjogreen, Bjoern; Yee, H. C.
2007-01-01
Flows containing steady or nearly steady strong shocks in parts of the flow field, and unsteady turbulence with shocklets on other parts of the flow field are difficult to capture accurately and efficiently employing the same numerical scheme even under the multiblock grid or adaptive grid refinement framework. On one hand, sixth-order or higher shock-capturing methods are appropriate for unsteady turbulence with shocklets. On the other hand, lower order shock-capturing methods are more effective for strong steady shocks in terms of convergence. In order to minimize the shortcomings of low order and high order shock-capturing schemes for the subject flows,a multi- block overlapping grid with different orders of accuracy on different blocks is proposed. Test cases to illustrate the performance of the new solver are included.
Probe of Multielectron Dynamics in Xenon by Caustics in High-Order Harmonic Generation
Faccialà, D.; Pabst, S.; Bruner, B. D.; Ciriolo, A. G.; De Silvestri, S.; Devetta, M.; Negro, M.; Soifer, H.; Stagira, S.; Dudovich, N.; Vozzi, C.
2016-08-01
We investigated the giant resonance in xenon by high-order harmonic generation spectroscopy driven by a two-color field. The addition of a nonperturbative second harmonic component parallel to the driving field breaks the symmetry between neighboring subcycles resulting in the appearance of spectral caustics at two distinct cutoff energies. By controlling the phase delay between the two color components it is possible to tailor the harmonic emission in order to amplify and isolate the spectral feature of interest. In this Letter we demonstrate how this control scheme can be used to investigate the role of electron correlations that give birth to the giant resonance in xenon. The collective excitations of the giant dipole resonance in xenon combined with the spectral manipulation associated with the two-color driving field allow us to see features that are normally not accessible and to obtain a good agreement between the experimental results and the theoretical predictions.
Laser plasma as a source of intense attosecond pulses via high-order harmonic generation
International Nuclear Information System (INIS)
Ozaki, T.
2013-01-01
The incredible progress in ultrafast laser technology and Ti:sapphire lasers have lead to many important applications, one of them being high-order harmonic generation (HHG). HHG is a source of coherent extreme ultraviolet (XUV) radiation, which has opened new frontiers in science by extending nonlinear optics and time-resolved spectroscopy to the XUV region, and pushing ultrafast science to the attosecond domain. Progress in attosecond science has revealed many new phenomena that have not been seen with femtosecond pulses. Clearly, the next frontier is to study nonlinear effects at the attosecond timescale and in the XUV. However, a problem with present-day attosecond pulses is that they are just too weak to induce measurable nonlinearities, which severely limits the application of this source. While HHG from solid targets has shown promise for higher conversion efficiency, there is no experiment so far that demonstrates isolated attosecond pulse generation. The generation of isolated, several 100-as pulses with few-µJ energy will enable us to enter a completely new phase in attoscience. In past works, we have demonstrated that high-order harmonics from lowly ionized plasma is a highly efficient method to generate coherent XUV pulses. For example, indium plasma has been shown to generate intense 13th harmonic of the Ti:sapphire laser, with conversion efficiency of 10-4. However, the quasi-monochromatic nature of indium harmonics would make it difficult to generate attosecond pulses. We have also demonstrated that one could increase the harmonic yield by using nanoparticle targets. Specifically, we showed that by using indium oxide nanoparticles or C60 film, we could obtain intense harmonics between wavelengths of 50 to 90 nm. The energy in each of these harmonic orders was measured to be a few µJ, which is sufficient for many applications. However, the problem of using nanoparticle or film targets is the rapid decrease in the harmonic intensity, due to the rapid
LABAN-PEL: a two-dimensional, multigroup diffusion, high-order response matrix code
International Nuclear Information System (INIS)
Mueller, E.Z.
1991-06-01
The capabilities of LABAN-PEL is described. LABAN-PEL is a modified version of the two-dimensional, high-order response matrix code, LABAN, written by Lindahl. The new version extends the capabilities of the original code with regard to the treatment of neutron migration by including an option to utilize full group-to-group diffusion coefficient matrices. In addition, the code has been converted from single to double precision and the necessary routines added to activate its multigroup capability. The coding has also been converted to standard FORTRAN-77 to enhance the portability of the code. Details regarding the input data requirements and calculational options of LABAN-PEL are provided. 13 refs
High order harmonic generation in noble gases using plasmonic field enhancement
International Nuclear Information System (INIS)
Ciappina, Marcelo F.; Shaaran, Tahir; Lewenstein, Maciej
2013-01-01
Theoretical studies of high-order harmonic generation (HHG) in rare gases driven by plasmonic field enhancement are presented. This kind of fields appears when plasmonic nanostructures are illuminated by an intense few-cycle laser and have a particular spatial dependency, depending on the geometrical shape of the nanostructure. It is demonstrated that the strong nonhomogeneous character of the laser enhanced field plays an important role in the HHG process and significantly extends the harmonic cutoff. The models are based on numerical solution of the time dependent Schroedinger equation (TDSE) and supported by classical and semiclassical calculations. (copyright 2012 by WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim)
Castruccio, Stefano; Huser, Raphaë l; Genton, Marc G.
2016-01-01
In multivariate or spatial extremes, inference for max-stable processes observed at a large collection of points is a very challenging problem and current approaches typically rely on less expensive composite likelihoods constructed from small subsets of data. In this work, we explore the limits of modern state-of-the-art computational facilities to perform full likelihood inference and to efficiently evaluate high-order composite likelihoods. With extensive simulations, we assess the loss of information of composite likelihood estimators with respect to a full likelihood approach for some widely used multivariate or spatial extreme models, we discuss how to choose composite likelihood truncation to improve the efficiency, and we also provide recommendations for practitioners. This article has supplementary material online.
Computational Performance of a Parallelized Three-Dimensional High-Order Spectral Element Toolbox
Bosshard, Christoph; Bouffanais, Roland; Clémençon, Christian; Deville, Michel O.; Fiétier, Nicolas; Gruber, Ralf; Kehtari, Sohrab; Keller, Vincent; Latt, Jonas
In this paper, a comprehensive performance review of an MPI-based high-order three-dimensional spectral element method C++ toolbox is presented. The focus is put on the performance evaluation of several aspects with a particular emphasis on the parallel efficiency. The performance evaluation is analyzed with help of a time prediction model based on a parameterization of the application and the hardware resources. A tailor-made CFD computation benchmark case is introduced and used to carry out this review, stressing the particular interest for clusters with up to 8192 cores. Some problems in the parallel implementation have been detected and corrected. The theoretical complexities with respect to the number of elements, to the polynomial degree, and to communication needs are correctly reproduced. It is concluded that this type of code has a nearly perfect speed up on machines with thousands of cores, and is ready to make the step to next-generation petaflop machines.
Coherent Sources of XUV Radiation Soft X-Ray Lasers and High-Order Harmonic Generation
Jaeglé, Pierre
2006-01-01
Extreme ultraviolet radiation, also referred to as soft X-rays or XUV, offers very special optical properties. The X-UV refractive index of matter is such that normal reflection cannot take place on polished surfaces whereas beam transmission through one micrometer of almost all materials reduces to zero. Therefore, it has long been a difficult task to imagine and to implement devices designed for complex optics experiments in this wavelength range. Thanks to new sources of coherent radiation - XUV-lasers and High Order Harmonics - the use of XUV radiation, for interferometry, holography, diffractive optics, non-linear radiation-matter interaction, time-resolved study of fast and ultrafast phenomena and many other applications, including medical sciences, is ubiquitous.
Resonance Excitation of Longitudinal High Order Modes in Project X Linac
International Nuclear Information System (INIS)
Gonin, I.V.; Khabiboulline, T.N.; Lunin, A.; Solyak, N.; Sukhanov, A.I.; Yakovlev, V.P.; Awida, M.H.
2012-01-01
Results of simulation of power loss due to excitation of longitudinal high order modes (HOMs) in the accelerating superconducting RF system of CW linac of Project X are presented. Beam structures corresponding to the various modes of Project X operation are considered: CW regime for 3 GeV physics program; pulsed mode for neutrino experiments; and pulsed regime, when Project X linac operates as a driver for Neutrino Factory/Muon Collider. Power loss and associated heat load due to resonance excitation of longitudinal HOMs are shown to be small in all modes of operation. Conclusion is made that HOM couplers can be removed from the design of superconducting RF cavities of Project X linac.
International Nuclear Information System (INIS)
Zaretsky, D F; Korneev, Ph; Becker, W
2010-01-01
Extending the Lewenstein model of high-order harmonic generation (HHG) in a laser-irradiated atom, a model of HHG in a cluster is formulated. The constituent atoms of the cluster are assumed to be partly ionized. An electron freed through tunnelling may recombine either with its parent ion or with another ion in the vicinity. Harmonics due to the former process are coherent within the same cluster and may be coherent between different clusters, while harmonics due to the latter process are incoherent. Depending on the density of available ions, the incoherent mechanism may dominate the total harmonic yield, and the harmonic spectrum, which extends to higher energies, has a less distinct cutoff and an enhanced low-energy part.
Selective suppression of high-order harmonics within phase-matched spectral regions.
Lerner, Gavriel; Diskin, Tzvi; Neufeld, Ofer; Kfir, Ofer; Cohen, Oren
2017-04-01
Phase matching in high-harmonic generation leads to enhancement of multiple harmonics. It is sometimes desired to control the spectral structure within the phase-matched spectral region. We propose a scheme for selective suppression of high-order harmonics within the phase-matched spectral region while weakly influencing the other harmonics. The method is based on addition of phase-mismatched segments within a phase-matched medium. We demonstrate the method numerically in two examples. First, we show that one phase-mismatched segment can significantly suppress harmonic orders 9, 15, and 21. Second, we show that two phase-mismatched segments can efficiently suppress circularly polarized harmonics with one helicity over the other when driven by a bi-circular field. The new method may be useful for various applications, including the generation of highly helical bright attosecond pulses.
Immersed boundary method combined with a high order compact scheme on half-staggered meshes
International Nuclear Information System (INIS)
Księżyk, M; Tyliszczak, A
2014-01-01
This paper presents the results of computations of incompressible flows performed with a high-order compact scheme and the immersed boundary method. The solution algorithm is based on the projection method implemented using the half-staggered grid arrangement in which the velocity components are stored in the same locations while the pressure nodes are shifted half a cell size. The time discretization is performed using the predictor-corrector method in which the forcing terms used in the immersed boundary method acts in both steps. The solution algorithm is verified based on 2D flow problems (flow in a lid-driven skewed cavity, flow over a backward facing step) and turns out to be very accurate on computational meshes comparable with ones used in the classical approaches, i.e. not based on the immersed boundary method.
High-Order Local Pooling and Encoding Gaussians Over a Dictionary of Gaussians.
Li, Peihua; Zeng, Hui; Wang, Qilong; Shiu, Simon C K; Zhang, Lei
2017-07-01
Local pooling (LP) in configuration (feature) space proposed by Boureau et al. explicitly restricts similar features to be aggregated, which can preserve as much discriminative information as possible. At the time it appeared, this method combined with sparse coding achieved competitive classification results with only a small dictionary. However, its performance lags far behind the state-of-the-art results as only the zero-order information is exploited. Inspired by the success of high-order statistical information in existing advanced feature coding or pooling methods, we make an attempt to address the limitation of LP. To this end, we present a novel method called high-order LP (HO-LP) to leverage the information higher than the zero-order one. Our idea is intuitively simple: we compute the first- and second-order statistics per configuration bin and model them as a Gaussian. Accordingly, we employ a collection of Gaussians as visual words to represent the universal probability distribution of features from all classes. Our problem is naturally formulated as encoding Gaussians over a dictionary of Gaussians as visual words. This problem, however, is challenging since the space of Gaussians is not a Euclidean space but forms a Riemannian manifold. We address this challenge by mapping Gaussians into the Euclidean space, which enables us to perform coding with common Euclidean operations rather than complex and often expensive Riemannian operations. Our HO-LP preserves the advantages of the original LP: pooling only similar features and using a small dictionary. Meanwhile, it achieves very promising performance on standard benchmarks, with either conventional, hand-engineered features or deep learning-based features.
Highly ordered macroporous woody biochar with ultra-high carbon content as supercapacitor electrodes
International Nuclear Information System (INIS)
Jiang, Junhua; Zhang, Lei; Wang, Xinying; Holm, Nancy; Rajagopalan, Kishore; Chen, Fanglin; Ma, Shuguo
2013-01-01
Woody biochar monolith with ultra-high carbon content and highly ordered macropores has been prepared via one-pot pyrolysis and carbonization of red cedar wood at 750 °C without the need of post-treatment. Energy-dispersive spectroscope (EDX) and scanning electron microscope (SEM) studies show that the original biochar has a carbon content of 98 wt% with oxygen as the only detectable impurity and highly ordered macroporous texture characterized by alternating regular macroporous regions and narrow porous regions. Moreover, the hierarchically porous biochar monolith has a high BET specific surface area of approximately 400 m 2 g −1 . We have studied the monolith material as supercapacitor electrodes under acidic environment using electrochemical and surface characterization techniques. Electrochemical measurements show that the original biochar electrodes have a potential window of about 1.3 V and exhibit typical rectangular-shape voltammetric responses and fast charging–discharging behavior with a gravimetric capacitance of about 14 F g −1 . Simple activation of biochar in diluted nitric acid at room temperature leads to 7 times increase in the capacitance (115 F g −1 ). Because the HNO 3 -activation slightly decreases rather than increases the BET surface area of the biochar, an increase in the coverage of surface oxygen groups is the most likely origin of the substantial capacitance improvement. This is supported by EDX, X-ray photoelectron spectroscopy (XPS), and Raman measurements. Preliminary life-time studies show that biochar supercapacitors using the original and HNO 3 -activated electrodes are stable over 5000 cycles without performance decays. These facts indicate that the use of woody biochar is promising for its low cost and it can be a good performance electrode with low environmental impacts for supercapacitor applications
High-order multi-implicit spectral deferred correction methods for problems of reactive flow
International Nuclear Information System (INIS)
Bourlioux, Anne; Layton, Anita T.; Minion, Michael L.
2003-01-01
Models for reacting flow are typically based on advection-diffusion-reaction (A-D-R) partial differential equations. Many practical cases correspond to situations where the relevant time scales associated with each of the three sub-processes can be widely different, leading to disparate time-step requirements for robust and accurate time-integration. In particular, interesting regimes in combustion correspond to systems in which diffusion and reaction are much faster processes than advection. The numerical strategy introduced in this paper is a general procedure to account for this time-scale disparity. The proposed methods are high-order multi-implicit generalizations of spectral deferred correction methods (MISDC methods), constructed for the temporal integration of A-D-R equations. Spectral deferred correction methods compute a high-order approximation to the solution of a differential equation by using a simple, low-order numerical method to solve a series of correction equations, each of which increases the order of accuracy of the approximation. The key feature of MISDC methods is their flexibility in handling several sub-processes implicitly but independently, while avoiding the splitting errors present in traditional operator-splitting methods and also allowing for different time steps for each process. The stability, accuracy, and efficiency of MISDC methods are first analyzed using a linear model problem and the results are compared to semi-implicit spectral deferred correction methods. Furthermore, numerical tests on simplified reacting flows demonstrate the expected convergence rates for MISDC methods of orders three, four, and five. The gain in efficiency by independently controlling the sub-process time steps is illustrated for nonlinear problems, where reaction and diffusion are much stiffer than advection. Although the paper focuses on this specific time-scales ordering, the generalization to any ordering combination is straightforward
Study and development of a soft X-ray laser seeded by high-order harmonic
International Nuclear Information System (INIS)
Goddet, J.Ph.
2009-05-01
The work in this thesis aimed to study a geometry of X-UV lasers inspired by high power laser. This architecture, consisting of an injector (a source of high-order harmonics) coupled to an amplifier (plasma created by laser), corresponds to that of a laser chain in the spectral range of the X-UV. The laser at 32.8 nm studied here, is produced by the injection of high-order harmonic in a krypton plasma created by Optical Field Ionization (OFI). This scheme, initially tested by T. Ditmire in 1995, was validated in 2003 with a plasma amplifier created by the interaction of intense laser and a gaseous medium. This thesis is a continuation of that work in trying to address different aspects, not only a better understanding of the physical processes involved, but also of the spatio-temporal characterization of this type of source. We have demonstrated experimentally for the first time a source in the X-UV, which can be highly compact, energetic (1 μJ per pulse), close to the diffraction limit and Fourier transform limited. Indeed, through the spatial filtering of harmonics by the amplifying medium, the injected X-UV laser at 32.8 nm shows a Gaussian spatial profile with a divergence of 0.7 mrad (at 1/e 2 ). The wavefront was measured with a Hartmann sensor and presents a value of λ/17 in standard deviation, demonstrating that the X-UV source is diffraction limited. The temporal characterization of laser shows that the coherence time is of the order of the duration of spontaneous emission of the amplifier. The temporal coherence presents a Gaussian profile with a relative spectral width Δλ/λ equal to 10 -5 (FWHM) corresponding to a pulse duration of about 5 ps. (author)
Highly ordered Ni–Ti–O nanotubes for non-enzymatic glucose detection
Energy Technology Data Exchange (ETDEWEB)
Hang, Ruiqiang, E-mail: hangruiqiang@tyut.edu.cn [Research Institute of Surface Engineering, Taiyuan University of Technology, Taiyuan 030024 (China); Liu, Yanlian [Research Institute of Surface Engineering, Taiyuan University of Technology, Taiyuan 030024 (China); Gao, Ang [Department of Physics and Materials Science, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong (China); Bai, Long; Huang, Xiaobo; Zhang, Xiangyu; Lin, Naiming [Research Institute of Surface Engineering, Taiyuan University of Technology, Taiyuan 030024 (China); Tang, Bin, E-mail: tangbin@tyut.edu.cn [Research Institute of Surface Engineering, Taiyuan University of Technology, Taiyuan 030024 (China); Chu, Paul K. [Department of Physics and Materials Science, City University of Hong Kong, Tat Chee Avenue, Kowloon, Hong Kong (China)
2015-06-01
Anodization is used to fabricate Ni–Ti–O nanotube (NT) electrodes for non-enzymatic glucose detection. The morphology, microstructure and composition of the materials are characterized by field emission scanning electron microscopy (FE-SEM), high resolution transmission electron microscopy (HR-TEM) and X-ray photoelectron spectroscopy (XPS). Our results show amorphous and highly ordered NTs with diameter of 50 nm, length of 800 nm, and Ni/Ti ratio (at %) of 0.35 can be fabricated in ethylene glycol electrolyte supplemented with 0.2 wt.% NH{sub 4}F and 0.5 vol.% H{sub 2}O at 30 °C and 25 V for 1 h. Electrochemical experiments indicate that at an applied potential of 0.60 V vs. Ag/AgCl, the electrode exhibits a linear response window for glucose concentrations from 0.002 mM to 0.2 mM with a response time of 10 s, detection limit of 0.13 μM (S/N = 3), and sensitivity of 83 μA mM{sup −1} cm{sup −2}. The excellent performance of the electrode is attributed to its large specific area and fast electron transfer between the NT walls. The good electrochemical performance of the Ni–Ti–O NTs as well as their simple and low-cost preparation method make the strategy promising in non-enzymatic glucose detection. - Highlights: • Highly ordered Ni–Ti–O nanotubes have been fabricated by one-step anodization. • We find H{sub 2}O contents in the electrolyte is critical to successful fabrication of the NTs. • The Ni–Ti–O nanotubes are ideal electrode materials for non-enzymatic glucose detection.
High-order polygonal discontinuous Petrov-Galerkin (PolyDPG) methods using ultraweak formulations
Vaziri Astaneh, Ali; Fuentes, Federico; Mora, Jaime; Demkowicz, Leszek
2018-04-01
This work represents the first endeavor in using ultraweak formulations to implement high-order polygonal finite element methods via the discontinuous Petrov-Galerkin (DPG) methodology. Ultraweak variational formulations are nonstandard in that all the weight of the derivatives lies in the test space, while most of the trial space can be chosen as copies of $L^2$-discretizations that have no need to be continuous across adjacent elements. Additionally, the test spaces are broken along the mesh interfaces. This allows one to construct conforming polygonal finite element methods, termed here as PolyDPG methods, by defining most spaces by restriction of a bounding triangle or box to the polygonal element. The only variables that require nontrivial compatibility across elements are the so-called interface or skeleton variables, which can be defined directly on the element boundaries. Unlike other high-order polygonal methods, PolyDPG methods do not require ad hoc stabilization terms thanks to the crafted stability of the DPG methodology. A proof of convergence of the form $h^p$ is provided and corroborated through several illustrative numerical examples. These include polygonal meshes with $n$-sided convex elements and with highly distorted concave elements, as well as the modeling of discontinuous material properties along an arbitrary interface that cuts a uniform grid. Since PolyDPG methods have a natural a posteriori error estimator a polygonal adaptive strategy is developed and compared to standard adaptivity schemes based on constrained hanging nodes. This work is also accompanied by an open-source $\\texttt{PolyDPG}$ software supporting polygonal and conventional elements.
a novel two – factor high order fuzzy time series with applications to ...
African Journals Online (AJOL)
HOD
objectively with multiple – factor fuzzy time series, recurrent number of fuzzy relationships, and assigning weights to elements of fuzzy forecasting rules. In this paper, a novel two – factor high – order fuzzy time series forecasting method based on fuzzy C-means clustering and particle swarm optimization is proposed to ...
Directory of Open Access Journals (Sweden)
Gao X
2015-11-01
Full Text Available Xiang Gao,1,2,* Xiaohong Zhang,3,* Jinlin Song,1,2 Xiao Xu,4 Anxiu Xu,1 Mengke Wang,4 Bingwu Xie,1 Enyi Huang,2 Feng Deng,1,2 Shicheng Wei2–41College of Stomatology, 2Chongqing Key Laboratory of Oral Diseases and Biomedical Sciences, Chongqing Medical University, Chongqing, 3Center for Biomedical Materials and Tissue Engineering, Academy for Advanced Interdisciplinary Studies, Peking University, 4Department of Oral and Maxillofacial Surgery, Laboratory of Interdisciplinary Studies, Peking University School and Hospital of Stomatology, Beijing, People’s Republic of China*These authors contributed equally to this workAbstract: The construction of functional biomimetic scaffolds that recapitulate the topographical and biochemical features of bone tissue extracellular matrix is now of topical interest in bone tissue engineering. In this study, a novel surface-functionalized electrospun polycaprolactone (PCL nanofiber scaffold with highly ordered structure was developed to simulate the critical features of native bone tissue via a single step of catechol chemistry. Specially, under slightly alkaline aqueous solution, polydopamine (pDA was coated on the surface of aligned PCL nanofibers after electrospinning, followed by covalent immobilization of bone morphogenetic protein-7-derived peptides onto the pDA-coated nanofiber surface. Contact angle measurement, Raman spectroscopy, and X-ray photoelectron spectroscopy confirmed the presence of pDA and peptides on PCL nanofiber surface. Our results demonstrated that surface modification with osteoinductive peptides could improve cytocompatibility of nanofibers in terms of cell adhesion, spreading, and proliferation. Most importantly, Alizarin Red S staining, quantitative real-time polymerase chain reaction, immunostaining, and Western blot revealed that human mesenchymal stem cells cultured on aligned nanofibers with osteoinductive peptides exhibited enhanced osteogenic differentiation potential than
Development of a three-dimensional high-order strand-grids approach
Tong, Oisin
Development of a novel high-order flux correction method on strand grids is presented. The method uses a combination of flux correction in the unstructured plane and summation-by-parts operators in the strand direction to achieve high-fidelity solutions. Low-order truncation errors are cancelled with accurate flux and solution gradients in the flux correction method, thereby achieving a formal order of accuracy of 3, although higher orders are often obtained, especially for highly viscous flows. In this work, the scheme is extended to high-Reynolds number computations in both two and three dimensions. Turbulence closure is achieved with a robust version of the Spalart-Allmaras turbulence model that accommodates negative values of the turbulence working variable, and the Menter SST turbulence model, which blends the k-epsilon and k-o turbulence models for better accuracy. A major advantage of this high-order formulation is the ability to implement traditional finite volume-like limiters to cleanly capture shocked and discontinuous flows. In this work, this approach is explored via a symmetric limited positive (SLIP) limiter. Extensive verification and validation is conducted in two and three dimensions to determine the accuracy and fidelity of the scheme for a number of different cases. Verification studies show that the scheme achieves better than third order accuracy for low and high-Reynolds number flows. Cost studies show that in three-dimensions, the third-order flux correction scheme requires only 30% more walltime than a traditional second-order scheme on strand grids to achieve the same level of convergence. In order to overcome meshing issues at sharp corners and other small-scale features, a unique approach to traditional geometry, coined "asymptotic geometry," is explored. Asymptotic geometry is achieved by filtering out small-scale features in a level set domain through min/max flow. This approach is combined with a curvature based strand shortening
Directory of Open Access Journals (Sweden)
Essadki Mohamed
2016-09-01
Full Text Available Predictive simulation of liquid fuel injection in automotive engines has become a major challenge for science and applications. The key issue in order to properly predict various combustion regimes and pollutant formation is to accurately describe the interaction between the carrier gaseous phase and the polydisperse evaporating spray produced through atomization. For this purpose, we rely on the EMSM (Eulerian Multi-Size Moment Eulerian polydisperse model. It is based on a high order moment method in size, with a maximization of entropy technique in order to provide a smooth reconstruction of the distribution, derived from a Williams-Boltzmann mesoscopic model under the monokinetic assumption [O. Emre (2014 PhD Thesis, École Centrale Paris; O. Emre, R.O. Fox, M. Massot, S. Chaisemartin, S. Jay, F. Laurent (2014 Flow, Turbulence and Combustion 93, 689-722; O. Emre, D. Kah, S. Jay, Q.-H. Tran, A. Velghe, S. de Chaisemartin, F. Laurent, M. Massot (2015 Atomization Sprays 25, 189-254; D. Kah, F. Laurent, M. Massot, S. Jay (2012 J. Comput. Phys. 231, 394-422; D. Kah, O. Emre, Q.-H. Tran, S. de Chaisemartin, S. Jay, F. Laurent, M. Massot (2015 Int. J. Multiphase Flows 71, 38-65; A. Vié, F. Laurent, M. Massot (2013 J. Comp. Phys. 237, 277-310]. The present contribution relies on a major extension of this model [M. Essadki, S. de Chaisemartin, F. Laurent, A. Larat, M. Massot (2016 Submitted to SIAM J. Appl. Math.], with the aim of building a unified approach and coupling with a separated phases model describing the dynamics and atomization of the interface near the injector. The novelty is to be found in terms of modeling, numerical schemes and implementation. A new high order moment approach is introduced using fractional moments in surface, which can be related to geometrical quantities of the gas-liquid interface. We also provide a novel algorithm for an accurate resolution of the evaporation. Adaptive mesh refinement properly scaling on massively
Direct interferometric measurement of the atomic dipole phase in high-order harmonic generation
International Nuclear Information System (INIS)
Chiara Corsi; Angela Pirri; Emiliano Sali
2006-01-01
Complete test of publication follows. For low gas densities and negligible ionization, the so-called atomic dipole phase, connected with the electronic dynamics involved in the generation process, is the main source of phase modulation and incoherence of high-order harmonics. To accurately determine these laser-intensity-induced phase shifts is therefore of great importance, both for the possible spectroscopic applications of harmonics and for the controlled generation of attosecond pulses. In a semiclassical description, only two electronic trajectories contribute to generate plateau harmonics during each pump optical half-cycle. Electrons appearing in the continuum by tunnel ionization may follow two different quantum paths, namely a long (l) and a short (s) trajectory before recombination. According to the SFA approximation, the harmonic of q th order acquires a phase proportional to the electronic classical action, and simply given by: ψ 0 j (r,t) -α q j I(r,t) with j = l, s where α q j are non-linear phase coefficients, roughly proportional to the time that the originating electron spends in the continuum before recombination. The space and time variation of the laser intensity (I(r,t), causes just a little phase modulation for the s-trajectory harmonic component, while the l-trajectory component becomes strongly chirped and spatially defocused; this gives rise to two spatially-separated regions having different temporal coherence. Here we report the first direct measurement of such atomic dipole phase in the process of high-order harmonic generation. Differently from previous measurements based in the most natural way, i.e., by interferometry. Two phase-locked pump pulses generate two phase-locked harmonic pulses in two nearby positions in a gas jet; one of them is used as a fixed phase reference while the generating intensity of the other is varied. The shift of the XUV interference fringes observed in the far field then gives a direct estimate of the
Iorio, Raffaele; Fryer, James P.; Hinson, Shannon R.; Fallier-Becker, Petra; Wolburg, Hartwig; Pittock, Sean J.; Lennon, Vanda A.
2012-01-01
The principal central nervous system (CNS) water channel, aquaporin-4 (AQP4), is confined to astrocytic and ependymal membranes and is the target of a pathogenic autoantibody, neuromyelitis optica (NMO)-IgG. This disease-specific autoantibody unifies a spectrum of relapsing CNS autoimmune inflammatory disorders of which NMO exemplifies the classic phenotype. Multiple sclerosis and other immune-mediated demyelinating disorders of the CNS lack a distinctive biomarker. Two AQP4 isoforms, M1 and M23, exist as homotetrameric and heterotetrameric intramembranous particles (IMPs). Orthogonal arrays of predominantly M23 particles (OAPs) are an ultrastructural characteristic of astrocytic membranes. We used high-titered serum from 32 AQP4-IgG-seropositive patients and 85 controls to investigate the nature and molecular location of AQP4 epitopes that bind NMO-IgG, and the influence of supramolecular structure. NMO-IgG bound to denatured AQP4 monomers (68% of cases), to native tetramers and high order arrays (90% of cases), and to AQP4 in live cell membranes (100% of cases). Disease-specific epitopes reside in extracellular loop C more than in loops A or E. IgG binding to intracellular epitopes lacks disease specificity. These observations predict greater disease specificity and sensitivity for tissue-based and cell-based serological assays employing “native” AQP4 than assays employing denatured AQP4 and fragments. NMO-IgG binds most avidly to plasma membrane surface AQP4 epitopes formed by loop interactions within tetramers and by intermolecular interactions within high order structures. The relative abundance and localization of AQP4 high order arrays in distinct CNS regions may explain the variability in clinical phenotype of NMO spectrum disorders. PMID:22906356
Optimization of accelerator parameters using normal form methods on high-order transfer maps
Energy Technology Data Exchange (ETDEWEB)
Snopok, Pavel [Michigan State Univ., East Lansing, MI (United States)
2007-05-01
Methods of analysis of the dynamics of ensembles of charged particles in collider rings are developed. The following problems are posed and solved using normal form transformations and other methods of perturbative nonlinear dynamics: (1) Optimization of the Tevatron dynamics: (a) Skew quadrupole correction of the dynamics of particles in the Tevatron in the presence of the systematic skew quadrupole errors in dipoles; (b) Calculation of the nonlinear tune shift with amplitude based on the results of measurements and the linear lattice information; (2) Optimization of the Muon Collider storage ring: (a) Computation and optimization of the dynamic aperture of the Muon Collider 50 x 50 GeV storage ring using higher order correctors; (b) 750 x 750 GeV Muon Collider storage ring lattice design matching the Tevatron footprint. The normal form coordinates have a very important advantage over the particle optical coordinates: if the transformation can be carried out successfully (general restrictions for that are not much stronger than the typical restrictions imposed on the behavior of the particles in the accelerator) then the motion in the new coordinates has a very clean representation allowing to extract more information about the dynamics of particles, and they are very convenient for the purposes of visualization. All the problem formulations include the derivation of the objective functions, which are later used in the optimization process using various optimization algorithms. Algorithms used to solve the problems are specific to collider rings, and applicable to similar problems arising on other machines of the same type. The details of the long-term behavior of the systems are studied to ensure the their stability for the desired number of turns. The algorithm of the normal form transformation is of great value for such problems as it gives much extra information about the disturbing factors. In addition to the fact that the dynamics of particles is represented
International Nuclear Information System (INIS)
Yan Bing-Nan; Liu Chong-Xin; Ni Jun-Kang; Zhao Liang
2016-01-01
In order to grasp the downhole situation immediately, logging while drilling (LWD) technology is adopted. One of the LWD technologies, called acoustic telemetry, can be successfully applied to modern drilling. It is critical for acoustic telemetry technology that the signal is successfully transmitted to the ground. In this paper, binary phase shift keying (BPSK) is used to modulate carrier waves for the transmission and a new BPSK demodulation scheme based on Duffing chaos is investigated. Firstly, a high-order system is given in order to enhance the signal detection capability and it is realized through building a virtual circuit using an electronic workbench (EWB). Secondly, a new BPSK demodulation scheme is proposed based on the intermittent chaos phenomena of the new Duffing system. Finally, a system variable crossing zero-point equidistance method is proposed to obtain the phase difference between the system and the BPSK signal. Then it is determined that the digital signal transmitted from the bottom of the well is ‘0’ or ‘1’. The simulation results show that the demodulation method is feasible. (paper)
High order statistical signatures from source-driven measurements of subcritical fissile systems
International Nuclear Information System (INIS)
Mattingly, J.K.
1998-01-01
This research focuses on the development and application of high order statistical analyses applied to measurements performed with subcritical fissile systems driven by an introduced neutron source. The signatures presented are derived from counting statistics of the introduced source and radiation detectors that observe the response of the fissile system. It is demonstrated that successively higher order counting statistics possess progressively higher sensitivity to reactivity. Consequently, these signatures are more sensitive to changes in the composition, fissile mass, and configuration of the fissile assembly. Furthermore, it is shown that these techniques are capable of distinguishing the response of the fissile system to the introduced source from its response to any internal or inherent sources. This ability combined with the enhanced sensitivity of higher order signatures indicates that these techniques will be of significant utility in a variety of applications. Potential applications include enhanced radiation signature identification of weapons components for nuclear disarmament and safeguards applications and augmented nondestructive analysis of spent nuclear fuel. In general, these techniques expand present capabilities in the analysis of subcritical measurements
Structure/Processing Relationships of Highly Ordered Lead Salt Nanocrystal Superlattices
Hanrath, Tobias; Choi, Joshua J.; Smilgies, Detlef-M.
2009-01-01
We investigated the influence of processing conditions, nanocrystal/substrate interactions and solvent evaporation rate on the ordering of strongly interacting nanocrystals by synergistically combining electron microscopy and synchrotron-based small-angle X-ray scattering analysis. Spin-cast PbSe nanocrystal films exhibited submicrometer-sized supracrystals with face-centered cubic symmetry and (001)s planes aligned parallel to the substrate. The ordering of drop-cast lead salt nanocrystal films was sensitive to the nature of the substrate and solvent evaporation dynamics. Nanocrystal films drop-cast on rough indium tin oxide substrates were polycrystalline with small grain size and low degree of orientation with respect to the substrate, whereas films drop-cast on flat Si substrates formed highly ordered face-centered cubic supracrystals with close-packed (111)s planes parallel to the substrate. The spatial coherence of nanocrystal films drop-cast in the presence of saturated solvent vapor was significantly improved compared to films drop-cast in a dry environment. Solvent vapor annealing was demonstrated as a postdeposition technique to modify the ordering of nanocrystals in the thin film. Octane vapor significantly improved the long-range order and degree of orientation of initially disordered or polycrystalline nanocrystal assemblies. Exposure to 1,2-ethanedithiol vapor caused partial displacement of surface bound oleic acid ligands and drastically degraded the degree of order in the nanocrystal assembly. © 2009 American Chemical Society.
Dynamic analysis of spiral bevel and hypoid gears with high-order transmission errors
Yang, J. J.; Shi, Z. H.; Zhang, H.; Li, T. X.; Nie, S. W.; Wei, B. Y.
2018-03-01
A new gear surface modification methodology based on curvature synthesis is proposed in this study to improve the transmission performance. The generated high-order transmission error (TE) for spiral bevel and hypoid gears is proved to reduce the vibration of geared-rotor system. The method is comprised of the following steps: Firstly, the fully conjugate gear surfaces with pinion flank modified according to the predesigned relative transmission movement are established based on curvature correction. Secondly, a 14-DOF geared-rotor system model considering backlash nonlinearity is used to evaluate the effect of different orders of TE on the dynamic performance a hypoid gear transmission system. For case study, numerical simulation is performed to illustrate the dynamic response of hypoid gear pair with parabolic, fourth-order and sixth-order transmission error derived. The results show that the parabolic TE curve has higher peak to peak amplitude compared to the other two types of TE. Thus, the excited dynamic response also shows larger amplitude at response peaks. Dynamic responses excited by fourth and sixth order TE also demonstrate distinct response components due to their different TE period which is expected to generate different sound quality or other acoustic characteristics.
Micropolar curved rods. 2-D, high order, Timoshenko’s and Euler-Bernoulli models
Directory of Open Access Journals (Sweden)
Zozulya V.V.
2017-01-01
Full Text Available New models for micropolar plane curved rods have been developed. 2-D theory is developed from general 2-D equations of linear micropolar elasticity using a special curvilinear system of coordinates related to the middle line of the rod and special hypothesis based on assumptions that take into account the fact that the rod is thin.High order theory is based on the expansion of the equations of the theory of elasticity into Fourier series in terms of Legendre polynomials. First stress and strain tensors,vectors of displacements and rotation and body force shave been expanded into Fourier series in terms of Legendre polynomials with respect to a thickness coordinate.Thereby all equations of elasticity including Hooke’s law have been transformed to the corresponding equations for Fourier coefficients. Then in the same way as in the theory of elasticity, system of differential equations in term of displacements and boundary conditions for Fourier coefficients have been obtained. The Timoshenko’s and Euler-Bernoulli theories are based on the classical hypothesis and 2-D equations of linear micropolar elasticity in a special curvilinear system. The obtained equations can be used to calculate stress-strain and to model thin walled structures in macro, micro and nano scale when taking in to account micropolar couple stress and rotation effects.
Abanador, Paul M.; Mauger, François; Lopata, Kenneth; Gaarde, Mette B.; Schafer, Kenneth J.
2018-04-01
Using a model molecular system (A2) with two active electrons restricted to one dimension, we examine high-order harmonic generation (HHG) enhanced by rescattering. Our results show that even at intensities well below the single ionization saturation, harmonics generated from the cation (A2+ ) can be significantly enhanced due to the rescattering of the electron that is initially ionized. This two-electron effect is manifested by the appearance of a secondary plateau and cutoff in the HHG spectrum, extending beyond the predicted cutoff in the single active electron approximation. We use our molecular model to investigate the wavelength dependence of rescattering enhanced HHG, which was first reported in a model atomic system [I. Tikhomirov, T. Sato, and K. L. Ishikawa, Phys. Rev. Lett. 118, 203202 (2017), 10.1103/PhysRevLett.118.203202]. We demonstrate that the HHG yield in the secondary cutoff is highly sensitive to the available electron rescattering energies as indicated by a dramatic scaling with respect to driving wavelength.
Orientation dependence of temporal and spectral properties of high-order harmonics in solids
Wu, Mengxi; You, Yongsing; Ghimire, Shambhu; Reis, David A.; Browne, Dana A.; Schafer, Kenneth J.; Gaarde, Mette B.
2017-12-01
We investigate the connection between crystal symmetry and temporal and spectral properties of high-order harmonics in solids. We calculate the orientation-dependent harmonic spectrum driven by an intense, linearly polarized infrared laser field, using a momentum-space description of the generation process in terms of strong-field-driven electron dynamics on the band structure. We show that the orientation dependence of both the spectral yield and the subcycle time profile of the harmonic radiation can be understood in terms of the coupling strengths and relative curvatures of the valence band and the low-lying conduction bands. In particular, we show that in some systems this gives rise to a rapid shift of a quarter optical cycle in the timing of harmonics in the secondary plateau as the crystal is rotated relative to the laser polarization. We address recent experimental results in MgO [Y. S. You et al., Nat. Phys. 13, 345 (2017)., 10.1038/nphys3955] and show that the observed change in orientation dependence for the highest harmonics can be interpreted in the momentum space picture in terms of the contributions of several different conduction bands.
Law, Yan Nei; Lieng, Monica Keiko; Li, Jingmei; Khoo, David Aik-Aun
2014-03-01
Breast cancer is the most common cancer and second leading cause of cancer death among women in the US. The relative survival rate is lower among women with a more advanced stage at diagnosis. Early detection through screening is vital. Mammography is the most widely used and only proven screening method for reliably and effectively detecting abnormal breast tissues. In particular, mammographic density is one of the strongest breast cancer risk factors, after age and gender, and can be used to assess the future risk of disease before individuals become symptomatic. A reliable method for automatic density assessment would be beneficial and could assist radiologists in the evaluation of mammograms. To address this problem, we propose a density classification method which uses statistical features from different parts of the breast. Our method is composed of three parts: breast region identification, feature extraction and building ensemble classifiers for density assessment. It explores the potential of the features extracted from second and higher order statistical information for mammographic density classification. We further investigate the registration of bilateral pairs and time-series of mammograms. The experimental results on 322 mammograms demonstrate that (1) a classifier using features from dense regions has higher discriminative power than a classifier using only features from the whole breast region; (2) these high-order features can be effectively combined to boost the classification accuracy; (3) a classifier using these statistical features from dense regions achieves 75% accuracy, which is a significant improvement from 70% accuracy obtained by the existing approaches.
High-Order Hyperbolic Residual-Distribution Schemes on Arbitrary Triangular Grids
Mazaheri, Alireza; Nishikawa, Hiroaki
2015-01-01
In this paper, we construct high-order hyperbolic residual-distribution schemes for general advection-diffusion problems on arbitrary triangular grids. We demonstrate that the second-order accuracy of the hyperbolic schemes can be greatly improved by requiring the scheme to preserve exact quadratic solutions. We also show that the improved second-order scheme can be easily extended to third-order by further requiring the exactness for cubic solutions. We construct these schemes based on the LDA and the SUPG methodology formulated in the framework of the residual-distribution method. For both second- and third-order-schemes, we construct a fully implicit solver by the exact residual Jacobian of the second-order scheme, and demonstrate rapid convergence of 10-15 iterations to reduce the residuals by 10 orders of magnitude. We demonstrate also that these schemes can be constructed based on a separate treatment of the advective and diffusive terms, which paves the way for the construction of hyperbolic residual-distribution schemes for the compressible Navier-Stokes equations. Numerical results show that these schemes produce exceptionally accurate and smooth solution gradients on highly skewed and anisotropic triangular grids, including curved boundary problems, using linear elements. We also present Fourier analysis performed on the constructed linear system and show that an under-relaxation parameter is needed for stabilization of Gauss-Seidel relaxation.
On fully multidimensional and high order non oscillatory finite volume methods, I
International Nuclear Information System (INIS)
Lafon, F.
1992-11-01
A fully multidimensional flux formulation for solving nonlinear conservation laws of hyperbolic type is introduced to perform calculations on unstructured grids made of triangular or quadrangular cells. Fluxes are computed across dual median cells with a multidimensional 2D Riemann Solver (R2D Solver) whose intermediate states depend on either a three (on triangle R2DT solver) of four (on quadrangle, R2DQ solver) state solutions prescribed on the three or four sides of a gravity cell. Approximate Riemann solutions are computed via a linearization process of Roe's type involving multidimensional effects. Moreover, a monotonous scheme using stencil and central Lax-Friedrichs corrections on sonic curves are built in. Finally, high order accurate ENO-like (Essentially Non Oscillatory) reconstructions using plane and higher degree polynomial limitations are defined in the set up of finite element Lagrange spaces P k and Q k for k≥0, on triangles and quadrangles, respectively. Numerical experiments involving both linear and nonlinear conservation laws to be solved on unstructured grids indicate the ability of our techniques when dealing with strong multidimensional effects. An application to Euler's equations for the Mach three step problem illustrates the robustness and usefulness of our techniques using triangular and quadrangular grids. (Author). 33 refs., 13 figs
Modeling fragmentation with new high order finite element technology and node splitting
Directory of Open Access Journals (Sweden)
Olovsson Lars
2015-01-01
Full Text Available The modeling of fragmentation has historically been linked to the weapons industry where the main goal is to optimize a bomb or to design effective blast shields. Numerical modeling of fragmentation from dynamic loading has traditionally been modeled by legacy finite element solvers that rely on element erosion to model material failure. However this method results in the removal of too much material. This is not realistic as retaining the mass of the structure is critical to modeling the event correctly. We propose a new approach implemented in the IMPETUS AFEA SOLVER® based on the following: New High Order Finite Elements that can easily deal with very large deformations; Stochastic distribution of initial damage that allows for a non homogeneous distribution of fragments; and a Node Splitting Algorithm that allows for material fracture without element erosion that is mesh independent. The approach is evaluated for various materials and scenarios: -Titanium ring electromagnetic compression; Hard steel Taylor bar impact, Fused silica Taylor bar impact, Steel cylinder explosion, The results obtained from the simulations are representative of the failure mechanisms observed experimentally. The main benefit of this approach is good energy conservation (no loss of mass and numerical robustness even in complex situations.
Directory of Open Access Journals (Sweden)
Yichao Gao
2011-01-01
Full Text Available The dam-reservoir system is divided into the near field modeled by the finite element method, and the far field modeled by the excellent high-order doubly asymptotic open boundary (DAOB. Direct and partitioned coupled methods are developed for the analysis of dam-reservoir system. In the direct coupled method, a symmetric monolithic governing equation is formulated by incorporating the DAOB with the finite element equation and solved using the standard time-integration methods. In contrast, the near-field finite element equation and the far-field DAOB condition are separately solved in the partitioned coupled methodm, and coupling is achieved by applying the interaction force on the truncated boundary. To improve its numerical stability and accuracy, an iteration strategy is employed to obtain the solution of each step. Both coupled methods are implemented on the open-source finite element code OpenSees. Numerical examples are employed to demonstrate the performance of these two proposed methods.
Methods for compressible fluid simulation on GPUs using high-order finite differences
Pekkilä, Johannes; Väisälä, Miikka S.; Käpylä, Maarit J.; Käpylä, Petri J.; Anjum, Omer
2017-08-01
We focus on implementing and optimizing a sixth-order finite-difference solver for simulating compressible fluids on a GPU using third-order Runge-Kutta integration. Since graphics processing units perform well in data-parallel tasks, this makes them an attractive platform for fluid simulation. However, high-order stencil computation is memory-intensive with respect to both main memory and the caches of the GPU. We present two approaches for simulating compressible fluids using 55-point and 19-point stencils. We seek to reduce the requirements for memory bandwidth and cache size in our methods by using cache blocking and decomposing a latency-bound kernel into several bandwidth-bound kernels. Our fastest implementation is bandwidth-bound and integrates 343 million grid points per second on a Tesla K40t GPU, achieving a 3 . 6 × speedup over a comparable hydrodynamics solver benchmarked on two Intel Xeon E5-2690v3 processors. Our alternative GPU implementation is latency-bound and achieves the rate of 168 million updates per second.
Liu, Yan; Guenneau, Sébastien; Gralak, Boris
2013-01-01
We investigate a high-order homogenization (HOH) algorithm for periodic multi-layered stacks. The mathematical tool of choice is a transfer matrix method. Expressions for effective permeability, permittivity and magnetoelectric coupling are explored by frequency power expansions. On the physical side, this HOH uncovers a magnetoelectric coupling effect (odd-order approximation) and artificial magnetism (even-order approximation) in moderate contrast photonic crystals. Comparing the effective parameters' expressions of a stack with three layers against that of a stack with two layers, we note that the magnetoelectric coupling effect vanishes while the artificial magnetism can still be achieved in a centre-symmetric periodic structure. Furthermore, we numerically check the effective parameters through the dispersion law and transmission property of a stack with two dielectric layers against that of an effective bianisotropic medium: they are in good agreement throughout the low-frequency (acoustic) band until the first stop band, where the analyticity of the logarithm function of the transfer matrix () breaks down. PMID:24101891
Au coated PS nanopillars as a highly ordered and reproducible SERS substrate
Kim, Yong-Tae; Schilling, Joerg; Schweizer, Stefan L.; Sauer, Guido; Wehrspohn, Ralf B.
2017-07-01
Noble metal nanostructures with nanometer gap size provide strong surface-enhanced Raman scattering (SERS) which can be used to detect trace amounts of chemical and biological molecules. Although several approaches were reported to obtain active SERS substrates, it still remains a challenge to fabricate SERS substrates with high sensitivity and reproducibility using low-cost techniques. In this article, we report on the fabrication of Au sputtered PS nanopillars based on a template synthetic method as highly ordered and reproducible SERS substrates. The SERS substrates are fabricated by anodic aluminum oxide (AAO) template-assisted infiltration of polystyrene (PS) resulting in hemispherical structures, and a following Au sputtering process. The optimum gap size between adjacent PS nanopillars and thickness of the Au layers for high SERS sensitivity are investigated. Using the Au sputtered PS nanopillars as an active SERS substrate, the Raman signal of 4-methylbenzenethiol (4-MBT) with a concentration down to 10-9 M is identified with good signal reproducibility, showing great potential as promising tool for SERS-based detection.
International Nuclear Information System (INIS)
Yoo, Hae-Wook; Jung, Jin-Mi; Lee, Su-kyung; Jung, Hee-Tae
2011-01-01
Silver has been widely used for optical sensing and imaging applications which benefit from localized surface plasmon resonance (LSPR) in a nanoscale configuration. Many attempts have been made to fabricate and control silver nanostructures in order to improve the high performance in sensing and other applications. However, a fatal mechanical weakness of silver and a lack of durability in oxygen-rich conditions have disrupted the manufacturing of reproducible nanostructures by the top-down lithography approach. In this study, we suggest a steady fabrication strategy to obtain highly ordered silver nanopatterns that are able to provide tunable LSPR characteristics. By using a protecting layer of platinum on a silver surface in the lithography process, we successfully obtained large-area (2.7 x 2.7 mm 2 ) silver nanopatterns with high reproducibility. This large-area silver nanopattern was capable of enhancing the low concentration of a Cy3 fluorescence signal (∼10 -10 M) which was labeled with DNA oligomers.
Pressure-based high-order TVD methodology for dynamic stall control
Yang, H. Q.; Przekwas, A. J.
1992-01-01
The quantitative prediction of the dynamics of separating unsteady flows, such as dynamic stall, is of crucial importance. This six-month SBIR Phase 1 study has developed several new pressure-based methodologies for solving 3D Navier-Stokes equations in both stationary and moving (body-comforting) coordinates. The present pressure-based algorithm is equally efficient for low speed incompressible flows and high speed compressible flows. The discretization of convective terms by the presently developed high-order TVD schemes requires no artificial dissipation and can properly resolve the concentrated vortices in the wing-body with minimum numerical diffusion. It is demonstrated that the proposed Newton's iteration technique not only increases the convergence rate but also strongly couples the iteration between pressure and velocities. The proposed hyperbolization of the pressure correction equation is shown to increase the solver's efficiency. The above proposed methodologies were implemented in an existing CFD code, REFLEQS. The modified code was used to simulate both static and dynamic stalls on two- and three-dimensional wing-body configurations. Three-dimensional effect and flow physics are discussed.
Song, Ningning; Wang, Wucong; Wu, Yue; Xiao, Ding; Zhao, Yaping
2018-04-01
The hybrids of pristine graphene with polyaniline were synthesized by in situ polymerizations for making a high-performance supercapacitor. The formed high-ordered PANI nanocones were vertically aligned on the graphene sheets. The length of the PANI nanocones increased with the concentration of aniline monomer. The specific capacitance of the hybrids electrode in the three-electrode system was measured as high as 481 F/g at a current density of 0.1 A/g, and its stability remained 87% after constant charge-discharge 10000 cycles at a current density of 1 A/g. This outstanding performance is attributed to the coupling effects of the pristine graphene and the hierarchical structure of the PANI possessing high specific surface area. The unique structure of the PANI provided more charge transmission pathways and fast charge-transfer speed of electrons to the pristine graphene because of its large specific area exposed to the electrolyte. The hybrid is expected to have potential applications in supercapacitor electrodes.
Bayesian Modeling of ChIP-chip Data Through a High-Order Ising Model
Mo, Qianxing
2010-01-29
ChIP-chip experiments are procedures that combine chromatin immunoprecipitation (ChIP) and DNA microarray (chip) technology to study a variety of biological problems, including protein-DNA interaction, histone modification, and DNA methylation. The most important feature of ChIP-chip data is that the intensity measurements of probes are spatially correlated because the DNA fragments are hybridized to neighboring probes in the experiments. We propose a simple, but powerful Bayesian hierarchical approach to ChIP-chip data through an Ising model with high-order interactions. The proposed method naturally takes into account the intrinsic spatial structure of the data and can be used to analyze data from multiple platforms with different genomic resolutions. The model parameters are estimated using the Gibbs sampler. The proposed method is illustrated using two publicly available data sets from Affymetrix and Agilent platforms, and compared with three alternative Bayesian methods, namely, Bayesian hierarchical model, hierarchical gamma mixture model, and Tilemap hidden Markov model. The numerical results indicate that the proposed method performs as well as the other three methods for the data from Affymetrix tiling arrays, but significantly outperforms the other three methods for the data from Agilent promoter arrays. In addition, we find that the proposed method has better operating characteristics in terms of sensitivities and false discovery rates under various scenarios. © 2010, The International Biometric Society.
Beyond dipolar regime in high-order plasmon mode bowtie antennas
Cuche, Aurélien; Viarbitskaya, Sviatlana; Kumar, Upkar; Sharma, Jadab; Arbouet, Arnaud; Girard, Christian; Dujardin, Erik
2017-03-01
Optical nanoantennas have shown their great potential for far-field to near-field coupling and for light confinement in subwavelength volumes. Here, we report on a multimodal configuration for bright and polarization-dependent bowtie antenna based on large and highly crystalline gold prisms. Each individual prism constituting an antenna arm sustains high order plasmon modes in the visible and near infrared range that allow for high field confinement and two-dimensional optical information propagation. We demonstrate by scanning two-photon luminescence (TPL) microscopy and numerical simulations based on the Green dyadic method that these bowtie antennas result in intense hot spots in different antenna locations as a function of the incident polarization. Finally, we quantify the local field enhancement above the antennas by computing the normalized total decay rate of a molecular system placed in the near field of the antenna gap as a function of the dipole orientation. We demonstrate the existence of a subtle relation between antenna geometry, polarization dependence and field enhancement. These new multimodal optical antennas are excellent far field to near field converter and they open the door for new strategies in the design of coplanar optical components for a wide range of applications including sensing, energy conversion or integrated information processing.
Laser Requirements for High-Order Harmonic Generation by Relativistic Plasma Singularities
Directory of Open Access Journals (Sweden)
Alexander S. Pirozhkov
2018-03-01
Full Text Available We discuss requirements on relativistic-irradiance (I0 > 1018 W/cm2 high-power (multi-terawatt ultrashort (femtosecond lasers for efficient generation of high-order harmonics in gas jet targets in a new regime discovered recently (Pirozhkov et al., 2012. Here, we present the results of several experimental campaigns performed with different irradiances, analyse the obtained results and derive the required laser parameters. In particular, we found that the root mean square (RMS wavefront error should be smaller than ~100 nm (~λ/8. Further, the angular dispersion should be kept considerably smaller than the diffraction divergence, i.e., μrad level for 100–300-mm beam diameters. The corresponding angular chirp should not exceed 10−2 μrad/nm for a 40-nm bandwidth. We show the status of the J-KAREN-P laser (Kiriyama et al., 2015; Pirozhkov et al., 2017 and report on the progress towards satisfying these requirements.
Role of high-order aberrations in senescent changes in spatial vision
Energy Technology Data Exchange (ETDEWEB)
Elliot, S; Choi, S S; Doble, N; Hardy, J L; Evans, J W; Werner, J S
2009-01-06
The contributions of optical and neural factors to age-related losses in spatial vision are not fully understood. We used closed-loop adaptive optics to test the visual benefit of correcting monochromatic high-order aberrations (HOAs) on spatial vision for observers ranging in age from 18-81 years. Contrast sensitivity was measured monocularly using a two-alternative forced choice (2AFC) procedure for sinusoidal gratings over 6 mm and 3 mm pupil diameters. Visual acuity was measured using a spatial 4AFC procedure. Over a 6 mm pupil, young observers showed a large benefit of AO at high spatial frequencies, whereas older observers exhibited the greatest benefit at middle spatial frequencies, plus a significantly larger increase in visual acuity. When age-related miosis is controlled, young and old observers exhibited a similar benefit of AO for spatial vision. An increase in HOAs cannot account for the complete senescent decline in spatial vision. These results may indicate a larger role of additional optical factors when the impact of HOAs is removed, but also lend support for the importance of neural factors in age-related changes in spatial vision.
Rectangular optical filter based on high-order silicon microring resonators
Bao, Jia-qi; Yu, Kan; Wang, Li-jun; Yin, Juan-juan
2017-07-01
The rectangular optical filter is one of the most important optical switching components in the dense wavelength division multiplexing (DWDM) fiber-optic communication system and the intelligent optical network. The integrated highorder silicon microring resonator (MRR) is one of the best candidates to achieve rectangular filtering spectrum response. In general, the spectrum response rectangular degree of the single MRR is very low, so it cannot be used in the DWDM system. Using the high-order MRRs, the bandwidth of flat-top pass band, the out-of-band rejection degree and the roll-off coefficient of the edge will be improved obviously. In this paper, a rectangular optical filter based on highorder MRRs with uniform couplers is presented and demonstrated. Using 15 coupled race-track MRRs with 10 μm in radius, the 3 dB flat-top pass band of 2 nm, the out-of-band rejection ratio of 30 dB and the rising and falling edges of 48 dB/nm can be realized successfully.
Rectangular optical filter based on high-order silicon microring resonators
Institute of Scientific and Technical Information of China (English)
BAO Jia-qi; YU Kan; WANG Li-jun; YIN Juan-juan
2017-01-01
The rectangular optical filter is one of the most important optical switching components in the dense wavelength division multiplexing (DWDM) fiber-optic communication system and the intelligent optical network.The integrated highorder silicon microring resonator (MRR) is one of the best candidates to achieve rectangular filtering spectrum response.In general,the spectrum response rectangular degree of the single MRR is very low,so it cannot be used in the DWDM system.Using the high-order MRRs,the bandwidth of flat-top pass band,the out-of-band rejection degree and the roll-off coefficient of the edge will be improved obviously.In this paper,a rectangular optical filter based on highorder MRRs with uniform couplers is presented and demonstrated.Using 15 coupled race-track MRRs with 10 μm in radius,the 3 dB flat-top pass band of 2 nm,the out-of-band rejection ratio of 30 dB and the rising and falling edges of 48 dB/nm can be realized successfully.
Hasan, Mehedi; Hall, Trevor J
2015-09-21
A novel photonic integrated circuit is proposed that, using an RF source, generates at its output ports the same magnitude but opposite sign high order single optical side bands of a suppressed optical carrier. A single stage parallel Mach-Zehnder Modulator (MZM) and a two-stage series parallel MZM architecture are described and their relative merits discussed. A transfer matrix method is used to describe the operation of the circuits. The theoretical analysis is validated by computer simulation. As an illustration of a prospective application, it is shown how the circuit may be used as a key element of an optical transmission system to transport radio signals over fibre for wireless access; generating remotely a mm-wave carrier modulated by digital IQ data. A detailed calculation of symbol error rate is presented to characterise the system performance. The circuit may be fabricated in any integration platform offering a suitable phase modulator circuit element such as LiNbO(3), Silicon, and III-V or hybrid technology.
The PALM-3000 high-order adaptive optics system for Palomar Observatory
Bouchez, Antonin H.; Dekany, Richard G.; Angione, John R.; Baranec, Christoph; Britton, Matthew C.; Bui, Khanh; Burruss, Rick S.; Cromer, John L.; Guiwits, Stephen R.; Henning, John R.; Hickey, Jeff; McKenna, Daniel L.; Moore, Anna M.; Roberts, Jennifer E.; Trinh, Thang Q.; Troy, Mitchell; Truong, Tuan N.; Velur, Viswa
2008-07-01
Deployed as a multi-user shared facility on the 5.1 meter Hale Telescope at Palomar Observatory, the PALM-3000 highorder upgrade to the successful Palomar Adaptive Optics System will deliver extreme AO correction in the near-infrared, and diffraction-limited images down to visible wavelengths, using both natural and sodium laser guide stars. Wavefront control will be provided by two deformable mirrors, a 3368 active actuator woofer and 349 active actuator tweeter, controlled at up to 3 kHz using an innovative wavefront processor based on a cluster of 17 graphics processing units. A Shack-Hartmann wavefront sensor with selectable pupil sampling will provide high-order wavefront sensing, while an infrared tip/tilt sensor and visible truth wavefront sensor will provide low-order LGS control. Four back-end instruments are planned at first light: the PHARO near-infrared camera/spectrograph, the SWIFT visible light integral field spectrograph, Project 1640, a near-infrared coronagraphic integral field spectrograph, and 888Cam, a high-resolution visible light imager.
Distributed robust adaptive control of high order nonlinear multi agent systems.
Hashemi, Mahnaz; Shahgholian, Ghazanfar
2018-03-01
In this paper, a robust adaptive neural network based controller is presented for multi agent high order nonlinear systems with unknown nonlinear functions, unknown control gains and unknown actuator failures. At first, Neural Network (NN) is used to approximate the nonlinear uncertainty terms derived from the controller design procedure for the followers. Then, a novel distributed robust adaptive controller is developed by combining the backstepping method and the Dynamic Surface Control (DSC) approach. The proposed controllers are distributed in the sense that the designed controller for each follower agent only requires relative state information between itself and its neighbors. By using the Young's inequality, only few parameters need to be tuned regardless of NN nodes number. Accordingly, the problems of dimensionality curse and explosion of complexity are counteracted, simultaneously. New adaptive laws are designed by choosing the appropriate Lyapunov-Krasovskii functionals. The proposed approach proves the boundedness of all the closed-loop signals in addition to the convergence of the distributed tracking errors to a small neighborhood of the origin. Simulation results indicate that the proposed controller is effective and robust. Copyright © 2018 ISA. Published by Elsevier Ltd. All rights reserved.
MULTIPOLE GRAVITATIONAL LENSING AND HIGH-ORDER PERTURBATIONS ON THE QUADRUPOLE LENS
Energy Technology Data Exchange (ETDEWEB)
Chu, Z.; Lin, W. P. [Key Laboratory for Research in Galaxies and Cosmology, Shanghai Astronomical Observatory, Chinese Academy of Sciences, 80 Nandan Road, Shanghai 200030 (China); Li, G. L. [Purple Mountain Observatory, 2 West Beijing Road, Nanjing 210008 (China); Kang, X., E-mail: chuzhe@shao.ac.cn, E-mail: linwp@shao.ac.cn [Partner Group of MPI for Astronomy, Purple Mountain Observatory, 2 West Beijing Road, Nanjing 210008 (China)
2013-03-10
An arbitrary surface mass density of the gravitational lens can be decomposed into multipole components. We simulate the ray tracing for the multipolar mass distribution of the generalized Singular Isothermal Sphere model based on deflection angles, which are analytically calculated. The magnification patterns in the source plane are then derived from an inverse shooting technique. As has been found, the caustics of odd mode lenses are composed of two overlapping layers for some lens models. When a point source traverses this kind of overlapping caustics, the image numbers change by {+-}4, rather than {+-}2. There are two kinds of caustic images. One is the critical curve and the other is the transition locus. It is found that the image number of the fold is exactly the average value of image numbers on two sides of the fold, while the image number of the cusp is equal to the smaller one. We also focus on the magnification patterns of the quadrupole (m = 2) lenses under the perturbations of m = 3, 4, and 5 mode components and found that one, two, and three butterfly or swallowtail singularities can be produced, respectively. With the increasing intensity of the high-order perturbations, the singularities grow up to bring sixfold image regions. If these perturbations are large enough to let two or three of the butterflies or swallowtails make contact, then eightfold or tenfold image regions can be produced as well. The possible astronomical applications are discussed.
Design of a high order Campbelling mode measurement system using open source hardware
Energy Technology Data Exchange (ETDEWEB)
Izarra, G. de [CEA, DEN,DER, Experimental Programs Laboratory, Cadarache F-13108 Saint-Paul-lez-Durance (France); Elter, Zs. [Chalmers University of Technology, Department of Physics, Division of Subatomic and Plasma Physics, SE-412 96 Göteborg (Sweden); CEA, DEN,DER, Instrumentation, Sensors and Dosimetry Laboratory, Cadarache F-13108 Saint-Paul-lez-Durance (France); Jammes, C. [CEA, DEN,DER, Instrumentation, Sensors and Dosimetry Laboratory, Cadarache F-13108 Saint-Paul-lez-Durance (France)
2016-12-11
This paper reviews a new real-time measurement instrument dedicated for online neutron monitoring with fission chambers in nuclear reactors. The instrument implements the higher order Campbelling methods and self-monitoring capabilities on an open source development board. The board includes an CPU/FPGA System on a Chip. The feasibility of the measurement instrument was tested both in laboratory with a signal generator and in the Minerve reactor. It is shown that the instrument provides reliable and robust count rate estimation over a wide reactor power range based on the third order statistics of the fission chamber signal. In addition, the system is able to identify whether the measured count rate change is due to the malfunction of the detector or due to the change in the neutron flux. The applied self-monitoring method is based on the spectral properties of the fission chamber signal. During the experimental verification, the considered malfunction was the change of the polarization voltage. - Highlights: • A new online High Order Campelling measurement system is proposed. • It includes a fission chamber failure detection system. • The complete architecture of the measurement system is given. • Test on reactor show its accuracy over a wide count rate range.
Fabrication of free-standing copper foils covered with highly-ordered copper nanowire arrays
Zaraska, Leszek; Sulka, Grzegorz D.; Jaskuła, Marian
2012-07-01
The through-hole nanoporous anodic aluminum oxide (AAO) membranes with relatively large surface area (ca. 2 cm2) were employed for fabrication of free-standing and mechanically stable copper foils covered with close-packed and highly-ordered copper nanowire arrays. The home-made AAO membranes with different pore diameters and interpore distances were fabricated via a two-step self-organized anodization of aluminum performed in sulfuric acid, oxalic acid and phosphoric acid followed by the pore opening/widening procedure. The direct current (DC) electrodeposition of copper was performed efficiently on both sides of AAO templates. The bottom side of the AAO templates was not insulated and consequently Cu nanowire arrays on thick Cu layers were obtained. The proposed template-assisted fabrication of free-standing copper nanowire array electrodes is a promising method for synthesis of nanostructured current collectors. The composition of Cu nanowires was confirmed by energy dispersive X-Ray spectroscopy (EDS) and X-ray diffraction (XRD) analyses. The structural features of nanowires were evaluated from field emission scanning electron microscopy (FE-SEM) images and compared with the characteristic parameters of anodic alumina membranes.
Fabrication of free-standing copper foils covered with highly-ordered copper nanowire arrays
International Nuclear Information System (INIS)
Zaraska, Leszek; Sulka, Grzegorz D.; Jaskuła, Marian
2012-01-01
The through-hole nanoporous anodic aluminum oxide (AAO) membranes with relatively large surface area (ca. 2 cm 2 ) were employed for fabrication of free-standing and mechanically stable copper foils covered with close-packed and highly-ordered copper nanowire arrays. The home-made AAO membranes with different pore diameters and interpore distances were fabricated via a two-step self-organized anodization of aluminum performed in sulfuric acid, oxalic acid and phosphoric acid followed by the pore opening/widening procedure. The direct current (DC) electrodeposition of copper was performed efficiently on both sides of AAO templates. The bottom side of the AAO templates was not insulated and consequently Cu nanowire arrays on thick Cu layers were obtained. The proposed template-assisted fabrication of free-standing copper nanowire array electrodes is a promising method for synthesis of nanostructured current collectors. The composition of Cu nanowires was confirmed by energy dispersive X-Ray spectroscopy (EDS) and X-ray diffraction (XRD) analyses. The structural features of nanowires were evaluated from field emission scanning electron microscopy (FE-SEM) images and compared with the characteristic parameters of anodic alumina membranes.
Theoretical analysis of dynamic chemical imaging with lasers using high-order harmonic generation
International Nuclear Information System (INIS)
Van-Hoang Le; Anh-Thu Le; Xie Ruihua; Lin, C. D.
2007-01-01
We report theoretical investigations of the tomographic procedure suggested by Itatani et al. [Nature (London) 432, 867 (2004)] for reconstructing highest occupied molecular orbitals (HOMOs) using high-order harmonic generation (HHG). Due to the limited range of harmonics from the plateau region, we found that even under the most favorable assumptions, it is still very difficult to obtain accurate HOMO wave functions using the tomographic procedure, but the symmetry of the HOMOs and the internuclear separation between the atoms can be accurately extracted, especially when lasers of longer wavelengths are used to generate the HHG. Since the tomographic procedure relies on approximating the continuum wave functions in the recombination process by plane waves, the method can no longer be applied upon the improvement of the theory. For future chemical imaging with lasers, we suggest that one may want to focus on how to extract the positions of atoms in molecules instead, by developing an iterative method such that the theoretically calculated macroscopic HHG spectra can best fit the experimental HHG data
A High Order Theory for Linear Thermoelastic Shells: Comparison with Classical Theories
Directory of Open Access Journals (Sweden)
V. V. Zozulya
2013-01-01
Full Text Available A high order theory for linear thermoelasticity and heat conductivity of shells has been developed. The proposed theory is based on expansion of the 3-D equations of theory of thermoelasticity and heat conductivity into Fourier series in terms of Legendre polynomials. The first physical quantities that describe thermodynamic state have been expanded into Fourier series in terms of Legendre polynomials with respect to a thickness coordinate. Thereby all equations of elasticity and heat conductivity including generalized Hooke's and Fourier's laws have been transformed to the corresponding equations for coefficients of the polynomial expansion. Then in the same way as in the 3D theories system of differential equations in terms of displacements and boundary conditions for Fourier coefficients has been obtained. First approximation theory is considered in more detail. The obtained equations for the first approximation theory are compared with the corresponding equations for Timoshenko's and Kirchhoff-Love's theories. Special case of plates and cylindrical shell is also considered, and corresponding equations in displacements are presented.
Hybrid High-Order methods for finite deformations of hyperelastic materials
Abbas, Mickaël; Ern, Alexandre; Pignet, Nicolas
2018-01-01
We devise and evaluate numerically Hybrid High-Order (HHO) methods for hyperelastic materials undergoing finite deformations. The HHO methods use as discrete unknowns piecewise polynomials of order k≥1 on the mesh skeleton, together with cell-based polynomials that can be eliminated locally by static condensation. The discrete problem is written as the minimization of a broken nonlinear elastic energy where a local reconstruction of the displacement gradient is used. Two HHO methods are considered: a stabilized method where the gradient is reconstructed as a tensor-valued polynomial of order k and a stabilization is added to the discrete energy functional, and an unstabilized method which reconstructs a stable higher-order gradient and circumvents the need for stabilization. Both methods satisfy the principle of virtual work locally with equilibrated tractions. We present a numerical study of the two HHO methods on test cases with known solution and on more challenging three-dimensional test cases including finite deformations with strong shear layers and cavitating voids. We assess the computational efficiency of both methods, and we compare our results to those obtained with an industrial software using conforming finite elements and to results from the literature. The two HHO methods exhibit robust behavior in the quasi-incompressible regime.
Directory of Open Access Journals (Sweden)
Tu Anh Nguyen
2018-04-01
Full Text Available Horizontal gene transfer (HGT can promote evolutionary adaptation by transforming a species' relationship to the environment. In most well-understood cases of HGT, acquired and donor functions appear to remain closely related. Thus, the degree to which HGT can lead to evolutionary novelties remains unclear. Mucorales fungi sense gravity through the sedimentation of vacuolar protein crystals. Here, we identify the octahedral crystal matrix protein (OCTIN. Phylogenetic analysis strongly supports acquisition of octin by HGT from bacteria. A bacterial OCTIN forms high-order periplasmic oligomers, and inter-molecular disulphide bonds are formed by both fungal and bacterial OCTINs, suggesting that they share elements of a conserved assembly mechanism. However, estimated sedimentation velocities preclude a gravity-sensing function for the bacterial structures. Together, our data suggest that HGT from bacteria into the Mucorales allowed a dramatic increase in assembly scale and emergence of the gravity-sensing function. We conclude that HGT can lead to evolutionary novelties that emerge depending on the physiological and cellular context of protein assembly.
Highly ordered nanowire arrays on plastic substrates for ultrasensitive flexible chemical sensors.
McAlpine, Michael C; Ahmad, Habib; Wang, Dunwei; Heath, James R
2007-05-01
The development of a robust method for integrating high-performance semiconductors on flexible plastics could enable exciting avenues in fundamental research and novel applications. One area of vital relevance is chemical and biological sensing, which if implemented on biocompatible substrates, could yield breakthroughs in implantable or wearable monitoring systems. Semiconducting nanowires (and nanotubes) are particularly sensitive chemical sensors because of their high surface-to-volume ratios. Here, we present a scalable and parallel process for transferring hundreds of pre-aligned silicon nanowires onto plastic to yield highly ordered films for low-power sensor chips. The nanowires are excellent field-effect transistors, and, as sensors, exhibit parts-per-billion sensitivity to NO2, a hazardous pollutant. We also use SiO2 surface chemistries to construct a 'nano-electronic nose' library, which can distinguish acetone and hexane vapours via distributed responses. The excellent sensing performance coupled with bendable plastic could open up opportunities in portable, wearable or even implantable sensors.
Yonata, B.; Nasrudin, H.
2018-01-01
A worksheet has to be a set with activity which is help students to arrange their own experiments. For this reason, this research is focused on how to train students’ higher order thinking skills in laboratory activity by developing laboratory activity worksheet on surface chemistry lecture. To ensure that the laboratory activity worksheet already contains aspects of the higher order thinking skill, it requires theoretical and empirical validation. From the data analysis results, it shows that the developed worksheet worth to use. The worksheet is worthy of theoretical and empirical feasibility. This conclusion is based on the findings: 1) Assessment from the validators about the theoretical feasibility aspects in the category is very feasible with an assessment range of 95.24% to 97.92%. 2) students’ higher thinking skill from N Gain values ranges from 0.50 (enough) to 1.00 (high) so it can be concluded that the laboratory activity worksheet on surface chemistry lecture is empirical in terms of worth. The empirical feasibility is supported by the responses of the students in very reasonable categories. It is expected that the laboratory activity worksheet on surface chemistry lecture can train students’ high order thinking skills for students who program surface chemistry lecture.
Highly ordered nanowire arrays on plastic substrates for ultrasensitive flexible chemical sensors
McAlpine, Michael C.; Ahmad, Habib; Wang, Dunwei; Heath, James R.
2007-05-01
The development of a robust method for integrating high-performance semiconductors on flexible plastics could enable exciting avenues in fundamental research and novel applications. One area of vital relevance is chemical and biological sensing, which if implemented on biocompatible substrates, could yield breakthroughs in implantable or wearable monitoring systems. Semiconducting nanowires (and nanotubes) are particularly sensitive chemical sensors because of their high surface-to-volume ratios. Here, we present a scalable and parallel process for transferring hundreds of pre-aligned silicon nanowires onto plastic to yield highly ordered films for low-power sensor chips. The nanowires are excellent field-effect transistors, and, as sensors, exhibit parts-per-billion sensitivity to NO2, a hazardous pollutant. We also use SiO2 surface chemistries to construct a `nano-electronic nose' library, which can distinguish acetone and hexane vapours via distributed responses. The excellent sensing performance coupled with bendable plastic could open up opportunities in portable, wearable or even implantable sensors.
Optimization of multi-color laser waveform for high-order harmonic generation
Jin, Cheng; Lin, C. D.
2016-09-01
With the development of laser technologies, multi-color light-field synthesis with complete amplitude and phase control would make it possible to generate arbitrary optical waveforms. A practical optimization algorithm is needed to generate such a waveform in order to control strong-field processes. We review some recent theoretical works of the optimization of amplitudes and phases of multi-color lasers to modify the single-atom high-order harmonic generation based on genetic algorithm. By choosing different fitness criteria, we demonstrate that: (i) harmonic yields can be enhanced by 10 to 100 times, (ii) harmonic cutoff energy can be substantially extended, (iii) specific harmonic orders can be selectively enhanced, and (iv) single attosecond pulses can be efficiently generated. The possibility of optimizing macroscopic conditions for the improved phase matching and low divergence of high harmonics is also discussed. The waveform control and optimization are expected to be new drivers for the next wave of breakthrough in the strong-field physics in the coming years. Project supported by the Fundamental Research Funds for the Central Universities of China (Grant No. 30916011207), Chemical Sciences, Geosciences and Biosciences Division, Office of Basic Energy Sciences, Office of Science, U. S. Department of Energy (Grant No. DE-FG02-86ER13491), and Air Force Office of Scientific Research, USA (Grant No. FA9550-14-1-0255).
Structure/Processing Relationships of Highly Ordered Lead Salt Nanocrystal Superlattices
Hanrath, Tobias
2009-10-27
We investigated the influence of processing conditions, nanocrystal/substrate interactions and solvent evaporation rate on the ordering of strongly interacting nanocrystals by synergistically combining electron microscopy and synchrotron-based small-angle X-ray scattering analysis. Spin-cast PbSe nanocrystal films exhibited submicrometer-sized supracrystals with face-centered cubic symmetry and (001)s planes aligned parallel to the substrate. The ordering of drop-cast lead salt nanocrystal films was sensitive to the nature of the substrate and solvent evaporation dynamics. Nanocrystal films drop-cast on rough indium tin oxide substrates were polycrystalline with small grain size and low degree of orientation with respect to the substrate, whereas films drop-cast on flat Si substrates formed highly ordered face-centered cubic supracrystals with close-packed (111)s planes parallel to the substrate. The spatial coherence of nanocrystal films drop-cast in the presence of saturated solvent vapor was significantly improved compared to films drop-cast in a dry environment. Solvent vapor annealing was demonstrated as a postdeposition technique to modify the ordering of nanocrystals in the thin film. Octane vapor significantly improved the long-range order and degree of orientation of initially disordered or polycrystalline nanocrystal assemblies. Exposure to 1,2-ethanedithiol vapor caused partial displacement of surface bound oleic acid ligands and drastically degraded the degree of order in the nanocrystal assembly. © 2009 American Chemical Society.
Interplay between absorption, dispersion and refraction in high-order harmonic generation
International Nuclear Information System (INIS)
Dachraoui, H; Helmstedt, A; Bartz, P; Michelswirth, M; Mueller, N; Pfeiffer, W; Heinzmann, U; Auguste, T; Salieres, P
2009-01-01
We report a detailed experimental and theoretical study on high-order harmonic generation of a femtosecond Ti-sapphire laser focused at an intensity of around 10 15 W cm -2 onto a high-pressure (50-210 mbar) neon gas cell of variable length (1-3 mm). Using thorough three-dimensional simulations, we discuss the interplay between the different factors influencing the harmonic-generation efficiency, i.e. phase matching determined by the electronic and atomic dispersions, re-absorption of the harmonics by the medium and refraction of the generating laser beam. Generically, we find that, in our generation conditions, the emission yield of harmonics from the plateau region of the spectrum is absorption limited, whereas the emission from harmonics in the cut-off is strongly reduced due to both electron dispersion and ionization-induced refraction of the laser beam. A good agreement between the numerical results and the experimental data is obtained for the harmonic yield dependence on the various generation parameters (gas pressure, medium length and laser intensity).
Directory of Open Access Journals (Sweden)
Reuter John E
2003-06-01
Full Text Available Abstract Background The complex and characteristic structures of dendrites are a crucial part of the neuronal architecture that underlies brain function, and as such, their development has been a focal point of recent research. It is generally believed that dendritic development is controlled by a combination of endogenous genetic mechanisms and activity-dependent mechanisms. Therefore, it is of interest to test the relative contributions of these two types of mechanisms towards the construction of specific dendritic trees. In this study, we make use of the highly complex Vertical System (VS of motion sensing neurons in the lobula plate of the Drosophila visual system to gauge the importance of visual input and synaptic activity to dendritic development. Results We find that the dendrites of VS1 neurons are unchanged in dark-reared flies as compared to control flies raised on a 12 hour light, 12 hour dark cycle. The dendrites of these flies show no differences from control in dendrite complexity, spine number, spine density, or axon complexity. Flies with genetically ablated eyes show a slight but significant reduction in the complexity and overall length of VS1 dendrites, although this effect may be due to a reduction in the overall size of the dendritic field in these flies. Conclusions Overall, our results indicate no role for visual experience in the development of VS dendrites, while spontaneous activity from photoreceptors may play at most a subtle role in the formation of fully complex dendrites in these high-order visual processing neurons.
Synthesis of highly-ordered TiO2 nanotube arrays with tunable sizes
Wang, Xian; Zha, Chenyang; Ji, Cheng; Zhang, Xiaoyan; Shen, Liming; Wang, Yifeng; Gupta, Arunava; Yoriya, Sorachon; Bao, Ningzhong
2014-09-01
Vertically-oriented one-dimensional TiO2 nanotube (TNT) arrays have been fabricated by anodic oxidation using different electrolyte solvents, including ethylene glycol (EG), diethylene glycol (DEG), and dimethyl sulfoxide (DMSO), in the presence of hydrofluoric acid (HF) or ammonium fluoride (NH4F). The influence of synthetic conditions, including the nature of the electrolyte and anodization voltage, on nanotube microstructure has been systematically investigated. Highly-ordered TNTs with tube length of ˜0.5-26.7 μm, inner diameter of ˜13-201 nm, and outer diameter of ˜28-250 nm have been obtained. The conversion of as-prepared TNT arrays from amorphous phase to crystalline structure has been achieved by a post-synthetic annealing at 500 °C for 3 h in oxygen ambient. The TNT arrays with tunable sizes and structures are attractive for use as electrode materials in fabrication of thin film solar cells and highly active photocatalysts.
Synthesis of highly-ordered TiO2 nanotube arrays with tunable sizes
International Nuclear Information System (INIS)
Wang, Xian; Zha, Chenyang; Ji, Cheng; Zhang, Xiaoyan; Shen, Liming; Wang, Yifeng; Bao, Ningzhong; Gupta, Arunava; Yoriya, Sorachon
2014-01-01
Vertically-oriented one-dimensional TiO 2 nanotube (TNT) arrays have been fabricated by anodic oxidation using different electrolyte solvents, including ethylene glycol (EG), diethylene glycol (DEG), and dimethyl sulfoxide (DMSO), in the presence of hydrofluoric acid (HF) or ammonium fluoride (NH 4 F). The influence of synthetic conditions, including the nature of the electrolyte and anodization voltage, on nanotube microstructure has been systematically investigated. Highly-ordered TNTs with tube length of ∼0.5–26.7 μm, inner diameter of ∼13–201 nm, and outer diameter of ∼28–250 nm have been obtained. The conversion of as-prepared TNT arrays from amorphous phase to crystalline structure has been achieved by a post-synthetic annealing at 500 °C for 3 h in oxygen ambient. The TNT arrays with tunable sizes and structures are attractive for use as electrode materials in fabrication of thin film solar cells and highly active photocatalysts. (paper)
Simulations of viscous and compressible gas-gas flows using high-order finite difference schemes
Capuano, M.; Bogey, C.; Spelt, P. D. M.
2018-05-01
A computational method for the simulation of viscous and compressible gas-gas flows is presented. It consists in solving the Navier-Stokes equations associated with a convection equation governing the motion of the interface between two gases using high-order finite-difference schemes. A discontinuity-capturing methodology based on sensors and a spatial filter enables capturing shock waves and deformable interfaces. One-dimensional test cases are performed as validation and to justify choices in the numerical method. The results compare well with analytical solutions. Shock waves and interfaces are accurately propagated, and remain sharp. Subsequently, two-dimensional flows are considered including viscosity and thermal conductivity. In Richtmyer-Meshkov instability, generated on an air-SF6 interface, the influence of the mesh refinement on the instability shape is studied, and the temporal variations of the instability amplitude is compared with experimental data. Finally, for a plane shock wave propagating in air and impacting a cylindrical bubble filled with helium or R22, numerical Schlieren pictures obtained using different grid refinements are found to compare well with experimental shadow-photographs. The mass conservation is verified from the temporal variations of the mass of the bubble. The mean velocities of pressure waves and bubble interface are similar to those obtained experimentally.
High-order harmonics from an ultraintense laser pulse propagating inside a fiber
International Nuclear Information System (INIS)
Bulanov, S.V.; Esirkepov, T. Zh.; Naumova, N.M.; Sokolov, I.V.
2003-01-01
A strong effect of high harmonic radiation during the propagation of a high intensity short laser pulse in a thin wall hollow channel ('fiber') is found and studied via relativistic particle-in-cell simulations. The fiber has finite width walls comprised of an overdense plasma. Only the harmonic radiation with the harmonic number above critical value, for which the fiber walls are transparent, propagates outwards in the form of a coherent ultrashort pulse with very short wavelength
Levengood, Jeffrey D; Tolbert, Michele; Li, Mei-Ling; Tolbert, Blanton S
2013-07-01
Human Enterovirus 71 (EV71) is an emerging pathogen of infectious disease and a serious threat to public health. Currently, there are no antivirals or vaccines to slow down or prevent EV71 infections, thus underscoring the urgency to better understand mechanisms of host-enterovirus interactions. EV71 uses a type I internal ribosome entry site (IRES) to recruit the 40S ribosomal subunit via a pathway that requires the cytoplasmic localization of hnRNP A1, which acts as an IRES trans-activating factor. The mechanism of how hnRNP A1 trans activates EV71 RNA translation is unknown, however. Here, we report that the UP1 domain of hnRNP A1 interacts specifically with stem loop II (SLII) of the IRES, via a thermodynamically well-defined biphasic transition that involves conserved bulge 5'-AYAGY-3' and hairpin 5'-RY(U/A)CCA-3' loops. Calorimetric titrations of wild-type and mutant SLII constructs reveal these structural elements are essential to form a high-affinity UP1-SLII complex. Mutations that alter the bulge and hairpin primary or secondary structures abrogate the biphasic transition and destabilize the complex. Notably, mutations within the bulge that destabilize the complex correlate with a large reduction in IRES-dependent translational activity and impair EV71 replication. Taken together, this study shows that a conserved SLII structure is necessary to form a functional hnRNP A1-IRES complex, suggesting that small molecules that target this stem loop may have novel antiviral properties.
International Nuclear Information System (INIS)
Asai, Kengo; Platt, Craig; Cochrane, Alan
2003-01-01
The control of HIV-1 viral RNA splicing and transport plays an important role in the successful replication of the virus. Previous studies have identified both an exon splicing enhancer (ESE) and a bipartite exon splicing silencer (ESS3a and ESS3b) within the terminal exon of HIV-1 that are involved in modulating both splicing and Rev-mediated export of viral RNA. To define the mechanism of ESS3a function, experiments were carried out to better define the cis and trans components required for ESS3a activity. Mutations throughout the 30-nt element resulted in partial loss of ESS function. Combining mutations was found to have an additive effect, suggesting the presence of multiple binding sites. Analysis of interacting factors identified hnRNP A1 as one component of the complex that modulates ESS3a activity. However, subsequent binding analyses determined that hnRNP A1 interacts with only one portion of ESS3a, suggesting the involvement of another host factor. Parallel analysis of the effect of the mutations on Rev-mediated export determined that there is not a direct correlation between the effect of the mutations on splicing and RNA transport. Consistent with this hypothesis, replacement of ESS3a with consensus hnRNP A1 binding sites was found to be insufficient to block Rev-mediated RNA export
Model Following and High Order Augmentation for Rotorcraft Control, Applied via Partial Authority
Spires, James Michael
This dissertation consists of two main studies, a few small studies, and design documentation, all aimed at improving rotorcraft control by employing multi-input multi-output (MIMO) command-modelfollowing control as a baseline, together with a selectable (and de-selectable) MIMO high order compensator that augments the baseline. Two methods of MIMO command-model-following control design are compared for rotorcraft flight control. The first, Explicit Model Following (EMF), employs SISO inverse plants with a dynamic decoupling matrix, which is a purely feed-forward approach to inverting the plant. The second is Dynamic Inversion (DI), which involves both feed-forward and feedback path elements to invert the plant. The EMF design is purely linear, while the DI design has some nonlinear elements in vertical rate control. For each of these methods, an architecture is presented that provides angular rate model-following with selectable vertical rate model-following. Implementation challenges of both EMF and DI are covered, and methods of dealing with them are presented. These two MIMO model-following approaches are evaluated regarding (1) fidelity to the command model, and (2) turbulence rejection. Both are found to provide good tracking of commands and reduction of cross coupling. Next, an architecture and design methodology for high order compensator (HOC) augmentation of a baseline controller for rotorcraft is presented. With this architecture, the HOC compensator is selectable and can easily be authority-limited, which might ease certification. Also, the plant for this augmentative MIMO compensator design is a stabilized helicopter system, so good flight test data could be safely gathered for more accurate plant identification. The design methodology is carried out twice on an example helicopter model, once with turbulence rejection as the objective, and once with the additional objective of closely following pilot commands. The turbulence rejection HOC is feedback
Two-color phase control of high-order harmonic generation in intense laser fields
International Nuclear Information System (INIS)
Telnov, D.A.; Wang, J.; Chu, S.
1995-01-01
We present a time-independent generalized Floquet approach for nonperturbative treatment of high-order harmonic generation (HG) in intense onea (i) determination of the complex quasienergy eigenvalue and eigenfunction by means of the non-Hermitian Floquet formalism, wherein the Floquet Hamiltonian is discretized by the complex-scaling generalized pseudospectral technique [Wang, Chu, and Laughlin, Phys. Rev. A 50, 3208 (1994)], and (ii) calculation of the HG rates based on the approach that implies the classical treatment of the electromagnetic field and quantal treatment of the atom. The method is applied to the nonperturbative study of HG by the hydrogen atom in strong laser fields with the fundamental frequencies 532 and 775 nm and their third harmonics. The results show a strong dependence on the relative phase δ between the fundamental frequency field and its harmonic. For the intensities used in calculations (1x10 13 and 5x10 13 W/cm 2 for the fundamental frequency 532 nm and 1x10 13 and 3x10 13 W/cm 2 for the fundamental frequency 775 nm, the harmonic intensity being 10 and 100 times weaker), the total photon emission rate has its maximum at δ=0 and minimum at δ=π. However, this tendency, while valid for the first several HG peaks, is reversed for the higher HG peaks. The HG spectrum for δ=π is broader and the peak heights decrease more slowly compared to the case of δ=0. These results have their analog in the multiphoton above-threshold detachment study performed recently for H - ions [Telnov, Wang, and Chu, Phys. Rev. A 51, 4797 (1995)
Parsani, Matteo
2011-09-01
The main goal of this paper is to develop an efficient numerical algorithm to compute the radiated far field noise provided by an unsteady flow field from bodies in arbitrary motion. The method computes a turbulent flow field in the near fields using a high-order spectral difference method coupled with large-eddy simulation approach. The unsteady equations are solved by advancing in time using a second-order backward difference formulae scheme. The nonlinear algebraic system arising from the time discretization is solved with the nonlinear lowerupper symmetric GaussSeidel algorithm. In the second step, the method calculates the far field sound pressure based on the acoustic source information provided by the first step simulation. The method is based on the Ffowcs WilliamsHawkings approach, which provides noise contributions for monopole, dipole and quadrupole acoustic sources. This paper will focus on the validation and assessment of this hybrid approach using different test cases. The test cases used are: a laminar flow over a two-dimensional (2D) open cavity at Re = 1.5 × 10 3 and M = 0.15 and a laminar flow past a 2D square cylinder at Re = 200 and M = 0.5. In order to show the application of the numerical method in industrial cases and to assess its capability for sound field simulation, a three-dimensional turbulent flow in a muffler at Re = 4.665 × 10 4 and M = 0.05 has been chosen as a third test case. The flow results show good agreement with numerical and experimental reference solutions. Comparison of the computed noise results with those of reference solutions also shows that the numerical approach predicts noise accurately. © 2011 IMACS.
Risk factors for blood transfusion in patients undergoing high-order Cesarean delivery.
Spiegelman, Jessica; Mourad, Mirella; Melka, Stephanie; Gupta, Simi; Lam-Rachlin, Jennifer; Rebarber, Andrei; Saltzman, Daniel H; Fox, Nathan S
2017-11-01
The objective was to identify risk factors associated with blood transfusion in patients undergoing high-order Cesarean delivery (CD). This was a retrospective cohort study of patients undergoing third or more CD by a single maternal-fetal medicine practice between 2005 and 2016. We compared risk factors between women who did and did not receive a red blood cell transfusion during the operation or before discharge. Repeat analysis was performed after excluding women with placenta previa. A total of 514 patients were included, 18 of whom (3.5%; 95% confidence interval [CI], 2.2%-5.5%) received a blood transfusion. Placenta previa was the most significant risk factor for transfusion (61.1% of patients who received a transfusion vs. 1% of patients who did not; p blood transfusion. After women who had placenta previa were excluded, the incidence of blood transfusion was seven of 498 (1.4%; 95% CI, 0.7%-2.9%). Risk factors significantly associated with blood transfusion in the absence of previa were prophylactic anticoagulation during pregnancy and having labored. The incidence of transfusion in patients with no placenta previa, no anticoagulation, and no labor was 0.7% (95% CI, 0.3%-2.1%). Placenta previa was the most predictive risk factor for transfusion with a positive predictive value of 68.8% and a negative predictive value of 98.4%. In patients undergoing a third or more CD, only placenta previa, prophylactic anticoagulation during pregnancy, and having labored are independently associated with requiring a blood transfusion. These data can be used to guide physician ordering of prepared blood products preoperatively. © 2017 AABB.
How daylight influences high-order chromatic descriptors in natural images.
Ojeda, Juan; Nieves, Juan Luis; Romero, Javier
2017-07-01
Despite the global and local daylight changes naturally occurring in natural scenes, the human visual system usually adapts quite well to those changes, developing a stable color perception. Nevertheless, the influence of daylight in modeling natural image statistics is not fully understood and has received little attention. The aim of this work was to analyze the influence of daylight changes in different high-order chromatic descriptors (i.e., color volume, color gamut, and number of discernible colors) derived from 350 color images, which were rendered under 108 natural illuminants with Correlated Color Temperatures (CCT) from 2735 to 25,889 K. Results suggest that chromatic and luminance information is almost constant and does not depend on the CCT of the illuminant for values above 14,000 K. Nevertheless, differences between the red-green and blue-yellow image components were found below that CCT, with most of the statistical descriptors analyzed showing local extremes in the range 2950 K-6300 K. Uniform regions and areas of the images attracting observers' attention were also considered in this analysis and were characterized by their patchiness index and their saliency maps. Meanwhile, the results of the patchiness index do not show a clear dependence on CCT, and it is remarkable that a significant reduction in the number of discernible colors (58% on average) was found when the images were masked with their corresponding saliency maps. Our results suggest that chromatic diversity, as defined in terms of the discernible colors, can be strongly reduced when an observer scans a natural scene. These findings support the idea that a reduction in the number of discernible colors will guide visual saliency and attention. Whatever the modeling is mediating the neural representation of natural images, natural image statistics, it is clear that natural image statistics should take into account those local maxima and minima depending on the daylight illumination and
International Nuclear Information System (INIS)
Azmy, Yousry; Wang, Yaqi
2013-01-01
The research team has developed a practical, high-order, discrete-ordinates, short characteristics neutron transport code for three-dimensional configurations represented on unstructured tetrahedral grids that can be used for realistic reactor physics applications at both the assembly and core levels. This project will perform a comprehensive verification and validation of this new computational tool against both a continuous-energy Monte Carlo simulation (e.g. MCNP) and experimentally measured data, an essential prerequisite for its deployment in reactor core modeling. Verification is divided into three phases. The team will first conduct spatial mesh and expansion order refinement studies to monitor convergence of the numerical solution to reference solutions. This is quantified by convergence rates that are based on integral error norms computed from the cell-by-cell difference between the code's numerical solution and its reference counterpart. The latter is either analytic or very fine- mesh numerical solutions from independent computational tools. For the second phase, the team will create a suite of code-independent benchmark configurations to enable testing the theoretical order of accuracy of any particular discretization of the discrete ordinates approximation of the transport equation. For each tested case (i.e. mesh and spatial approximation order), researchers will execute the code and compare the resulting numerical solution to the exact solution on a per cell basis to determine the distribution of the numerical error. The final activity comprises a comparison to continuous-energy Monte Carlo solutions for zero-power critical configuration measurements at Idaho National Laboratory's Advanced Test Reactor (ATR). Results of this comparison will allow the investigators to distinguish between modeling errors and the above-listed discretization errors introduced by the deterministic method, and to separate the sources of uncertainty.
Multi-surface segmentation of OCT images with AMD using sparse high order potentials.
Oliveira, Jorge; Pereira, Sérgio; Gonçalves, Luís; Ferreira, Manuel; Silva, Carlos A
2017-01-01
In age-related macular degeneration (AMD), the quantification of drusen is important because it is correlated with the evolution of the disease to an advanced stage. Therefore, we propose an algorithm based on a multi-surface framework for the segmentation of the limiting boundaries of drusen: the inner boundary of the retinal pigment epithelium + drusen complex (IRPEDC) and the Bruch's membrane (BM). Several segmentation methods have been considerably successful in segmenting retinal layers of healthy retinas in optical coherence tomography (OCT) images. These methods are successful because they incorporate prior information and regularization. Nonetheless, these factors tend to hinder the segmentation for diseased retinas. The proposed algorithm takes into account the presence of drusen and geographic atrophy (GA) related to AMD by excluding prior information and regularization just valid for healthy regions. However, even with this algorithm, prior information and regularization still cause the oversmoothing of drusen in some locations. Thus, we propose the integration of local shape prior in the form of a sparse high order potentials (SHOPs) into the algorithm to reduce the oversmoothing of drusen. The proposed algorithm was evaluated in a public database. The mean unsigned errors, relative to the average of two experts, for the inner limiting membrane (ILM), IRPEDC and BM were 2.94±2.69, 5.53±5.66 and 4.00±4.00 µ m, respectively. Drusen areas measurements were evaluated, relative to the average of two expert graders, by the mean absolute area difference and overlap ratio, which were 1579.7 ± 2106.8 µ m 2 and 0.78 ± 0.11, respectively.
Hidden discriminative features extraction for supervised high-order time series modeling.
Nguyen, Ngoc Anh Thi; Yang, Hyung-Jeong; Kim, Sunhee
2016-11-01
In this paper, an orthogonal Tucker-decomposition-based extraction of high-order discriminative subspaces from a tensor-based time series data structure is presented, named as Tensor Discriminative Feature Extraction (TDFE). TDFE relies on the employment of category information for the maximization of the between-class scatter and the minimization of the within-class scatter to extract optimal hidden discriminative feature subspaces that are simultaneously spanned by every modality for supervised tensor modeling. In this context, the proposed tensor-decomposition method provides the following benefits: i) reduces dimensionality while robustly mining the underlying discriminative features, ii) results in effective interpretable features that lead to an improved classification and visualization, and iii) reduces the processing time during the training stage and the filtering of the projection by solving the generalized eigenvalue issue at each alternation step. Two real third-order tensor-structures of time series datasets (an epilepsy electroencephalogram (EEG) that is modeled as channel×frequency bin×time frame and a microarray data that is modeled as gene×sample×time) were used for the evaluation of the TDFE. The experiment results corroborate the advantages of the proposed method with averages of 98.26% and 89.63% for the classification accuracies of the epilepsy dataset and the microarray dataset, respectively. These performance averages represent an improvement on those of the matrix-based algorithms and recent tensor-based, discriminant-decomposition approaches; this is especially the case considering the small number of samples that are used in practice. Copyright © 2016 Elsevier Ltd. All rights reserved.
Esterhazy, Sofi; Schneider, Felix; Schöberl, Joachim; Perugia, Ilaria; Bokelmann, Götz
2016-04-01
The research on purely numerical methods for modeling seismic waves has been more and more intensified over last decades. This development is mainly driven by the fact that on the one hand for subsurface models of interest in exploration and global seismology exact analytic solutions do not exist, but, on the other hand, retrieving full seismic waveforms is important to get insides into spectral characteristics and for the interpretation of seismic phases and amplitudes. Furthermore, the computational potential has dramatically increased in the recent past such that it became worthwhile to perform computations for large-scale problems as those arising in the field of computational seismology. Algorithms based on the Finite Element Method (FEM) are becoming increasingly popular for the propagation of acoustic and elastic waves in geophysical models as they provide more geometrical flexibility in terms of complexity as well as heterogeneity of the materials. In particular, we want to demonstrate the benefit of high-order FEMs as they also provide a better control on the accuracy. Our computations are done with the parallel Finite Element Library NGSOLVE ontop of the automatic 2D/3D mesh generator NETGEN (http://sourceforge.net/projects/ngsolve/). Further we are interested in the generation of synthetic seismograms including direct, refracted and converted waves in correlation to the presence of an underground cavity and the detailed simulation of the comprehensive wave field inside and around such a cavity that would have been created by a nuclear explosion. The motivation of this application comes from the need to find evidence of a nuclear test as they are forbidden by the Comprehensive Nuclear-Test Ban Treaty (CTBT). With this approach it is possible for us to investigate the wave field over a large bandwidth of wave numbers. This again will help to provide a better understanding on the characteristic signatures of an underground cavity, improve the protocols for
High-order sum and difference-frequency generation in helium
International Nuclear Information System (INIS)
Crane, J.K.; Perry, M.D.
1993-01-01
High-order harmonic generation provides a new method for generating coherent, XUV radiation. These harmonics are characterized by a rapid, pertubative drop at low orders, followed by a broad plateau extending to photon energies of 150 eV in the lighter, rare gas atoms. An experimentally observed limit coincides with the theoretical limit for harmonic generation in neutral atoms given by the expression E c (eV)=IP(0)+3U p (I), where E c is the energy cutoff of the harmonic plateau, IP(O) is the field-free ionization potential and U p is the electron quiver energy at the maximum intensity, I seen by the atom. As part of an effort to develop this technique into a general purpose XUV source, extensive work to understand the phase-matching between the harmonic and driving fields, and the resulting effect on the conversion efficiency, angular distribution and spectral brightness has been undertaken at several. Though, certain aspects of the harmonically generated radiation such as the polarization, relative strength of a given harmonic, and the plateau extent, are defined by the single atom-field interaction. Specifically, the single-atom harmonic spectrum is determined primarily by the interaction of a driven, quasi-free electron with the atomic potential. Using two, independent fields one can affect the electron motion by controlling the relative strength, polarization, and phase of the fields and alter the harmonic spectrum. In this paper we discuss initial, two-color experiments where we drive the atom with two fields of different frequencies: 1053 nm (1ω) and 526 nm (2ω). In addition to the higher, odd harmonics, we observe sets of three additional peaks that we attribute to sum and difference-frequency generation between the two fields. By controlling the relative polarization between the two fields we can control the relative strength of the harmonic and mixing components, as well as the polarization of the output XUV photon
Yin, Jun; Yao, Xueping; Liou, Jiun-You; Sun, Wei; Sun, Ya-Sen; Wang, Yong
2013-11-26
Membranes with uniform, straight nanopores have important applications in diverse fields, but their application is limited by the lack of efficient producing methods with high controllability. In this work, we reported on an extremely simple and efficient strategy to produce such well-defined membranes. We demonstrated that neutral solvents were capable of annealing amphiphilic block copolymer (BCP) films of polystyrene-block-poly(2-vinylpyridine) (PS-b-P2VP) with thicknesses up to 600 nm to the perpendicular orientation within 1 min. Annealing in neutral solvents was also effective to the perpendicular alignment of block copolymers with very high molecular weights, e.g., 362 000 Da. Remarkably, simply by immersing the annealed BCP films in hot ethanol followed by drying in air, the originally dense BCP films were nondestructively converted into porous membranes containing highly ordered, straight nanopores traversing the entire thickness of the membrane (up to 1.1 μm). Grazing incident small-angle X-ray spectroscopy confirmed the hexagonal ordering of the nanopores over large areas. We found that the overflow of P2VP chains from their reservoir P2VP cylinders and the deformation of the PS matrix in the swelling process contributed to the transformation of the solid P2VP cylinders to empty straight pores. The pore diameters can be tuned by either changing the swelling temperatures or depositing thin layers of metal oxides on the preformed membranes via atomic layer deposition with a subnanometer accuracy. To demonstrate the application of the obtained porous membranes, we used them as templates and produced centimeter-scale arrays of aligned nanotubes of metal oxides with finely tunable wall thicknesses.
International Nuclear Information System (INIS)
Zhong Xiaolin; Tatineni, Mahidhar
2003-01-01
The direct numerical simulation of receptivity, instability and transition of hypersonic boundary layers requires high-order accurate schemes because lower-order schemes do not have an adequate accuracy level to compute the large range of time and length scales in such flow fields. The main limiting factor in the application of high-order schemes to practical boundary-layer flow problems is the numerical instability of high-order boundary closure schemes on the wall. This paper presents a family of high-order non-uniform grid finite difference schemes with stable boundary closures for the direct numerical simulation of hypersonic boundary-layer transition. By using an appropriate grid stretching, and clustering grid points near the boundary, high-order schemes with stable boundary closures can be obtained. The order of the schemes ranges from first-order at the lowest, to the global spectral collocation method at the highest. The accuracy and stability of the new high-order numerical schemes is tested by numerical simulations of the linear wave equation and two-dimensional incompressible flat plate boundary layer flows. The high-order non-uniform-grid schemes (up to the 11th-order) are subsequently applied for the simulation of the receptivity of a hypersonic boundary layer to free stream disturbances over a blunt leading edge. The steady and unsteady results show that the new high-order schemes are stable and are able to produce high accuracy for computations of the nonlinear two-dimensional Navier-Stokes equations for the wall bounded supersonic flow
International Nuclear Information System (INIS)
Brown, Peter N.; Shumaker, Dana E.; Woodward, Carol S.
2005-01-01
We present a solution method for fully implicit radiation diffusion problems discretized on meshes having millions of spatial zones. This solution method makes use of high order in time integration techniques, inexact Newton-Krylov nonlinear solvers, and multigrid preconditioners. We explore the advantages and disadvantages of high order time integration methods for the fully implicit formulation on both two- and three-dimensional problems with tabulated opacities and highly nonlinear fusion source terms
Schwing, Alan Michael
For computational fluid dynamics, the governing equations are solved on a discretized domain of nodes, faces, and cells. The quality of the grid or mesh can be a driving source for error in the results. While refinement studies can help guide the creation of a mesh, grid quality is largely determined by user expertise and understanding of the flow physics. Adaptive mesh refinement is a technique for enriching the mesh during a simulation based on metrics for error, impact on important parameters, or location of important flow features. This can offload from the user some of the difficult and ambiguous decisions necessary when discretizing the domain. This work explores the implementation of adaptive mesh refinement in an implicit, unstructured, finite-volume solver. Consideration is made for applying modern computational techniques in the presence of hanging nodes and refined cells. The approach is developed to be independent of the flow solver in order to provide a path for augmenting existing codes. It is designed to be applicable for unsteady simulations and refinement and coarsening of the grid does not impact the conservatism of the underlying numerics. The effect on high-order numerical fluxes of fourth- and sixth-order are explored. Provided the criteria for refinement is appropriately selected, solutions obtained using adapted meshes have no additional error when compared to results obtained on traditional, unadapted meshes. In order to leverage large-scale computational resources common today, the methods are parallelized using MPI. Parallel performance is considered for several test problems in order to assess scalability of both adapted and unadapted grids. Dynamic repartitioning of the mesh during refinement is crucial for load balancing an evolving grid. Development of the methods outlined here depend on a dual-memory approach that is described in detail. Validation of the solver developed here against a number of motivating problems shows favorable
High order spectral volume and spectral difference methods on unstructured grids
Kannan, Ravishekar
The spectral volume (SV) and the spectral difference (SD) methods were developed by Wang and Liu and their collaborators for conservation laws on unstructured grids. They were introduced to achieve high-order accuracy in an efficient manner. Recently, these methods were extended to three-dimensional systems and to the Navier Stokes equations. The simplicity and robustness of these methods have made them competitive against other higher order methods such as the discontinuous Galerkin and residual distribution methods. Although explicit TVD Runge-Kutta schemes for the temporal advancement are easy to implement, they suffer from small time step limited by the Courant-Friedrichs-Lewy (CFL) condition. When the polynomial order is high or when the grid is stretched due to complex geometries or boundary layers, the convergence rate of explicit schemes slows down rapidly. Solution strategies to remedy this problem include implicit methods and multigrid methods. A novel implicit lower-upper symmetric Gauss-Seidel (LU-SGS) relaxation method is employed as an iterative smoother. It is compared to the explicit TVD Runge-Kutta smoothers. For some p-multigrid calculations, combining implicit and explicit smoothers for different p-levels is also studied. The multigrid method considered is nonlinear and uses Full Approximation Scheme (FAS). An overall speed-up factor of up to 150 is obtained using a three-level p-multigrid LU-SGS approach in comparison with the single level explicit method for the Euler equations for the 3rd order SD method. A study of viscous flux formulations was carried out for the SV method. Three formulations were used to discretize the viscous fluxes: local discontinuous Galerkin (LDG), a penalty method and the 2nd method of Bassi and Rebay. Fourier analysis revealed some interesting advantages for the penalty method. These were implemented in the Navier Stokes solver. An implicit and p-multigrid method was also implemented for the above. An overall speed
High-Order Automatic Differentiation of Unmodified Linear Algebra Routines via Nilpotent Matrices
Dunham, Benjamin Z.
This work presents a new automatic differentiation method, Nilpotent Matrix Differentiation (NMD), capable of propagating any order of mixed or univariate derivative through common linear algebra functions--most notably third-party sparse solvers and decomposition routines, in addition to basic matrix arithmetic operations and power series--without changing data-type or modifying code line by line; this allows differentiation across sequences of arbitrarily many such functions with minimal implementation effort. NMD works by enlarging the matrices and vectors passed to the routines, replacing each original scalar with a matrix block augmented by derivative data; these blocks are constructed with special sparsity structures, termed "stencils," each designed to be isomorphic to a particular multidimensional hypercomplex algebra. The algebras are in turn designed such that Taylor expansions of hypercomplex function evaluations are finite in length and thus exactly track derivatives without approximation error. Although this use of the method in the "forward mode" is unique in its own right, it is also possible to apply it to existing implementations of the (first-order) discrete adjoint method to find high-order derivatives with lowered cost complexity; for example, for a problem with N inputs and an adjoint solver whose cost is independent of N--i.e., O(1)--the N x N Hessian can be found in O(N) time, which is comparable to existing second-order adjoint methods that require far more problem-specific implementation effort. Higher derivatives are likewise less expensive--e.g., a N x N x N rank-three tensor can be found in O(N2). Alternatively, a Hessian-vector product can be found in O(1) time, which may open up many matrix-based simulations to a range of existing optimization or surrogate modeling approaches. As a final corollary in parallel to the NMD-adjoint hybrid method, the existing complex-step differentiation (CD) technique is also shown to be capable of
Lunt, Richard Royal, III
Organic semiconductors have gained tremendous attention recently as their use in field effect transistors, sensors, solar cells, lasers, and organic light emitting diodes have been demonstrated, offering the potential for low-cost alternatives. Since renewable energy remains one the greatest challenges of the 21st century, the possibility for low-cost and flexible organic photovoltaics is particularly exciting. In the first part of this thesis, we demonstrate a route to the controlled growth of oriented crystalline films through organic vapor-phase deposition (OVPD), in conjunction with organic-inorganic, and organic-organic quasi-epitaxy. This method for producing highly ordered crystalline thin-film heterostructures combines the control of film growth with the electronic properties expected to approach that of organic single crystals, making them potentially useful for high efficiency organic thin-film devices and solar cells. We further demonstrate OVPD as a method for the deposition of large-scale organic electronics with low material waste, a key ability in fulfilling the promise of low-cost organic devices. The second part of this thesis is focused on understanding factors that govern energy (i.e. exciton) transport. The two single most important and fundamental properties of organic semiconductors are the transport of charge and energy. While charge mobility has been extensively studied and convincingly linked to the degree of crystalline order and orientation, the principles governing energy transport, i.e. exciton migration, in this class of materials and the subsequent connection to crystalline properties still remain ambiguous. Therefore, we aim to understand key aspects governing exciton motion in organic materials to better engineer materials, film morphologies, and film architectures for organic electronics with improved performance. To this end, we have developed a new method for measuring exciton diffusion and characterize a range of archetypal
Directory of Open Access Journals (Sweden)
Jansen Ralf-Peter
2004-10-01
Full Text Available Abstract Background The completion of several genome-sequencing projects has increased our need to assign functions to newly identified genes. The presence of a specific protein domain has been used as the determinant for suggesting a function for these new genes. In the case of proteins that are predicted to interact with mRNA, most RNAs bound by these proteins are still unknown. In yeast, several protocols for the identification of protein-protein interactions in high-throughput analyses have been developed during the last years leading to an increased understanding of cellular proteomics. If any of these protocols or similar approaches shall be used for the identification of mRNA-protein complexes, the integrity of mRNA is a critical factor. Results We compared the effect of different lysis protocols on RNA integrity. We report dramatic differences in RNA stability depending on the method used for yeast cell lysis. Glass bead milling and French Press lead to degraded mRNAs even in the presence of RNase inhibitors. Thus, they are not suitable to purify intact mRNP complexes or to identify specific mRNAs bound to proteins. Conclusion We suggest a novel protocol, grinding deep-frozen cells, for the preparation of protein extracts that contain intact RNAs, as lysis method for the purification of mRNA-protein complexes from yeast cells.
Phosphorylation of SAF-A/hnRNP-U Serine 59 by Polo-Like Kinase 1 Is Required for Mitosis.
Douglas, Pauline; Ye, Ruiqiong; Morrice, Nicholas; Britton, Sébastien; Trinkle-Mulcahy, Laura; Lees-Miller, Susan P
2015-08-01
Scaffold attachment factor A (SAF-A), also called heterogenous nuclear ribonuclear protein U (hnRNP-U), is phosphorylated on serine 59 by the DNA-dependent protein kinase (DNA-PK) in response to DNA damage. Since SAF-A, DNA-PK catalytic subunit (DNA-PKcs), and protein phosphatase 6 (PP6), which interacts with DNA-PKcs, have all been shown to have roles in mitosis, we asked whether DNA-PKcs phosphorylates SAF-A in mitosis. We show that SAF-A is phosphorylated on serine 59 in mitosis, that phosphorylation requires polo-like kinase 1 (PLK1) rather than DNA-PKcs, that SAF-A interacts with PLK1 in nocodazole-treated cells, and that serine 59 is dephosphorylated by protein phosphatase 2A (PP2A) in mitosis. Moreover, cells expressing SAF-A in which serine 59 is mutated to alanine have multiple characteristics of aberrant mitoses, including misaligned chromosomes, lagging chromosomes, polylobed nuclei, and delayed passage through mitosis. Our findings identify serine 59 of SAF-A as a new target of both PLK1 and PP2A in mitosis and reveal that both phosphorylation and dephosphorylation of SAF-A serine 59 by PLK1 and PP2A, respectively, are required for accurate and timely exit from mitosis. Copyright © 2015, American Society for Microbiology. All Rights Reserved.
Scaling high-order harmonic generation from laser-solid interactions to ultrahigh intensity.
Dollar, F; Cummings, P; Chvykov, V; Willingale, L; Vargas, M; Yanovsky, V; Zulick, C; Maksimchuk, A; Thomas, A G R; Krushelnick, K
2013-04-26
Coherent x-ray beams with a subfemtosecond (scale length, which can strongly influence the harmonic generation mechanism. It is shown that for intensities in excess of 10(21) W cm(-2) an optimum density ramp scale length exists that balances an increase in efficiency with a growth of parametric plasma wave instabilities. We show that for these higher intensities the optimal scale length is c/ω0, for which a variety of HOHG properties are optimized, including total conversion efficiency, HOHG divergence, and their power law scaling. Particle-in-cell simulations show striking evidence of the HOHG loss mechanism through parametric instabilities and relativistic self-phase modulation, which affect the produced spectra and conversion efficiency.
Isotope-selective high-order interferometry with large organic molecules in free fall
Rodewald, Jonas; Dörre, Nadine; Grimaldi, Andrea; Geyer, Philipp; Felix, Lukas; Mayor, Marcel; Shayeghi, Armin; Arndt, Markus
2018-03-01
Interferometry in the time domain has proven valuable for matter-wave based measurements. This concept has recently been generalized to cold molecular clusters using short-pulse standing light waves which realized photo-depletion gratings, arranged in a time-domain Talbot–Lau interferometer (OTIMA). Here we extend this idea further to large organic molecules and demonstrate a new scheme to scan the emerging molecular interferogram in position space. The capability of analyzing different isotopes of the same monomer under identical conditions opens perspectives for studying the interference fringe shift as a function of time in gravitational free fall. The universality of OTIMA interferometry allows one to handle a large variety of particles. In our present work, quasi-continuous laser evaporation allows transferring fragile organic molecules into the gas phase, covering more than an order of magnitude in mass between 614 amu and 6509 amu, i.e. 300% more massive than in previous OTIMA experiments. For all masses, we find about 30% fringe visibility.
Wang, Yang; Song, Hai-Ying; Liu, H. Y.; Liu, Shi-Bing
2017-07-01
We theoretically study high-order harmonic generation (HHG) from relativistically driven overdense plasma targets with rectangularly grating-structured surfaces by femtosecond laser pulses. Our particle-in-cell (PIC) simulations show that, under the conditions of low laser intensity and plasma density, the harmonics emit principally along small angles deviating from the target surface. Further investigation of the surface electron dynamics reveals that the electron bunches are formed by the interaction between the laser field and the target surface, giving rise to the oscillation of equivalent electric-dipole (OEED), which enhances specific harmonic orders. Our work helps understand the mechanism of harmonic emissions from grating targets and the distinction from the planar harmonic scheme.
Fonseca, Emanuella Maria Barreto; Scorsato, Valéria; Dos Santos, Marcelo Leite; Júnior, Atilio Tomazini; Tada, Susely Ferraz Siqueira; Dos Santos, Clelton Aparecido; de Toledo, Marcelo Augusto Szymanski; de Souza, Anete Pereira; Polikarpov, Igor; Aparicio, Ricardo
2017-04-01
Citrus variegated chlorosis is a disease that attacks economically important citrus plantations and is caused by the plant-pathogenic bacterium Xylella fastidiosa. In this work, the structure of a small heat-shock protein from X. fastidiosa (XfsHSP17.9) is reported. The high-order structures of small heat-shock proteins from other organisms are arranged in the forms of double-disc, hollow-sphere or spherical assemblies. Unexpectedly, the structure reported here reveals a high-order architecture forming a nearly square cavity.
Directory of Open Access Journals (Sweden)
François-Xavier Gillet
2017-04-01
Full Text Available Genetically modified (GM crops producing double-stranded RNAs (dsRNAs are being investigated largely as an RNA interference (RNAi-based resistance strategy against crop insect pests. However, limitations of this strategy include the sensitivity of dsRNA to insect gut nucleases and its poor insect cell membrane penetration. Working with the insect pest cotton boll weevil (Anthonomus grandis, we showed that the chimeric protein PTD-DRBD (peptide transduction domain—dsRNA binding domain combined with dsRNA forms a ribonucleoprotein particle (RNP that improves the effectiveness of the RNAi mechanism in the insect. The RNP slows down nuclease activity, probably by masking the dsRNA. Furthermore, PTD-mediated internalization in insect gut cells is achieved within minutes after plasma membrane contact, limiting the exposure time of the RNPs to gut nucleases. Therefore, the RNP provides an approximately 2-fold increase in the efficiency of insect gene silencing upon oral delivery when compared to naked dsRNA. Taken together, these data demonstrate the role of engineered RNPs in improving dsRNA stability and cellular entry, representing a path toward the design of enhanced RNAi strategies in GM plants against crop insect pests.
Gillet, François-Xavier; Garcia, Rayssa A; Macedo, Leonardo L P; Albuquerque, Erika V S; Silva, Maria C M; Grossi-de-Sa, Maria F
2017-01-01
Genetically modified (GM) crops producing double-stranded RNAs (dsRNAs) are being investigated largely as an RNA interference (RNAi)-based resistance strategy against crop insect pests. However, limitations of this strategy include the sensitivity of dsRNA to insect gut nucleases and its poor insect cell membrane penetration. Working with the insect pest cotton boll weevil ( Anthonomus grandis ), we showed that the chimeric protein PTD-DRBD (peptide transduction domain-dsRNA binding domain) combined with dsRNA forms a ribonucleoprotein particle (RNP) that improves the effectiveness of the RNAi mechanism in the insect. The RNP slows down nuclease activity, probably by masking the dsRNA. Furthermore, PTD-mediated internalization in insect gut cells is achieved within minutes after plasma membrane contact, limiting the exposure time of the RNPs to gut nucleases. Therefore, the RNP provides an approximately 2-fold increase in the efficiency of insect gene silencing upon oral delivery when compared to naked dsRNA. Taken together, these data demonstrate the role of engineered RNPs in improving dsRNA stability and cellular entry, representing a path toward the design of enhanced RNAi strategies in GM plants against crop insect pests.
Chen, Wen-Yi; Xu, Yiren; Cho, I-Ming; Oruganti, Sri Vidya; Foster, Mark P.; Gopalan, Venkat
2011-01-01
RNase P is a ribonucleoprotein (RNP) complex that utilizes a Mg2+-dependent RNA catalyst to cleave the 5′-leader of precursor tRNAs (pre-tRNAs) and generate mature tRNAs. The bacterial RNase P protein (RPP) aids RNase P RNA (RPR) catalysis by promoting substrate binding, Mg2+ coordination, and product release. Archaeal RNase P comprises an RPR and at least four RPPs, which have eukaryal homologs and function as two binary complexes (POP5•RPP30 and RPP21•RPP29). In this study, we employed a previously characterized substrate-enzyme conjugate [pre-tRNATyr-Methanocaldococcus jannaschii (Mja) RPR] to investigate the functional role of a universally conserved uridine in a bulge-helix structure in archaeal RPRs. Deletion of this bulged uridine resulted in an 80-fold decrease in the self-cleavage rate of pre-tRNATyr-MjaΔU RPR compared to the wildtype, and this defect was partially ameliorated upon addition of either RPP pair. The catalytic defect in the archaeal mutant RPR mirrors that reported in a bacterial RPR and highlights a parallel in their active sites. Furthermore, an N-terminal deletion mutant of Pyrococcus furiosus (Pfu) RPP29 that is defective in assembling with its binary partner RPP21, as assessed by isothermal titration calorimetry and NMR spectroscopy, is functional when reconstituted with the cognate Pfu RPR. Collectively, these results indicate that archaeal RPPs are able to compensate for structural defects in their cognate RPR and vice-versa, and provide striking examples of the cooperative subunit interactions critical for driving archaeal RNase P towards its functional conformation. (236 words) PMID:21683084
A high-order multiscale finite-element method for time-domain acoustic-wave modeling
Gao, Kai; Fu, Shubin; Chung, Eric T.
2018-05-01
Accurate and efficient wave equation modeling is vital for many applications in such as acoustics, electromagnetics, and seismology. However, solving the wave equation in large-scale and highly heterogeneous models is usually computationally expensive because the computational cost is directly proportional to the number of grids in the model. We develop a novel high-order multiscale finite-element method to reduce the computational cost of time-domain acoustic-wave equation numerical modeling by solving the wave equation on a coarse mesh based on the multiscale finite-element theory. In contrast to existing multiscale finite-element methods that use only first-order multiscale basis functions, our new method constructs high-order multiscale basis functions from local elliptic problems which are closely related to the Gauss-Lobatto-Legendre quadrature points in a coarse element. Essentially, these basis functions are not only determined by the order of Legendre polynomials, but also by local medium properties, and therefore can effectively convey the fine-scale information to the coarse-scale solution with high-order accuracy. Numerical tests show that our method can significantly reduce the computation time while maintain high accuracy for wave equation modeling in highly heterogeneous media by solving the corresponding discrete system only on the coarse mesh with the new high-order multiscale basis functions.
DEFF Research Database (Denmark)
Laitinen, Tommi; Pivnenko, Sergey; Breinbjerg, Olav
2006-01-01
An iterative probe-correction technique for spherical near-field antenna measurements is examined. This technique has previously been shown to be well-suited for non-ideal first-order probes. In this paper, its performance in the case of a high-order probe (a dual-ridged horn) is examined....
Directory of Open Access Journals (Sweden)
Pratibha Joshi
2014-12-01
Full Text Available In this paper, we have achieved high order solution of a three dimensional nonlinear diffusive-convective problem using modified variational iteration method. The efficiency of this approach has been shown by solving two examples. All computational work has been performed in MATHEMATICA.
Marinescu, O.; Bociort, F.; Braat, J.
2004-01-01
When Extreme Ultraviolet mirror systems having several high-order aspheric surfaces are optimized, the configurations often enter into highly unstable regions of the parameter space. Small changes of system parameters lead then to large changes in ray paths, and therefore optimization algorithms
Liu, Zeng-Xing; Xiong, Hao; Wu, Ying
2018-01-01
It is quite important to enhance and control the optomechanically induced high-order sideband generation to achieve low-power optical comb and high-sensitivity sensing with an integrable structure. Here we present and analyze a proposal for enhancement and manipulation of optical nonlinearity and high-order sideband generation in a hybrid atom-cavity optomechanical system that is coherently driven by a bichromatic input field consisting of a control field and a probe field and that works beyond the perturbative regime. Our numerical analysis with experimentally achievable parameters confirms that robust high-order sideband generation and typical spectral structures with nonperturbative features can be created even under weak driven fields. The dependence of the high-order sideband generation on the atomic parameters are also discussed in detail, including the decay rate of the atoms and the coupling parameter between the atoms and the cavity field. We show that the cutoff order as well as the amplitude of the higher-order sidebands can be well tuned by the atomic coupling strength and the atomic decay rate. The proposed mechanism of enhancing optical nonlinearity is quite general and can be adopted to optomechanical systems with different types of cavity.
Analysis and Design of a High-Order Discrete-Time Passive IIR Low-Pass Filter
Tohidian, M.; Madadi, I.; Staszewski, R.B.
2014-01-01
In this paper, we propose a discrete-time IIR low-pass filter that achieves a high-order of filtering through a charge-sharing rotation. Its sampling rate is then multiplied through pipelining. The first stage of the filter can operate in either a voltage-sampling or charge-sampling mode. It uses
Construction of low dissipative high-order well-balanced filter schemes for non-equilibrium flows
International Nuclear Information System (INIS)
Wang Wei; Yee, H.C.; Sjoegreen, Bjoern; Magin, Thierry; Shu, Chi-Wang
2011-01-01
The goal of this paper is to generalize the well-balanced approach for non-equilibrium flow studied by Wang et al. (2009) to a class of low dissipative high-order shock-capturing filter schemes and to explore more advantages of well-balanced schemes in reacting flows. More general 1D and 2D reacting flow models and new examples of shock turbulence interactions are provided to demonstrate the advantage of well-balanced schemes. The class of filter schemes developed by Yee et al. (1999) , Sjoegreen and Yee (2004) and Yee and Sjoegreen (2007) consist of two steps, a full time step of spatially high-order non-dissipative base scheme and an adaptive non-linear filter containing shock-capturing dissipation. A good property of the filter scheme is that the base scheme and the filter are stand-alone modules in designing. Therefore, the idea of designing a well-balanced filter scheme is straightforward, i.e. choosing a well-balanced base scheme with a well-balanced filter (both with high-order accuracy). A typical class of these schemes shown in this paper is the high-order central difference schemes/predictor-corrector (PC) schemes with a high-order well-balanced WENO filter. The new filter scheme with the well-balanced property will gather the features of both filter methods and well-balanced properties: it can preserve certain steady-state solutions exactly; it is able to capture small perturbations, e.g. turbulence fluctuations; and it adaptively controls numerical dissipation. Thus it shows high accuracy, efficiency and stability in shock/turbulence interactions. Numerical examples containing 1D and 2D smooth problems, 1D stationary contact discontinuity problem and 1D turbulence/shock interactions are included to verify the improved accuracy, in addition to the well-balanced behavior.
Supurwoko; Cari; Sarwanto; Sukarmin; Fauzi, Ahmad; Faradilla, Lisa; Summa Dewi, Tiarasita
2017-11-01
The process of learning and teaching in Physics is often confronted with abstract concepts. It makes difficulty for students to understand and teachers to teach the concept. One of the materials that has an abstract concept is Compton Effect. The purpose of this research is to evaluate computer simulation model on Compton Effect material which is used to improve high thinking ability of Physics teacher candidate students. This research is a case study. The subject is students at physics educations who have attended Modern Physics lectures. Data were obtained through essay test for measuring students’ high-order thinking skills and quisioners for measuring students’ responses. The results obtained indicate that computer simulation model can be used to improve students’ high order thinking skill and can be used to improve students’ responses. With this result it is suggested that the audiences use the simulation media in learning
Nicholls, David P
2018-04-01
The faithful modelling of the propagation of linear waves in a layered, periodic structure is of paramount importance in many branches of the applied sciences. In this paper, we present a novel numerical algorithm for the simulation of such problems which is free of the artificial singularities present in related approaches. We advocate for a surface integral formulation which is phrased in terms of impedance-impedance operators that are immune to the Dirichlet eigenvalues which plague the Dirichlet-Neumann operators that appear in classical formulations. We demonstrate a high-order spectral algorithm to simulate these latter operators based upon a high-order perturbation of surfaces methodology which is rapid, robust and highly accurate. We demonstrate the validity and utility of our approach with a sequence of numerical simulations.
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Jiameng Wu
2018-01-01
Full Text Available The infinite depth free surface Green function (GF and its high order derivatives for diffraction and radiation of water waves are considered. Especially second order derivatives are essential requirements in high-order panel method. In this paper, concerning the classical representation, composed of a semi-infinite integral involving a Bessel function and a Cauchy singularity, not only the GF and its first order derivatives but also second order derivatives are derived from four kinds of analytical series expansion and refined division of whole calculation domain. The approximations of special functions, particularly the hypergeometric function and the algorithmic applicability with different subdomains are implemented. As a result, the computation accuracy can reach 10-9 in whole domain compared with conventional methods based on direct numerical integration. Furthermore, numerical efficiency is almost equivalent to that with the classical method.
Nicholls, David P.
2018-04-01
The faithful modelling of the propagation of linear waves in a layered, periodic structure is of paramount importance in many branches of the applied sciences. In this paper, we present a novel numerical algorithm for the simulation of such problems which is free of the artificial singularities present in related approaches. We advocate for a surface integral formulation which is phrased in terms of impedance-impedance operators that are immune to the Dirichlet eigenvalues which plague the Dirichlet-Neumann operators that appear in classical formulations. We demonstrate a high-order spectral algorithm to simulate these latter operators based upon a high-order perturbation of surfaces methodology which is rapid, robust and highly accurate. We demonstrate the validity and utility of our approach with a sequence of numerical simulations.
Li, Guicun; Zheng, Yinghui; Ge, Xiaochun; Zeng, Zhinan; Li, Ruxin
2016-08-08
We have experimentally investigated the frequency modulation of high-order harmonics in an orthogonally polarized two-color laser field consisting of a mid-infrared 1800nm fundamental pulse and its second harmonic pulse. It is demonstrated that the high harmonic spectra can be fine-tuned as we slightly change the relative delay of the two-color laser pulses. By analyzing the relative frequency shift of each harmonic at different two-color delays, the nonadiabatic spectral shift induced by the rapid variation of the intensity-dependent intrinsic dipole phase can be distinguished from the blueshift induced by the change of the refractive index during self-phase modulation (SPM). Our comprehensive analysis shows that the frequency modulation pattern is a reflection of the average emission time of high-order harmonic generation (HHG), thus offering a simple method to fine-tune the spectra of the harmonics on a sub-cycle time scale.
Zeng, Zhaoli; Qu, Xueming; Tan, Yidong; Tan, Runtao; Zhang, Shulian
2015-06-29
A simple and high-accuracy self-mixing interferometer based on single high-order orthogonally polarized feedback effects is presented. The single high-order feedback effect is realized when dual-frequency laser reflects numerous times in a Fabry-Perot cavity and then goes back to the laser resonator along the same route. In this case, two orthogonally polarized feedback fringes with nanoscale resolution are obtained. This self-mixing interferometer has the advantages of higher sensitivity to weak signal than that of conventional interferometer. In addition, two orthogonally polarized fringes are useful for discriminating the moving direction of measured object. The experiment of measuring 2.5nm step is conducted, which shows a great potential in nanometrology.
DEFF Research Database (Denmark)
Amini Afshar, Mostafa; Bingham, Harry B.; Read, Robert
During recent years a computational strategy has been developed at the Technical University of Denmark for numerical simulation of water wave problems based on the high-order nite-dierence method, [2],[4]. These methods exhibit a linear scaling of the computational eort as the number of grid points...... increases. This understanding is being applied to develop a tool for predicting the added resistance (drift force) of ships in ocean waves. We expect that the optimal scaling properties of this solver will allow us to make a convincing demonstration of convergence of the added resistance calculations based...... on both near-eld and far-eld methods. The solver has been written inside a C++ library known as Overture [3], which can be used to solve partial dierential equations on overlapping grids based on the high-order nite-dierence method. The resulting code is able to solve, in the time domain, the linearised...
Energy Technology Data Exchange (ETDEWEB)
Hong, Youngjoon, E-mail: hongy@uic.edu; Nicholls, David P., E-mail: davidn@uic.edu
2017-02-01
The accurate numerical simulation of linear waves interacting with periodic layered media is a crucial capability in engineering applications. In this contribution we study the stable and high-order accurate numerical simulation of the interaction of linear, time-harmonic waves with a periodic, triply layered medium with irregular interfaces. In contrast with volumetric approaches, High-Order Perturbation of Surfaces (HOPS) algorithms are inexpensive interfacial methods which rapidly and recursively estimate scattering returns by perturbation of the interface shape. In comparison with Boundary Integral/Element Methods, the stable HOPS algorithm we describe here does not require specialized quadrature rules, periodization strategies, or the solution of dense non-symmetric positive definite linear systems. In addition, the algorithm is provably stable as opposed to other classical HOPS approaches. With numerical experiments we show the remarkable efficiency, fidelity, and accuracy one can achieve with an implementation of this algorithm.
Directory of Open Access Journals (Sweden)
Mang YY
2017-02-01
Full Text Available Yuanyi Mang, Li Li, Jianghua Ran, Shengning Zhang, Jing Liu, Laibang Li, Yiming Chen, Jian Liu, Yang Gao, Gang Ren Department of Hepato-Biliary-Pancreatic Surgery, The Calmette Affiliated Hospital of Kunming Medical University, The First Hospital of Kunming, Kunming, Yunnan, People’s Republic of China Abstract: Growing evidence demonstrates that long noncoding RNAs (lncRNAs are involved in the progression of various cancers, including hepatocellular carcinoma (HCC. The role of nuclear-enriched abundant transcript 1 (NEAT1, an essential lncRNA for the formation of nuclear body paraspeckles, has not been fully explored in HCC. We aimed to determine the expression, roles and functional mechanisms of NEAT1 in the proliferation and invasion of HCC. Based on real-time polymerase chain reaction data, we suggest that NEAT1 is upregulated in HCC tissues compared with noncancerous liver tissues. The knockdown of NEAT1 altered global gene expression patterns and reduced HCC cell proliferation, invasion and migration. RNA immunoprecipitation and RNA pull-down assays confirmed that U2AF65 binds to NEAT1. Furthermore, the study indicated that NEAT1 regulated hnRNP A2 expression and that this regulation may be associated with the NEAT1–U2AF65 protein complex. Thus, the NEAT1-hnRNP A2 regulation mechanism promotes HCC pathogenesis and may provide a potential target for the prognosis and treatment of HCC. Keywords: long noncoding RNA, NEAT1, RNA-binding protein, HCC
LENUS (Irish Health Repository)
Nyhan, Michelle J
2012-01-31
BACKGROUND: von Hippel-Lindau (VHL) tumour suppressor gene inactivation is associated with clear cell renal cell carcinoma (CCRCC) development. The VHL protein (pVHL) has been proposed to regulate the expression of several proteins including Hypoxia Inducible Factor-alpha (HIF-alpha), carbonic anhydrase (CA)IX, heterogeneous nuclear ribonucleoprotein (hnRNP) A2\\/B1 and osteopontin. pVHL has been characterized in vitro, however, clinical studies are limited. We evaluated the impact of VHL genetic alterations on the expression of several pVHL protein targets in paired normal and tumor tissue. METHODS: The VHL gene was sequenced in 23 CCRCC patients and VHL transcript levels were evaluated by real-time RT-PCR. Expression of pVHL\\'s protein targets were determined by Western blotting in 17 paired patient samples. RESULTS: VHL genetic alterations were identified in 43.5% (10\\/23) of CCRCCs. HIF-1alpha, HIF-2alpha and CAIX were up-regulated in 88.2% (15\\/17), 100% (17\\/17) and 88.2% (15\\/17) of tumors respectively and their expression is independent of VHL status. hnRNP A2\\/B1 and osteopontin expression was variable in CCRCCs and had no association with VHL genetic status. CONCLUSION: As expression of these proposed pVHL targets can be achieved independently of VHL mutation (and possibly by hypoxia alone), these data suggests that other pVHL targets may be more crucial in renal carcinogenesis.
Veit, Johannes; Sachsenberg, Timo; Chernev, Aleksandar; Aicheler, Fabian; Urlaub, Henning; Kohlbacher, Oliver
2016-09-02
Modern mass spectrometry setups used in today's proteomics studies generate vast amounts of raw data, calling for highly efficient data processing and analysis tools. Software for analyzing these data is either monolithic (easy to use, but sometimes too rigid) or workflow-driven (easy to customize, but sometimes complex). Thermo Proteome Discoverer (PD) is a powerful software for workflow-driven data analysis in proteomics which, in our eyes, achieves a good trade-off between flexibility and usability. Here, we present two open-source plugins for PD providing additional functionality: LFQProfiler for label-free quantification of peptides and proteins, and RNP(xl) for UV-induced peptide-RNA cross-linking data analysis. LFQProfiler interacts with existing PD nodes for peptide identification and validation and takes care of the entire quantitative part of the workflow. We show that it performs at least on par with other state-of-the-art software solutions for label-free quantification in a recently published benchmark ( Ramus, C.; J. Proteomics 2016 , 132 , 51 - 62 ). The second workflow, RNP(xl), represents the first software solution to date for identification of peptide-RNA cross-links including automatic localization of the cross-links at amino acid resolution and localization scoring. It comes with a customized integrated cross-link fragment spectrum viewer for convenient manual inspection and validation of the results.
Fan, Qiang; Huang, Zhenyu; Zhang, Bing; Chen, Dayue
2013-02-01
Properties of discontinuities, such as bolt joints and cracks in the waveguide structures, are difficult to evaluate by either analytical or numerical methods due to the complexity and uncertainty of the discontinuities. In this paper, the discontinuity in a Timoshenko beam is modeled with high-order parameters and then these parameters are identified by using reflection coefficients at the discontinuity. The high-order model is composed of several one-order sub-models in series and each sub-model consists of inertia, stiffness and damping components in parallel. The order of the discontinuity model is determined based on the characteristics of the reflection coefficient curve and the accuracy requirement of the dynamic modeling. The model parameters are identified through the least-square fitting iteration method, of which the undetermined model parameters are updated in iteration to fit the dynamic reflection coefficient curve with the wave-based one. By using the spectral super-element method (SSEM), simulation cases, including one-order discontinuities on infinite- and finite-beams and a two-order discontinuity on an infinite beam, were employed to evaluate both the accuracy of the discontinuity model and the effectiveness of the identification method. For practical considerations, effects of measurement noise on the discontinuity parameter identification are investigated by adding different levels of noise to the simulated data. The simulation results were then validated by the corresponding experiments. Both the simulation and experimental results show that (1) the one-order discontinuities can be identified accurately with the maximum errors of 6.8% and 8.7%, respectively; (2) and the high-order discontinuities can be identified with the maximum errors of 15.8% and 16.2%, respectively; and (3) the high-order model can predict the complex discontinuity much more accurately than the one-order discontinuity model.
Liu, H L; Walker, P M
2012-01-01
Total Routhian surface calculations have been performed to investigate rapidly rotating transfermium nuclei, the heaviest nuclei accessible by detailed spectroscopy experiments. The observed fast alignment in $^{252}$No and slow alignment in $^{254}$No are well reproduced by the calculations incorporating high-order deformations. The different rotational behaviors of $^{252}$No and $^{254}$No can be understood for the first time in terms of $\\beta_6$ deformation that decreases the energies of the $\
International Nuclear Information System (INIS)
Myong, R. S.; Nagdewe, S. P.
2011-01-01
The Grad's closure for the high-order moment equation is revisited and, by extending his theory, a physically motivated closure is developed for the one-dimensional velocity shear gas flow. The closure is based on the physical argument of the relative importance of various terms appearing in the moment equation. Also, the closure is derived such that the resulting theory may be inclusive of the well established linear theory (Navier-Stokes-Fourier) as limiting case near local thermal equilibrium.