WorldWideScience

Sample records for replicate nonuniform alignment

  1. CdTe microwire-based ultraviolet photodetectors aligned by a non-uniform electric field

    Science.gov (United States)

    Park, Hyunik; Yang, Gwangseok; Chun, Seungju; Kim, Donghwan; Kim, Jihyun

    2013-07-01

    We report on ultraviolet (UV) photodetectors fabricated by positioning Cadmium Telluride (CdTe) microwires (μWs) precisely by dielectrophoretic (DEP) force, where CdTe μWs were grown using an Au-catalyst-assisted closed-space-sublimation (CSS) method. The optical properties of CSS-grown CdTe μWs were characterized by micro-photoluminescence and micro-Raman spectroscopies. Optoelectronic characteristics were obtained after CdTe μWs were aligned on a pre-patterned SiO2/Si substrate by a non-uniform electric field. Photocurrents were increased with increasing the light intensities. Fast and reliable photoresponse and recovery were observed when CdTe μWs were exposed to UV illuminations. We demonstrated that high quality CdTe μWs grown by the CSS method have significant potentials as optoelectronic devices.

  2. Mobile and replicated alignment of arrays in data-parallel programs

    Science.gov (United States)

    Chatterjee, Siddhartha; Gilbert, John R.; Schreiber, Robert

    1993-01-01

    When a data-parallel language like FORTRAN 90 is compiled for a distributed-memory machine, aggregate data objects (such as arrays) are distributed across the processor memories. The mapping determines the amount of residual communication needed to bring operands of parallel operations into alignment with each other. A common approach is to break the mapping into two stages: first, an alignment that maps all the objects to an abstract template, and then a distribution that maps the template to the processors. We solve two facets of the problem of finding alignments that reduce residual communication: we determine alignments that vary in loops, and objects that should have replicated alignments. We show that loop-dependent mobile alignment is sometimes necessary for optimum performance, and we provide algorithms with which a compiler can determine good mobile alignments for objects within do loops. We also identify situations in which replicated alignment is either required by the program itself (via spread operations) or can be used to improve performance. We propose an algorithm based on network flow that determines which objects to replicate so as to minimize the total amount of broadcast communication in replication. This work on mobile and replicated alignment extends our earlier work on determining static alignment.

  3. Effects of aligned magneticfield and radiation on the flow of ferrofluids over a flat plate with non-uniform heat source/sink

    Directory of Open Access Journals (Sweden)

    Sandeep N

    2015-03-01

    Full Text Available In this study we analyzed the influence of radiation and aligned magneticfield on the flow of ferrofluids over a flat plate in presence of non-uniform heat source/sink and slip velocity.  We considered Fe3O4 magnetic nano particles embedded within the two types of base fluids namely water and kerosene. The governing partial differential equations are transformed into nonlinear ordinary differential equations by using similarity transformation and solved numerically using bvp5c Matlab package. The effects of dimensionless quantities on the flow and temperature profiles along with the friction factor and Nusselt number is discussed and presented through graphs and tables. It is found that present results have an excellent agreement with the existed studies under some special assumptions. Results indicate that a raise in the aligned angle enhances the skin friction coefficient and heat transfer rate.

  4. Alignment System for Full-Shell Replicated X-Ray Mirrors

    Science.gov (United States)

    Gubarev, Mikhail; Arnold, William; Ramsey, Brian

    2009-01-01

    We are developing grazing-incidence x-ray optics for high-energy astrophysical applications using the electroformnickel replication process. For space-based applications these optics must be light-weight yet stable, which dictates the use of very-thin-walled full-shell mirrors. Such shells have been fabricated with resolution as good as 11 arcsec for hard x-rays, and technology enhancements under development at MSFC are aimed at producing mirrors with resolution better than 10 arcsec. The challenge, however, is to preserve this resolution during mounting and assembly. We present here a status report on a mounting and alignment system currently under development at Marshall Space Flight Center designed to meet this challenge.

  5. Replication of self-centering optical fiber alignment structures using hot embossing

    Science.gov (United States)

    Ebraert, Evert; Wissmann, Markus; Barié, Nicole; Guttmann, Markus; Schneider, Marc; Kolew, Alexander; Worgull, Matthias; Beri, Stefano; Watté, Jan; Thienpont, Hugo; Van Erps, Jürgen

    2016-04-01

    With the demand for broadband connectivity on the rise due to various services like video-on-demand and cloud computing becoming more popular, the need for better connectivity infrastructure is high. The only future- proof option to supply this infrastructure is to deploy "fiber to the home" (FTTH) networks. One of the main difficulties with the deployment of FTTH is the vast amount of single-mode fiber (SMF) connections that need to be made. Hence there is a strong need for components which enable high performance, robust and easy-to- use SMF connectors. Since large-scale deployment is the goal, these components should be mass-producible at low cost. We discuss a rapid prototyping process on the basis of hot embossing replication of a self-centering alignment system (SCAS) based on three micro-springs, which can position a SMF independently of its diameter. This is beneficial since there is a fabrication tolerance of up to +/-1 μm on a standard G.652 SMF's diameter that can lead to losses if the outer diameter is used as a reference for alignment. The SCAS is first prototyped with deep proton writing (DPW) in polymethylmethacrylate (PMMA) after which it is glued to a copper substrate with an adhesive. Using an electroforming process, a nickel block is grown over the PMMA prototype followed by mechanical finishing to fabricate a structured nickel mould insert. Even though the mould insert shows non- ideal and rounded features it is used to create PMMA replicas of the SCAS by means of hot embossing. The SCAS possesses a central opening in which a bare SMF can be clamped, which is designed with a diameter of 121 μm. PMMA replicas are dimensionally characterized using a multisensor coordinate measurement machine and show a central opening diameter of 128.3 +/- 2.8 μm. This should be compared to the central opening diameter of the DPW prototype used for mould formation which was measured to be 120.5 μm. This shows that the electroforming and subsequent replication

  6. Hot-embossing replication of self-centering optical fiber alignment structures prototyped by deep proton writing

    Science.gov (United States)

    Ebraert, Evert; Wissmann, Markus; Guttmann, Markus; Kolew, Alexander; Worgull, Matthias; Barié, Nicole; Schneider, Marc; Hofmann, Andreas; Beri, Stefano; Watté, Jan; Thienpont, Hugo; Van Erps, Jürgen

    2016-07-01

    This paper presents the hot-embossing replication of self-centering fiber alignment structures for high-precision, single-mode optical fiber connectors. To this end, a metal mold insert was fabricated by electroforming a polymer prototype patterned by means of deep proton writing (DPW). To achieve through-hole structures, we developed a postembossing process step to remove the residual layer inherently present in hot-embossed structures. The geometrical characteristics of the hot-embossed replicas are compared, before and after removal of the residual layer, with the DPW prototypes. Initial measurements on the optical performance of the replicas are performed. The successful replication of these components paves the way toward low-cost mass replication of DPW-fabricated prototypes in a variety of high-tech plastics.

  7. Nonuniform $(\\mu,\

    CERN Document Server

    Bento, António J G

    2011-01-01

    We obtain a local stable manifold theorem for perturbations of nonautonomous linear difference equations possessing a very general type of nonuniform dichotomy, possibly with different growth rates in the uniform and nonuniform parts. We note that we consider situations were the classical Lyapunov exponents can be zero. Additionally, we study how the manifolds decay along the orbit of a point as well as the behavior under perturbations and give examples of nonautonomous linear difference equations that admit the dichotomies considered.

  8. Non-uniform sediment incipient velocity

    Institute of Scientific and Technical Information of China (English)

    Haitao XU; Jinyou LU; Xiaobin LIU

    2008-01-01

    Based on the mechanism of non-uniform sediment incipient motion,the dragging force and uplift force coefficient expressions are put forward for the non-uniform bed material exposure and close alignment state.The incipient veiocity formula of the non-uniform sediment is then established.It is shown that the formula structure is reasonable,and fine particles of the non-uniform sediment are more difficult to set into motion than the same sized uniform particles,whereas coarser particles are easier to set into motion than their uniform equivalents.The validity of the formula is verified by field and experiment data.

  9. Nonuniform Markov models

    CERN Document Server

    Ristad, E S; Ristad, Eric Sven; Thomas, Robert G.

    1996-01-01

    A statistical language model assigns probability to strings of arbitrary length. Unfortunately, it is not possible to gather reliable statistics on strings of arbitrary length from a finite corpus. Therefore, a statistical language model must decide that each symbol in a string depends on at most a small, finite number of other symbols in the string. In this report we propose a new way to model conditional independence in Markov models. The central feature of our nonuniform Markov model is that it makes predictions of varying lengths using contexts of varying lengths. Experiments on the Wall Street Journal reveal that the nonuniform model performs slightly better than the classic interpolated Markov model. This result is somewhat remarkable because both models contain identical numbers of parameters whose values are estimated in a similar manner. The only difference between the two models is how they combine the statistics of longer and shorter strings. Keywords: nonuniform Markov model, interpolated Markov m...

  10. Sound propagation through nonuniform ducts

    Science.gov (United States)

    Nayfeh, A. H.

    1976-01-01

    Methods of determining the transmission and attenuation of sound propagating in nonuniform ducts with and without mean flows are discussed. The approaches reviewed include purely numerical techniques, quasi-one-dimensional approximations, solutions for slowly varying cross sections, solutions for weak wall undulations, approximation of the duct by a series of stepped uniform cross sections, variational methods and solutions for the mode envelopes.

  11. Effective electrical conductivity of a nonuniform plasma

    Science.gov (United States)

    Nichols, L. D.

    1975-01-01

    A simple nonuniformity model for calculating effective electrical conductivity and Hall parameter is proposed. The model shows that the effective conductivity can be significantly reduced by nonuniformities in the Hall parameter, even if the local conductivity is uniform.

  12. TWO CONDITIONS FOR NONUNIFORM GABOR FRAMES

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    A necessary condition is given for general nonuniform Gabor frames, which generalizes Benedetto and Walnut's theorem. A sufficient and necessary condition for a class of nonuniform Gabor frames is proved.

  13. EZW coding using nonuniform quantization

    Science.gov (United States)

    Yin, Che-Yi; Derin, Haluk

    1999-10-01

    This paper presents an image coder that modifies the EZW coder and provides an improvement in its performance. The subband EZW image coder uses a uniform quantizer with a threshold (deadzone). Whereas, we know that the distribution/histogram of the wavelet tree subband coefficients, all except the lowest subband, tend to be Laplacian. To accommodate for this, we modify the refining procedure in EZW and use a non-uniform quantizer on the coefficients that better fits their distribution. The experimental results show that the new image coder performs better than EZW.

  14. Tunability of Nonuniform Reflection Holographic Filter

    Institute of Scientific and Technical Information of China (English)

    Shanhong You(游善红); Xinwan Li(李新碗); Jianhong Wu(吴建宏); Zongmin Yin(殷宗敏); Minxue Tang(唐敏学)

    2003-01-01

    The tunability of nonuniform reflection holographic filter is investigated theoretically and experimentally. It is shown that the reflection holographic filter has not only high optical density and narrow bandwidth, but also good tunability. The coupled wave theoretical model for uniform medium is compared with the model for nonuniform medium. It is identified that the coincidence of the theoretical results of the nonuniform model with the experimental results are better than that of the uniform model.

  15. Database Replication

    CERN Document Server

    Kemme, Bettina

    2010-01-01

    Database replication is widely used for fault-tolerance, scalability and performance. The failure of one database replica does not stop the system from working as available replicas can take over the tasks of the failed replica. Scalability can be achieved by distributing the load across all replicas, and adding new replicas should the load increase. Finally, database replication can provide fast local access, even if clients are geographically distributed clients, if data copies are located close to clients. Despite its advantages, replication is not a straightforward technique to apply, and

  16. Alignment validation

    Energy Technology Data Exchange (ETDEWEB)

    ALICE; ATLAS; CMS; LHCb; Golling, Tobias

    2008-09-06

    The four experiments, ALICE, ATLAS, CMS and LHCb are currently under constructionat CERN. They will study the products of proton-proton collisions at the Large Hadron Collider. All experiments are equipped with sophisticated tracking systems, unprecedented in size and complexity. Full exploitation of both the inner detector andthe muon system requires an accurate alignment of all detector elements. Alignmentinformation is deduced from dedicated hardware alignment systems and the reconstruction of charged particles. However, the system is degenerate which means the data is insufficient to constrain all alignment degrees of freedom, so the techniques are prone to converging on wrong geometries. This deficiency necessitates validation and monitoring of the alignment. An exhaustive discussion of means to validate is subject to this document, including examples and plans from all four LHC experiments, as well as other high energy experiments.

  17. Assessment of heating rate and non-uniform heating in domestic microwave ovens.

    Science.gov (United States)

    Pitchai, Krishnamoorthy; Birla, Sohan L; Jones, David; Subbiah, Jeyamkondan

    2012-01-01

    Due to the inherent nature of standing wave patterns of microwaves inside a domestic microwave oven cavity and varying dielectric properties of different food components, microwave heating produces non-uniform distribution of energy inside the food. Non-uniform heating is a major food safety concern in not-ready-to-eat (NRTE) microwaveable foods. In this study, we present a method for assessing heating rate and non-uniform heating in domestic microwave ovens. In this study a custom designed container was used to assess heating rate and non-uniform heating of a range of microwave ovens using a hedgehog of 30 T-type thermocouples. The mean and standard deviation of heating rate along the radial distance and sector of the container were measured and analyzed. The effect of the location of rings and sectors was analyzed using ANOVA to identify the best location for placing food on the turntable. The study suggested that the best location to place food in a microwave oven is not at the center but near the edge of the turntable assuming uniform heating is desired. The effect of rated power and cavity size on heating rate and non-uniform heating was also studied for a range of microwave ovens. As the rated power and cavity size increases, heating rate increases while non-uniform heating decreases. Sectors in the container also influenced heating rate (p heating rate. In general, sectors close to the magnetron tend to heat slightly faster than sectors away from the magnetron. However, the variation in heating rate among sectors was only 2 degrees C/min and considered not practically important. Overall heating performance such as mean heating rate and non-uniform heating did not significantly vary between the two replications that were performed 4 h apart. However, microwave ovens were inconsistent in producing the same heating patterns between the two replications that were performed 4 h apart.

  18. Beyond Alignment

    DEFF Research Database (Denmark)

    Beyond Alignment: Applying Systems Thinking to Architecting Enterprises is a comprehensive reader about how enterprises can apply systems thinking in their enterprise architecture practice, for business transformation and for strategic execution. The book's contributors find that systems thinking...... is a valuable way of thinking about the viable enterprise and how to architect it....

  19. Optimized Local Trigonometric Bases with Nonuniform Partitions

    Institute of Scientific and Technical Information of China (English)

    Qiao Fang LIAN; Yong Ge WANG; Dun Yan YAN

    2006-01-01

    The authors provide optimized local trigonometric bases with nonuniform partitions which efficiently compress trigonometric functions. Numerical examples demonstrate that in many cases the proposed bases provide better compression than the optimized bases with uniform partitions obtained by Matviyenko.

  20. Terahertz lenses based on nonuniform metasurfaces

    Science.gov (United States)

    Wang, Zhengbin; Chen, Jinchang; Xue, Manlin

    2015-03-01

    Nonuniform metasurfaces with varying dielectric thicknesses are introduced to full control the transmitted wavefront. Two-port network model is used to analyze the phase shifts of the transmitted field going through dielectric elements. Then, two terahertz convex lenses are designed by using nonuniform polyimide metasurfaces to realize the required abrupt phase distributions. Full-wave simulations demonstrate their excellent performances in controlling the transmitted waves.

  1. Static Scene Statistical Non-Uniformity Correction

    Science.gov (United States)

    2015-03-01

    data set in (a) and the nonuniform set in (b). There are some visible signs of the original source image, or ghosting , that is affecting the accuracy...different ratios of ∆̄KK̄ and thus different degrees of 31 precision over the image. The changing precision manifests itself as the ghosting seen in Figure...nonuniform data set. While there is some residual checkerboard pattern in these images, it should be noted that the amount of error is very small. To

  2. Algorithms for Automatic Alignment of Arrays

    Science.gov (United States)

    Chatterjee, Siddhartha; Gilbert, John R.; Oliker, Leonid; Schreiber, Robert; Sheffler, Thomas J.

    1996-01-01

    Aggregate data objects (such as arrays) are distributed across the processor memories when compiling a data-parallel language for a distributed-memory machine. The mapping determines the amount of communication needed to bring operands of parallel operations into alignment with each other. A common approach is to break the mapping into two stages: an alignment that maps all the objects to an abstract template, followed by a distribution that maps the template to the processors. This paper describes algorithms for solving the various facets of the alignment problem: axis and stride alignment, static and mobile offset alignment, and replication labeling. We show that optimal axis and stride alignment is NP-complete for general program graphs, and give a heuristic method that can explore the space of possible solutions in a number of ways. We show that some of these strategies can give better solutions than a simple greedy approach proposed earlier. We also show how local graph contractions can reduce the size of the problem significantly without changing the best solution. This allows more complex and effective heuristics to be used. We show how to model the static offset alignment problem using linear programming, and we show that loop-dependent mobile offset alignment is sometimes necessary for optimum performance. We describe an algorithm with for determining mobile alignments for objects within do loops. We also identify situations in which replicated alignment is either required by the program itself or can be used to improve performance. We describe an algorithm based on network flow that replicates objects so as to minimize the total amount of broadcast communication in replication.

  3. VIRUS spectrograph assembly and alignment procedures

    Science.gov (United States)

    Prochaska, Travis; Allen, Richard D.; Boster, Emily; DePoy, D. L.; Herbig, Benjamin; Hill, Gary J.; Lee, Hanshin; Marshall, Jennifer L.; Martin, Emily C.; Meador, William; Rheault, Jean-Philippe; Tuttle, Sarah E.; Vattiat, Brian L.

    2012-09-01

    We describe the mechanical assembly and optical alignment processes used to construct the Visual Integral-Field Replicable Unit Spectrograph (VIRUS) instrument. VIRUS is a set of 150+ optical spectrographs designed to support observations for the Hobby-Eberly Telescope Dark Energy Experiment (HETDEX). To meet the instrument's manufacturing constraints, a production line will be set up to build subassemblies in parallel. To aid in the instrument's assembly and alignment, specialized fixtures and adjustment apparatuses have been developed. We describe the design and operations of the various optics alignment apparatuses, as well as the mirrors' alignment and bonding fixtures.

  4. Simulations of non-uniform embossing:the effect of asymmetric neighbor cavities on polymer flow during nanoimprint lithography.

    Energy Technology Data Exchange (ETDEWEB)

    Schunk, Peter Randall; King, William P. (Georgia Institute of Technology, Atlanta, GA); Sun, Amy Cha-Tien; Rowland, Harry D. (Georgia Institute of Technology, Atlanta, GA)

    2007-08-01

    This paper presents continuum simulations of viscous polymer flow during nanoimprint lithography (NIL) for embossing tools having irregular spacings and sizes. Simulations varied non-uniform embossing tool geometry to distinguish geometric quantities governing cavity filling order, polymer peak deformation, and global mold filling times. A characteristic NIL velocity predicts cavity filling order. In general, small cavities fill more quickly than large cavities, while cavity spacing modulates polymer deformation mode. Individual cavity size, not total filling volume, dominates replication time, with large differences in individual cavity size resulting in non-uniform, squeeze flow filling. High density features can be modeled as a solid indenter in squeeze flow to accurately predict polymer flow and allow for optimization of wafer-scale replication. The present simulations make it possible to design imprint templates capable of distributing pressure evenly across the mold surface and facilitating symmetric polymer flow over large areas to prevent mold deformation and non-uniform residual layer thickness.

  5. Nonuniform sampling techniques for antenna applications

    Science.gov (United States)

    Rahmat-Samii, Yahya; Cheung, Rudolf Lap-Tung

    1987-01-01

    A two-dimensional sampling technique, which can employ irregularly spaced samples (amplitude and phase) in order to generate the complete far-field patterns is presented. The technique implements a matrix inversion algorithm, which depends only on the nonuniform sampled data point locations and with no dependence on the actual field values at these points. A powerful simulation algorithm is presented to allow a real-life simulation of many reflector/feed configurations and to determine the usefulness of the nonuniform sampling technique for the copolar and cross-polar patterns. Additionally, an overlapped window concept and a generalized error simulation model are discussed to identify the stability of the technique for recovering the field data among the nonuniform sampled data. Numerical results are tailored for the pattern reconstruction of a 20-m offset reflector antenna operating at L-band. This reflector is planned to be used in a proposed measurement concept of large antenna aboard the Space Shuttle, whereby it would be almost impractical to accurately control the movement of the Shuttle with respect to the RF source in prescribed directions in order to generate uniform sampled points. Also, application of the nonuniform sampling technique to patterns obtained using near-field measured data is demonstrated. Finally, results of an actual far-field measurement are presented for the construction of patterns of a reflector antenna from a set of nonuniformly distributed measured amplitude and phase data.

  6. Subrandom methods for multidimensional nonuniform sampling.

    Science.gov (United States)

    Worley, Bradley

    2016-08-01

    Methods of nonuniform sampling that utilize pseudorandom number sequences to select points from a weighted Nyquist grid are commonplace in biomolecular NMR studies, due to the beneficial incoherence introduced by pseudorandom sampling. However, these methods require the specification of a non-arbitrary seed number in order to initialize a pseudorandom number generator. Because the performance of pseudorandom sampling schedules can substantially vary based on seed number, this can complicate the task of routine data collection. Approaches such as jittered sampling and stochastic gap sampling are effective at reducing random seed dependence of nonuniform sampling schedules, but still require the specification of a seed number. This work formalizes the use of subrandom number sequences in nonuniform sampling as a means of seed-independent sampling, and compares the performance of three subrandom methods to their pseudorandom counterparts using commonly applied schedule performance metrics. Reconstruction results using experimental datasets are also provided to validate claims made using these performance metrics.

  7. Subrandom methods for multidimensional nonuniform sampling

    Science.gov (United States)

    Worley, Bradley

    2016-08-01

    Methods of nonuniform sampling that utilize pseudorandom number sequences to select points from a weighted Nyquist grid are commonplace in biomolecular NMR studies, due to the beneficial incoherence introduced by pseudorandom sampling. However, these methods require the specification of a non-arbitrary seed number in order to initialize a pseudorandom number generator. Because the performance of pseudorandom sampling schedules can substantially vary based on seed number, this can complicate the task of routine data collection. Approaches such as jittered sampling and stochastic gap sampling are effective at reducing random seed dependence of nonuniform sampling schedules, but still require the specification of a seed number. This work formalizes the use of subrandom number sequences in nonuniform sampling as a means of seed-independent sampling, and compares the performance of three subrandom methods to their pseudorandom counterparts using commonly applied schedule performance metrics. Reconstruction results using experimental datasets are also provided to validate claims made using these performance metrics.

  8. Nonuniform exponential dichotomies and Lyapunov functions

    Science.gov (United States)

    Barreira, Luis; Dragičević, Davor; Valls, Claudia

    2017-05-01

    For the nonautonomous dynamics defined by a sequence of bounded linear operators acting on an arbitrary Hilbert space, we obtain a characterization of the notion of a nonuniform exponential dichotomy in terms of quadratic Lyapunov sequences. We emphasize that, in sharp contrast with previous results, we consider the general case of possibly noninvertible linear operators, thus requiring only the invertibility along the unstable direction. As an application, we give a simple proof of the robustness of a nonuniform exponential dichotomy under sufficiently small linear perturbations.

  9. Generalized nonuniform dichotomies and local stable manifolds

    CERN Document Server

    Bento, António J G

    2010-01-01

    We establish the existence of local stable manifolds for semiflows generated by nonlinear perturbations of nonautonomous ordinary linear differential equations in Banach spaces, assuming the existence of a general type of nonuniform dichotomy for the evolution operator that contains the nonuniform exponential and polynomial dichotomies as a very particular case. The family of dichotomies considered allow situations for which the classical Lyapunov exponents are zero. Additionally, we give new examples of application of our stable manifold theorem and study the behavior of the dynamics under perturbations.

  10. Investigation of Pattern-Induced Brightness Non-uniformity in Active-Matrix Organic Light-Emitting Diode Displays

    Science.gov (United States)

    Kim, Kyoung-Bo; Park, Hye-Hyang; Kwon, Ohseob; Kim, Moojin; Lee, Ki-Yong; Park, Yongwoo; Choi, JongHyun; Yu, CheolHo; Kim, Hye-Dong; Kim, Sung Chul; Chung, Ho-Kyoon

    2008-01-01

    We recently improved the brightness non-uniformity in active-matrix organic light-emitting diode (AMOLED) regarding non-uniform laser energy distribution by applying a “shot mixing” technique in sequential lateral solidification (SLS) method. Although the new SLS technique was employed, another brightness non-uniformity that appeared as oblique lines on AMOLED panels became a crucial issue. In this work, we attempted to investigate the origins of the non-uniformity. Our systematic analysis on the oblique lines revealed that the line type non-uniformity was attributed to both the SLS process and the thin-film transistor (TFT) fabrication processes. In particular, we found that such oblique patterns might be related to moiré patterns that appear when primary grain boundaries aligned in a repetitive pattern is placed over other repetitive TFT patterns such as metal lines. We adopted a method to diminish the moiré pattern type non-uniformity by applying top emission TFT structure.

  11. Non-uniform sampled scalar diffraction calculation using non-uniform fast Fourier transform

    CERN Document Server

    Shimobaba, Tomoyoshi; Oikawa, Minoru; Okada, Naohisa; Endo, Yutaka; Hirayama, Ryuji; Ito, Tomoyoshi

    2013-01-01

    Scalar diffraction calculations such as the angular spectrum method (ASM) and Fresnel diffraction, are widely used in the research fields of optics, X-rays, electron beams, and ultrasonics. It is possible to accelerate the calculation using fast Fourier transform (FFT); unfortunately, acceleration of the calculation of non-uniform sampled planes is limited due to the property of the FFT that imposes uniform sampling. In addition, it gives rise to wasteful sampling data if we calculate a plane having locally low and high spatial frequencies. In this paper, we developed non-uniform sampled ASM and Fresnel diffraction to improve the problem using the non-uniform FFT.

  12. Radar Doppler Processing with Nonuniform Sampling.

    Energy Technology Data Exchange (ETDEWEB)

    Doerry, Armin W. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)

    2017-07-01

    Conventional signal processing to estimate radar Doppler frequency often assumes uniform pulse/sample spacing. This is for the convenience of t he processing. More recent performance enhancements in processor capability allow optimally processing nonuniform pulse/sample spacing, thereby overcoming some of the baggage that attends uniform sampling, such as Doppler ambiguity and SNR losses due to sidelobe control measures.

  13. Stone stability under non-uniform flow

    NARCIS (Netherlands)

    Hoan, N.T.; Booij, R.; Hofland, B.; Stive, M.J.F.; Verhagen, H.J.

    2007-01-01

    The current research is aimed at finding a dimensionless stability parameter for non-uniform flow in which the effect of turbulence is incorporated. To this end, experiments were carried out in which both the bed response (quantified by a dimensionless entrainment rate) and the flow field (velocity

  14. Nonlinear Boundary Stabilization of Nonuniform Timoshenko Beam

    Institute of Scientific and Technical Information of China (English)

    Qing-xu Yan; Hui-chao Zou; De-xing Feng

    2003-01-01

    In this paper, the stabilization problem of nonuniform Timoshenko beam by some nonlinear boundary feedback controls is considered. By virtue of nonlinear semigroup theory, energy-perturbed approach and exponential multiplier method, it is shown that the vibration of the beam under the proposed control action decays exponentially or in negative power of time t as t →∞.

  15. Stone Stability in Non-uniform Flow

    NARCIS (Netherlands)

    Hoan, N.T.; Stive, M.J.F.; Booij, R.; Hofland, B.; Verhagen, H.J.

    2011-01-01

    This paper presents the results of an experimental study on stone stability under nonuniform turbulent flow, in particular expanding flow. Detailed measurements of both flow and turbulence and the bed stability are described. Than various manners of quantifying the hydraulic loads exerted on the sto

  16. Capacitated Vehicle Routing with Nonuniform Speeds

    DEFF Research Database (Denmark)

    Gørtz, Inge Li; Molinaro, Marco; Nagarajan, Viswanath

    2016-01-01

    is the distance traveled divided by its speed.Our algorithm relies on a new approximate minimum spanning tree construction called Level-Prim, which is related to but different from Light Approximate Shortest-path Trees. We also extend the widely used tour-splitting technique to nonuniform speeds, using ideas from...

  17. BACKWARD WELLPOSEDNESS OF NONUNIFORM TIMOSHENKO BEAM EQUATION

    Institute of Scientific and Technical Information of China (English)

    司守奎

    2001-01-01

    In this paper,we consider the Timoshenko equation of a nonuniform beam,with clamped boundary condition at one end and with feedback controls at the other end.It is proved that the system is backward wellposedness when the feedback controls are weak enough.

  18. Elastic stability of non-uniform columns

    Science.gov (United States)

    Lee, S. Y.; Kuo, Y. H.

    1991-07-01

    A simple and efficient method is proposed to investigate the elastic stability of three different tapered columns subjected to uniformly distributed follower forces. The influences of the boundary conditions and taper ratio on critical buckling loads are investigated. The critical buckling loads of columns of rectangular cross section with constant depth and linearly varied width ( T1), constant width and linearly varied depth ( T2) and double taper ( T3) are investigated. Among the three different non-uniform columns considered, taper ratio has the greatest influence on the critical buckling load of column T3 and the lowest influence on that of column T1. The types of instability mechanisms for hinged-hinged and cantilever non-uniform columns are divergence and flutter respectively. However, for clamped-hinged and clamped-clamped non-uniform columns, the type of instability mechanism for column T1 is divergence, while that for columns T2 and T3 is divergence only when the taper ratio of the columns is greater than certain critical values and flutter for the rest value of taper ratio. When the type of instability mechanism changes from divergence to flutter, there is a finite jump for the critical buckling load. The influence of taper ratio on the elastic stability of cantilever column T3 is very sensitive for small values of the taper ratio and there also exist some discontinieties in the critical buckling loads of flutter instability. For a hinged-hinged non-uniform column ( T2 or T3) with a rotational spring at the left end of the column, when the taper ratio is less than the critical value the instability mechanism changes from divergence to flutter as the rotational spring constant is increased. For a clamped-elastically supported non-uniform column, when the taper ratio is greater than the critical value the instability mechanism changes from flutter to divergence as the translational spring constant is increased.

  19. HETDEX: VIRUS Spectrographs Assembly and Alignment

    Science.gov (United States)

    Prochaska, Travis; Marshall, J. L.; DePoy, D. L.; Boster, E.; Meador, W.; Allen, R.; Hill, G. J.; HETDEX Collaboration

    2012-01-01

    We describe the assembly and optical alignment process used to construct the Visual Integral-Field Replicable Unit Spectrograph (VIRUS) instrument. VIRUS is a set of 150+ optical spectrographs designed to support observations for the Hobby-Eberly Telescope Dark Energy Experiment (HETDEX). To meet the accuracy, interchangeability, time and cost constraints, a production line will be set up to construct and test modular subassemblies in parallel. To facilitate the VIRUS production, fixtures and adjustment mechanisms have been designed to aid in assembly and alignment. This poster describes the details and operations of the camera mirror, collimator mirror and grating adjustment mechanisms, as well as the fold flat mirror alignment fixture.

  20. Liquid Crystal Microlens Using Nanoparticle-Induced Vertical Alignment

    Directory of Open Access Journals (Sweden)

    Shug-June Hwang

    2015-01-01

    Full Text Available The nanoparticle-induced vertical alignment (NIVA of the nematic liquid crystals (LC is applied to achieve an adaptive flat LC microlens with hybrid-aligned nematic (HAN mode by dropping polyhedral oligomeric silsesquioxane (POSS nanoparticle solution on a homogeneous alignment layer. The vertical alignment induced by the POSS nanoparticles resulted in the formation of a hybrid-aligned LC layer with concentric nonuniform distribution of the refractive index in the planar LC cell, which subsequently played the role of the lens, even in the absence of any applied voltages. The dimensions of the concentric HAN structure significantly depend on the volume of the microdroplet and the POSS concentration. The focus effect of this flat microlens was observed while electrically controlling its focal length using the applied voltages from −50 mm to −90 mm.

  1. Archaeal DNA replication.

    Science.gov (United States)

    Kelman, Lori M; Kelman, Zvi

    2014-01-01

    DNA replication is essential for all life forms. Although the process is fundamentally conserved in the three domains of life, bioinformatic, biochemical, structural, and genetic studies have demonstrated that the process and the proteins involved in archaeal DNA replication are more similar to those in eukaryal DNA replication than in bacterial DNA replication, but have some archaeal-specific features. The archaeal replication system, however, is not monolithic, and there are some differences in the replication process between different species. In this review, the current knowledge of the mechanisms governing DNA replication in Archaea is summarized. The general features of the replication process as well as some of the differences are discussed.

  2. Non-Uniform Tube Representation of Proteins

    DEFF Research Database (Denmark)

    Hansen, Mikael Sonne

    Treating the full protein structure is often neither computationally nor physically possible. Instead one is forced to consider various reduced models capturing the properties of interest. Previous work have used tubular neighborhoods of the C-alpha backbone. However, assigning a unique radius...... might not correctly capture volume exclusion - of crucial importance when trying to understand a protein's 3d-structure. We propose a new reduced model treating the protein as a non-uniform tube with a radius reflecting the positions of atoms. The tube representation is well suited considering X......-ray crystallographic resolution ~ 3Å while a varying radius accounts for the different sizes of side chains. Such a non-uniform tube better captures the protein geometry and has numerous applications in structural/computational biology from the classification of protein structures to sequence-structure prediction....

  3. Non-uniform tube representation of proteins

    DEFF Research Database (Denmark)

    Hansen, Mikael Sonne

    Treating the full protein structure is often neither computationally nor physically possible. Instead one is forced to consider various reduced models capturing the properties of interest. Previous work have used tubular neighborhoods of the C-alpha backbone. However, assigning a unique radius...... might not correctly capture volume exclusion - of crucial importance when trying to understand a proteins $3$d-structure. We propose a new reduced model treating the protein as a non-uniform tube with a radius reflecting the positions of atoms. The tube representation is well suited considering X......-ray crystallographic resolution ~ 3Å while a varying radius accounts for the different sizes of side chains. Such a non-uniform tube better capture the protein geometry and has numerous applications in structural/computational biology from the classification of protein structures to sequence-structure prediction....

  4. Non-uniform tube representation of proteins

    DEFF Research Database (Denmark)

    Hansen, Mikael Sonne

    might not correctly capture volume exclusion - of crucial importance when trying to understand a proteins $3$d-structure. We propose a new reduced model treating the protein as a non-uniform tube with a radius reflecting the positions of atoms. The tube representation is well suited considering X......Treating the full protein structure is often neither computationally nor physically possible. Instead one is forced to consider various reduced models capturing the properties of interest. Previous work have used tubular neighborhoods of the C-alpha backbone. However, assigning a unique radius......-ray crystallographic resolution ~ 3Å while a varying radius accounts for the different sizes of side chains. Such a non-uniform tube better capture the protein geometry and has numerous applications in structural/computational biology from the classification of protein structures to sequence-structure prediction....

  5. Non-Uniform Tube Representation of Proteins

    DEFF Research Database (Denmark)

    Hansen, Mikael Sonne

    might not correctly capture volume exclusion - of crucial importance when trying to understand a protein's 3d-structure. We propose a new reduced model treating the protein as a non-uniform tube with a radius reflecting the positions of atoms. The tube representation is well suited considering X......Treating the full protein structure is often neither computationally nor physically possible. Instead one is forced to consider various reduced models capturing the properties of interest. Previous work have used tubular neighborhoods of the C-alpha backbone. However, assigning a unique radius......-ray crystallographic resolution ~ 3Å while a varying radius accounts for the different sizes of side chains. Such a non-uniform tube better captures the protein geometry and has numerous applications in structural/computational biology from the classification of protein structures to sequence-structure prediction....

  6. Orbital behavior around a nonuniform celestial body

    Science.gov (United States)

    Rosson, Z.; Hall, F.; Vogel, T.

    2016-09-01

    To effectively model the orbit around a nonuniform celestial body, detailed information needs to be determined of the perturbations. This research looked at one of the most crucial perturbations: the nonuniform gravitational field of a celestial body. Given an orbiting particle (a satellite), we utilized numerical methods to calculate its orbit in two dimensions around a discretized center mass structure. The gravitational acceleration imposed on the particle due to each mass point sums vectorally as the particle completes each infinitesimal time step of one orbit. There are noticeable effects on the orbit as the conditions of the center mass change. The development of a simulation code allows for the modelling of the orbit about an irregular body with satisfactory accuracy.

  7. Equilibrium bed-concentration of nonuniform sediment

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    Knowledge of the equilibrium bed-concentration is vital to mathematical modeling of the river-bed deformation associated with suspended load but previous investigations only dealt with the reference concentration of uniform sediment because of difficulties in observation of the bed-concentration. This work is a first attempt to develop a theoretical formula for the equilibrium bed-concentration of any fraction of nonuniform sediment defined at the bed-surface. The formula is based on a stochastic-mechanistic model for the exchange of nonuniform sediment near the bed, and described as a function of incipient motion probability, non-ceasing probability, pick-up probability, and the ratio of the average single-step continuous motion time to static time. Comparison of bed-concentration calculated from the proposed formula with the measured data showed satisfactory agreement, indicating the present formula can be used for solving the differential equation governing the motion of suspended load.

  8. Resistor array infrared nonuniformity correction based on sparse grid

    Science.gov (United States)

    He, Xudong; Qiu, Jiang; Zhang, Qiao; Du, Huijie; Zhao, Hongming

    2013-10-01

    Resistor array plays a vital role in emulation of the IR control and guide system. However, its serious nonuniformity confines the range of its application. Therefore, in order to obtain an available IR image, nonuniformity correction (NUC) is necessary. The traditional method is sparse grid and flood which only take the array's nonuniformity into account. In this paper we present an improved sparse grid method which considers the whole system which affects the array's nonuniformity by dividing the NUC process into different gray levels. In each gray level, we can take two points or several points to calculate the nonuniformity of every block which is divided before correction. After that, we can have several characteristic curves which will be operated with curve fitting. By this means, we will correct the nonuniformity. At last, through the experiment of a number of images, we find the residual nonuniformity associated with random noise is about 0.2% after the correction.

  9. Advanced Optics Experiments Using Nonuniform Aperture Functions

    CERN Document Server

    Wood, Lowell T

    2012-01-01

    A method to create instructive, nonuniform aperture functions using spatial frequency filtering is described. The diffraction from a single slit in the Fresnel limit and the interference from a double slit in the Fraunhofer limit are spatially filtered to create electric field distributions across an aperture to produce apodization, inverse apodization or super-resolution, and apertures with phase shifts across their widths. The diffraction effects from these aperture functions are measured and calculated. The excellent agreement between the experimental results and the calculated results makes the experiment ideal for use in an advanced undergraduate or graduate optics laboratory to illustrate experimentally several effects in Fourier optics.

  10. Inwardly rotating spirals in nonuniform excitable media.

    Science.gov (United States)

    Gao, Xiang; Feng, Xia; Cai, Mei-chun; Li, Bing-wei; Ying, He-ping; Zhang, Hong

    2012-01-01

    Inwardly rotating spirals (IRSs) have attracted great attention since their observation in an oscillatory reaction-diffusion system. However, IRSs have not yet been reported in planar excitable media. In the present work we investigate rotating waves in a nonuniform excitable medium, consisting of an inner disk part surrounded by an outer ring part with different excitabilities, by numerical simulations of a simple FitzHugh-Nagumo model. Depending on the excitability of the medium as well as the inhomogeneity, we find the occurrence of IRSs, of which the excitation propagates inwardly to the geometrical spiral tip.

  11. Nonuniform Braneworld Stars: AN Exact Solution

    Science.gov (United States)

    Ovalle, J.

    In this paper the first exact interior solution to Einstein's field equations for a static and nonuniform braneworld star with local and nonlocal bulk terms is presented. It is shown that the bulk Weyl scalar U(r) is always negative inside the stellar distribution, and in consequence it reduces both the effective density and the effective pressure. It is found that the anisotropy generated by bulk gravity effect has an acceptable physical behavior inside the distribution. Using a Reissner-Nördstrom-like exterior solution, the effects of bulk gravity on pressure and density are found through matching conditions.

  12. Vibrating wire alignment technique

    CERN Document Server

    Xiao-Long, Wang; lei, Wu; Chun-Hua, Li

    2013-01-01

    Vibrating wire alignment technique is a kind of method which through measuring the spatial distribution of magnetic field to do the alignment and it can achieve very high alignment accuracy. Vibrating wire alignment technique can be applied for magnet fiducialization and accelerator straight section components alignment, it is a necessary supplement for conventional alignment method. This article will systematically expound the international research achievements of vibrating wire alignment technique, including vibrating wire model analysis, system frequency calculation, wire sag calculation and the relation between wire amplitude and magnetic induction intensity. On the basis of model analysis this article will introduce the alignment method which based on magnetic field measurement and the alignment method which based on amplitude and phase measurement. Finally, some basic questions will be discussed and the solutions will be given.

  13. Scattering characteristics of conducting cylinder coated with nonuniform magnetized ferrite

    Institute of Scientific and Technical Information of China (English)

    Hu Bin-Jie; Edward Yung Kai-Ning; Zhang Jun; Toutain Serge

    2005-01-01

    An analytical technique, referred to as the scattering matrix method (SMM), is developed to analyse the scattering of a planar wave from a conducting cylinder coated with nonuniform magnetized ferrite. The SMM solution for the nonuniform ferrite coating can be reduced to the expressions for the scattering and penetrated coefficients in four particular cases: nonuniform magnetized ferrite cylinder, uniform magnetized ferrite-coated conducting cylinder, uniform ferrite cylinder as well as homogeneous dielectric-coated conducting cylinder. The resonant condition for the nonuniform ferrite coating is obtained. The distinctive differences in scattering between the nonuniform ferrite coating and the nonuniform dielectric coating are demonstrated. The effects of applied magnetic fields and wave frequencies on the scattering characteristics for two types of the linear profiles are revealed.

  14. Field emission from non-uniform carbon nanotube arrays.

    Science.gov (United States)

    Dall'agnol, Fernando F; den Engelsen, Daniel

    2013-07-10

    Regular arrays of carbon nanotubes (CNTs) are frequently used in studies on field emission. However, non-uniformities are always present like dispersions in height, radius, and position. In this report, we describe the effect of these non-uniformities in the overall emission current by simulation. We show that non-uniform arrays can be modeled as a perfect array multiplied by a factor that is a function of the CNTs spacing.

  15. Nonquasineutral electron vortices in nonuniform plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Angus, J. R.; Richardson, A. S.; Swanekamp, S. B.; Schumer, J. W. [Plasma Physics Division, Naval Research Laboratory, Washington, District of Columbia 20375 (United States); Ottinger, P. F. [Engility Corporation, Chantilly, Virginia 20151 (United States)

    2014-11-15

    Electron vortices are observed in the numerical simulation of current carrying plasmas on fast time scales where the ion motion can be ignored. In plasmas with nonuniform density n, vortices drift in the B × ∇n direction with a speed that is on the order of the Hall speed. This provides a mechanism for magnetic field penetration into a plasma. Here, we consider strong vortices with rotation speeds V{sub ϕ} close to the speed of light c where the vortex size δ is on the order of the magnetic Debye length λ{sub B}=|B|/4πen and the vortex is thus nonquasineutral. Drifting vortices are typically studied using the electron magnetohydrodynamic model (EMHD), which ignores the displacement current and assumes quasineutrality. However, these assumptions are not strictly valid for drifting vortices when δ ≈ λ{sub B}. In this paper, 2D electron vortices in nonuniform plasmas are studied for the first time using a fully electromagnetic, collisionless fluid code. Relatively large amplitude oscillations with periods that correspond to high frequency extraordinary modes are observed in the average drift speed. The drift speed W is calculated by averaging the electron velocity field over the vorticity. Interestingly, the time-averaged W from these simulations matches very well with W from the much simpler EMHD simulations even for strong vortices with order unity charge density separation.

  16. Downsampling Non-Uniformly Sampled Data

    Directory of Open Access Journals (Sweden)

    Fredrik Gustafsson

    2007-10-01

    Full Text Available Decimating a uniformly sampled signal a factor D involves low-pass antialias filtering with normalized cutoff frequency 1/D followed by picking out every Dth sample. Alternatively, decimation can be done in the frequency domain using the fast Fourier transform (FFT algorithm, after zero-padding the signal and truncating the FFT. We outline three approaches to decimate non-uniformly sampled signals, which are all based on interpolation. The interpolation is done in different domains, and the inter-sample behavior does not need to be known. The first one interpolates the signal to a uniformly sampling, after which standard decimation can be applied. The second one interpolates a continuous-time convolution integral, that implements the antialias filter, after which every Dth sample can be picked out. The third frequency domain approach computes an approximate Fourier transform, after which truncation and IFFT give the desired result. Simulations indicate that the second approach is particularly useful. A thorough analysis is therefore performed for this case, using the assumption that the non-uniformly distributed sampling instants are generated by a stochastic process.

  17. The non-uniformity of fossil preservation.

    Science.gov (United States)

    Holland, Steven M

    2016-07-19

    The fossil record provides the primary source of data for calibrating the origin of clades. Although minimum ages of clades are given by the oldest preserved fossil, these underestimate the true age, which must be bracketed by probabilistic methods based on multiple fossil occurrences. Although most of these methods assume uniform preservation rates, this assumption is unsupported over geological timescales. On geologically long timescales (more than 10 Myr), the origin and cessation of sedimentary basins, and long-term variations in tectonic subsidence, eustatic sea level and sedimentation rate control the availability of depositional facies that preserve the environments in which species lived. The loss of doomed sediments, those with a low probability of preservation, imparts a secular trend to fossil preservation. As a result, the fossil record is spatially and temporally non-uniform. Models of fossil preservation should reflect this non-uniformity by using empirical estimates of fossil preservation that are spatially and temporally partitioned, or by using indirect proxies of fossil preservation. Geologically, realistic models of preservation will provide substantially more reliable estimates of the origination of clades.This article is part of the themed issue 'Dating species divergences using rocks and clocks'.

  18. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G.Gomez.

    Since June of 2009, the muon alignment group has focused on providing new alignment constants and on finalizing the hardware alignment reconstruction. Alignment constants for DTs and CSCs were provided for CRAFT09 data reprocessing. For DT chambers, the track-based alignment was repeated using CRAFT09 cosmic ray muons and validated using segment extrapolation and split cosmic tools. One difference with respect to the previous alignment is that only five degrees of freedom were aligned, leaving the rotation around the local x-axis to be better determined by the hardware system. Similarly, DT chambers poorly aligned by tracks (due to limited statistics) were aligned by a combination of photogrammetry and hardware-based alignment. For the CSC chambers, the hardware system provided alignment in global z and rotations about local x. Entire muon endcap rings were further corrected in the transverse plane (global x and y) by the track-based alignment. Single chamber track-based alignment suffers from poor statistic...

  19. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G. Gomez and J. Pivarski

    2011-01-01

    Alignment efforts in the first few months of 2011 have shifted away from providing alignment constants (now a well established procedure) and focussed on some critical remaining issues. The single most important task left was to understand the systematic differences observed between the track-based (TB) and hardware-based (HW) barrel alignments: a systematic difference in r-φ and in z, which grew as a function of z, and which amounted to ~4-5 mm differences going from one end of the barrel to the other. This difference is now understood to be caused by the tracker alignment. The systematic differences disappear when the track-based barrel alignment is performed using the new “twist-free” tracker alignment. This removes the largest remaining source of systematic uncertainty. Since the barrel alignment is based on hardware, it does not suffer from the tracker twist. However, untwisting the tracker causes endcap disks (which are aligned ...

  20. Replication Restart in Bacteria.

    Science.gov (United States)

    Michel, Bénédicte; Sandler, Steven J

    2017-07-01

    In bacteria, replication forks assembled at a replication origin travel to the terminus, often a few megabases away. They may encounter obstacles that trigger replisome disassembly, rendering replication restart from abandoned forks crucial for cell viability. During the past 25 years, the genes that encode replication restart proteins have been identified and genetically characterized. In parallel, the enzymes were purified and analyzed in vitro, where they can catalyze replication initiation in a sequence-independent manner from fork-like DNA structures. This work also revealed a close link between replication and homologous recombination, as replication restart from recombination intermediates is an essential step of DNA double-strand break repair in bacteria and, conversely, arrested replication forks can be acted upon by recombination proteins and converted into various recombination substrates. In this review, we summarize this intense period of research that led to the characterization of the ubiquitous replication restart protein PriA and its partners, to the definition of several replication restart pathways in vivo, and to the description of tight links between replication and homologous recombination, responsible for the importance of replication restart in the maintenance of genome stability. Copyright © 2017 American Society for Microbiology.

  1. Nonuniform Coverage Control on the Line

    CERN Document Server

    Leonard, Naomi Ehrich

    2011-01-01

    This paper investigates control laws allowing mobile, autonomous agents to optimally position themselves on the line for distributed sensing in a nonuniform field. We show that a simple static control law, based only on local measurements of the field by each agent, drives the agents to the optimal positions in time which is quadratic in the number of agents. However, we exhibit a dynamic control law which, under slightly stronger assumptions on the capabilities and knowledge of each agent, drives the agents to the optimal positions an order of magnitude faster, namely in time linear in the number of agents. Both algorithms are fully distributed and robust to unpredictable loss and addition of agents.

  2. Non-uniform sampling of NMR relaxation data

    DEFF Research Database (Denmark)

    Schwarz-Linnet, Troels; Teilum, Kaare

    2016-01-01

    The use of non-uniform sampling of NMR spectra may give significant reductions in the data acquisition time. For quantitative experiments such as the measurement of spin relaxation rates, non-uniform sampling is however not widely used as inaccuracies in peak intensities may lead to errors...

  3. Nonuniform exponential unstability of evolution operators in Banach spaces

    OpenAIRE

    Megan, Mihail; Sasu, Adina Luminita; Sasu, Bogdan

    2001-01-01

    In this paper we consider a nonuniform unsrability concept for evolution operators in Banach spaces. The relationship between this concept and the Perron condition is studied. Generalizations to the nonuniform case of some results of Van Minh, Rabiger and Schnaubelt are obtained. The theory we present here is applicable for general time - varying linear equations in Banach spaces.

  4. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G.Gomez

    2010-01-01

    The main developments in muon alignment since March 2010 have been the production, approval and deployment of alignment constants for the ICHEP data reprocessing. In the barrel, a new geometry, combining information from both hardware and track-based alignment systems, has been developed for the first time. The hardware alignment provides an initial DT geometry, which is then anchored as a rigid solid, using the link alignment system, to a reference frame common to the tracker. The “GlobalPositionRecords” for both the Tracker and Muon systems are being used for the first time, and the initial tracker-muon relative positioning, based on the link alignment, yields good results within the photogrammetry uncertainties of the Tracker and alignment ring positions. For the first time, the optical and track-based alignments show good agreement between them; the optical alignment being refined by the track-based alignment. The resulting geometry is the most complete to date, aligning all 250 DTs, ...

  5. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    Z. Szillasi and G. Gomez.

    2013-01-01

    When CMS is opened up, major components of the Link and Barrel Alignment systems will be removed. This operation, besides allowing for maintenance of the detector underneath, is needed for making interventions that will reinforce the alignment measurements and make the operation of the alignment system more reliable. For that purpose and also for their general maintenance and recalibration, the alignment components will be transferred to the Alignment Lab situated in the ISR area. For the track-based alignment, attention is focused on the determination of systematic uncertainties, which have become dominant, since now there is a large statistics of muon tracks. This will allow for an improved Monte Carlo misalignment scenario and updated alignment position errors, crucial for high-momentum muon analysis such as Z′ searches.

  6. DNA replication and cancer

    DEFF Research Database (Denmark)

    Boyer, Anne-Sophie; Walter, David; Sørensen, Claus Storgaard

    2016-01-01

    A dividing cell has to duplicate its DNA precisely once during the cell cycle to preserve genome integrity avoiding the accumulation of genetic aberrations that promote diseases such as cancer. A large number of endogenous impacts can challenge DNA replication and cells harbor a battery of pathways...... causing DNA replication stress and genome instability. Further, we describe cellular and systemic responses to these insults with a focus on DNA replication restart pathways. Finally, we discuss the therapeutic potential of exploiting intrinsic replicative stress in cancer cells for targeted therapy....

  7. Ontology alignment with OLA

    OpenAIRE

    Euzenat, Jérôme; Loup, David; Touzani, Mohamed; Valtchev, Petko

    2004-01-01

    euzenat2004d; International audience; Using ontologies is the standard way to achieve interoperability of heterogeneous systems within the Semantic web. However, as the ontologies underlying two systems are not necessarily compatible, they may in turn need to be aligned. Similarity-based approaches to alignment seems to be both powerful and flexible enough to match the expressive power of languages like OWL. We present an alignment tool that follows the similarity-based paradigm, called OLA. ...

  8. Signal transfer in passive dendrites with nonuniform membrane conductance.

    Science.gov (United States)

    London, M; Meunier, C; Segev, I

    1999-10-01

    In recent years it became clear that dendrites possess a host of ion channels that may be distributed nonuniformly over their membrane surface. In cortical pyramids, for example, it was demonstrated that the resting membrane conductance G(m)(x) is higher (the membrane is "leakier") at distal dendritic regions than at more proximal sites. How does this spatial nonuniformity in G(m)(x) affect the input-output function of the neuron? The present study aims at providing basic insights into this question. To this end, we have analytically studied the fundamental effects of membrane non-uniformity in passive cable structures. Keeping the total membrane conductance over a given modeled structure fixed (i.e., a constant number of passive ion channels), the classical case of cables with uniform membrane conductance is contrasted with various nonuniform cases with the following general conclusions. (1) For cylindrical cables with "sealed ends," monotonic increase in G(m)(x) improves voltage transfer from the input location to the soma. The steeper the G(m)(x), the larger the improvement. (2) This effect is further enhanced when the stimulation is distal and consists of a synaptic input rather than a current source. (3) Any nonuniformity in G(m)(x) decreases the electrotonic length, L, of the cylinder. (4) The system time constant tau(0) is larger in the nonuniform case than in the corresponding uniform case. (5) When voltage transients relax with tau(0), the dendritic tree is not isopotential in the nonuniform case, at variance with the uniform case. The effect of membrane nonuniformity on signal transfer in reconstructed dendritic trees and on the I/f relation of the neuron is also considered, and experimental methods for assessing membrane nonuniformity in dendrites are discussed.

  9. Tidal alignment of galaxies

    Energy Technology Data Exchange (ETDEWEB)

    Blazek, Jonathan; Vlah, Zvonimir; Seljak, Uroš

    2015-08-01

    We develop an analytic model for galaxy intrinsic alignments (IA) based on the theory of tidal alignment. We calculate all relevant nonlinear corrections at one-loop order, including effects from nonlinear density evolution, galaxy biasing, and source density weighting. Contributions from density weighting are found to be particularly important and lead to bias dependence of the IA amplitude, even on large scales. This effect may be responsible for much of the luminosity dependence in IA observations. The increase in IA amplitude for more highly biased galaxies reflects their locations in regions with large tidal fields. We also consider the impact of smoothing the tidal field on halo scales. We compare the performance of this consistent nonlinear model in describing the observed alignment of luminous red galaxies with the linear model as well as the frequently used "nonlinear alignment model," finding a significant improvement on small and intermediate scales. We also show that the cross-correlation between density and IA (the "GI" term) can be effectively separated into source alignment and source clustering, and we accurately model the observed alignment down to the one-halo regime using the tidal field from the fully nonlinear halo-matter cross correlation. Inside the one-halo regime, the average alignment of galaxies with density tracers no longer follows the tidal alignment prediction, likely reflecting nonlinear processes that must be considered when modeling IA on these scales. Finally, we discuss tidal alignment in the context of cosmic shear measurements.

  10. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G.Gomez

    2010-01-01

    Most of the work in muon alignment since December 2009 has focused on the geometry reconstruction from the optical systems and improvements in the internal alignment of the DT chambers. The barrel optical alignment system has progressively evolved from reconstruction of single active planes to super-planes (December 09) to a new, full barrel reconstruction. Initial validation studies comparing this full barrel alignment at 0T with photogrammetry provide promising results. In addition, the method has been applied to CRAFT09 data, and the resulting alignment at 3.8T yields residuals from tracks (extrapolated from the tracker) which look smooth, suggesting a good internal barrel alignment with a small overall offset with respect to the tracker. This is a significant improvement, which should allow the optical system to provide a start-up alignment for 2010. The end-cap optical alignment has made considerable progress in the analysis of transfer line data. The next set of alignment constants for CSCs will there...

  11. Flexural Free Vibrations of Multistep Nonuniform Beams

    Directory of Open Access Journals (Sweden)

    Guojin Tan

    2016-01-01

    Full Text Available This paper presents an exact approach to investigate the flexural free vibrations of multistep nonuniform beams. Firstly, one-step beam with moment of inertia and mass per unit length varying as I(x=α11+βxr+4 and m(x=α21+βxr was studied. By using appropriate transformations, the differential equation for flexural free vibration of one-step beam with variable cross section is reduced to a four-order differential equation with constant coefficients. According to different types of roots for the characteristic equation of four-order differential equation with constant coefficients, two kinds of modal shape functions are obtained, and the general solutions for flexural free vibration of one-step beam with variable cross section are presented. An exact approach to solve the natural frequencies and modal shapes of multistep beam with variable cross section is presented by using transfer matrix method, the exact general solutions of one-step beam, and iterative method. Numerical examples reveal that the calculated frequencies and modal shapes are in good agreement with the finite element method (FEM, which demonstrates the solutions of present method are exact ones.

  12. High harmonic terahertz confocal gyrotron with nonuniform electron beam

    Energy Technology Data Exchange (ETDEWEB)

    Fu, Wenjie; Guan, Xiaotong; Yan, Yang [THz Research Center, School of Physical Electronics, University of Electronic Science and Technology of China, Chengdu 610054 (China)

    2016-01-15

    The harmonic confocal gyrotron with nonuniform electron beam is proposed in this paper in order to develop compact and high power terahertz radiation source. A 0.56 THz third harmonic confocal gyrotron with a dual arc section nonuniform electron beam has been designed and investigated. The studies show that confocal cavity has extremely low mode density, and has great advantage to operate at high harmonic. Nonuniform electron beam is an approach to improve output power and interaction efficiency of confocal gyrotron. A dual arc beam magnetron injection gun for designed confocal gyrotron has been developed and presented in this paper.

  13. Minimum emittance in storage rings with uniform or nonuniform dipoles

    Directory of Open Access Journals (Sweden)

    Chun-xi Wang

    2009-06-01

    Full Text Available A simple treatment of minimum emittance theory in storage rings is presented, favoring vector and matrix forms for a more concise picture. Both conventional uniform dipoles and nonuniform dipoles with bending radius variation are treated. Simple formulas are given for computing the minimum emittance, optimal lattice parameters, as well as effects of nonoptimal parameters. For nonuniform dipoles, analytical results are obtained for a three-piece sandwich dipole model. Minimization of the effective emittance for light sources is given in detail. Usefulness of gradient and/or nonuniform dipoles for reducing the effective emittance is addressed.

  14. Replicating animal mitochondrial DNA

    Directory of Open Access Journals (Sweden)

    Emily A. McKinney

    2013-01-01

    Full Text Available The field of mitochondrial DNA (mtDNA replication has been experiencing incredible progress in recent years, and yet little is certain about the mechanism(s used by animal cells to replicate this plasmid-like genome. The long-standing strand-displacement model of mammalian mtDNA replication (for which single-stranded DNA intermediates are a hallmark has been intensively challenged by a new set of data, which suggests that replication proceeds via coupled leading-and lagging-strand synthesis (resembling bacterial genome replication and/or via long stretches of RNA intermediates laid on the mtDNA lagging-strand (the so called RITOLS. The set of proteins required for mtDNA replication is small and includes the catalytic and accessory subunits of DNA polymerase y, the mtDNA helicase Twinkle, the mitochondrial single-stranded DNA-binding protein, and the mitochondrial RNA polymerase (which most likely functions as the mtDNA primase. Mutations in the genes coding for the first three proteins are associated with human diseases and premature aging, justifying the research interest in the genetic, biochemical and structural properties of the mtDNA replication machinery. Here we summarize these properties and discuss the current models of mtDNA replication in animal cells.

  15. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G. Gomez

    Since December, the muon alignment community has focused on analyzing the data recorded so far in order to produce new DT and CSC Alignment Records for the second reprocessing of CRAFT data. Two independent algorithms were developed which align the DT chambers using global tracks, thus providing, for the first time, a relative alignment of the barrel with respect to the tracker. These results are an important ingredient for the second CRAFT reprocessing and allow, for example, a more detailed study of any possible mis-modelling of the magnetic field in the muon spectrometer. Both algorithms are constructed in such a way that the resulting alignment constants are not affected, to first order, by any such mis-modelling. The CSC chambers have not yet been included in this global track-based alignment due to a lack of statistics, since only a few cosmics go through the tracker and the CSCs. A strategy exists to align the CSCs using the barrel as a reference until collision tracks become available. Aligning the ...

  16. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    Gervasio Gomez

    The main progress of the muon alignment group since March has been in the refinement of both the track-based alignment for the DTs and the hardware-based alignment for the CSCs. For DT track-based alignment, there has been significant improvement in the internal alignment of the superlayers inside the DTs. In particular, the distance between superlayers is now corrected, eliminating the residual dependence on track impact angles, and good agreement is found between survey and track-based corrections. The new internal geometry has been approved to be included in the forthcoming reprocessing of CRAFT samples. The alignment of DTs with respect to the tracker using global tracks has also improved significantly, since the algorithms use the latest B-field mapping, better run selection criteria, optimized momentum cuts, and an alignment is now obtained for all six degrees of freedom (three spatial coordinates and three rotations) of the aligned DTs. This work is ongoing and at a stage where we are trying to unders...

  17. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G.Gomez

    2011-01-01

    The Muon Alignment work now focuses on producing a new track-based alignment with higher track statistics, making systematic studies between the results of the hardware and track-based alignment methods and aligning the barrel using standalone muon tracks. Currently, the muon track reconstruction software uses a hardware-based alignment in the barrel (DT) and a track-based alignment in the endcaps (CSC). An important task is to assess the muon momentum resolution that can be achieved using the current muon alignment, especially for highly energetic muons. For this purpose, cosmic ray muons are used, since the rate of high-energy muons from collisions is very low and the event statistics are still limited. Cosmics have the advantage of higher statistics in the pT region above 100 GeV/c, but they have the disadvantage of having a mostly vertical topology, resulting in a very few global endcap muons. Only the barrel alignment has therefore been tested so far. Cosmic muons traversing CMS from top to bottom are s...

  18. Non-local means-based nonuniformity correction for infrared focal-plane array detectors

    Science.gov (United States)

    Yu, Hui; Zhang, Zhi-jie; Chen, Fu-sheng; Wang, Chen-sheng

    2014-11-01

    The infrared imaging systems are normally based on the infrared focal-plane array (IRFPA) which can be considered as an array of independent detectors aligned at the focal plane of the imaging system. Unfortunately, every detector on the IRFPA may have a different response to the same input infrared signal which is known as the nonuniformity problem. Then we can observe the fixed pattern noise (FPN) from the resulting images. Standard nonuniformity correction (NUC) methods need to be recalibrated after a short period of time due the temporal drift of the FPN. Scene-based nonuniformity correction (NUC) techniques eliminate the need for calibration by correction coefficients based on the scene being viewed. However, in the scene-based NUC method the problem of ghosting artifacts widely seriously decreases the image quality, which can degrade the performance of many applications such as target detection and track. This paper proposed an improved scene-based method based on the retina-like neural network approach. The method incorporates the use of non-local means (NLM) method into the estimation of the gain and the offset of each detector. This method can not only estimates the accurate correction coefficient but also restrict the ghosting artifacts efficiently. The proposed method relies on the use of NLM method which is a very successful image denoising method. And then the NLM used here can preserve the image edges efficiently and obtain a reliable spatial estimation. We tested the proposed NUC method by applying it to an IR sequence of frames. The performance of the proposed method was compared the other well-established adaptive NUC techniques.

  19. Minimum mean square error method for stripe nonuniformity correction

    Institute of Scientific and Technical Information of China (English)

    Weixian Qian; Qian Chen; Guohua Gu

    2011-01-01

    @@ Stripe nonuniformity is very typical in line infrared focal plane (IRFPA) and uncooled starring IRFPA.We develop the minimum mean square error (MMSE) method for stripe nonuniformity correction (NUC).The goal of the MMSE method is to determine the optimal NUC parameters for making the corrected image the closest to the ideal image.%Stripe nonuniformity is very typical in line infrared focal plane (IRFPA) and uncooled starring IRFPA.We develop the minimum mean square error (MMSE) method for stripe nonuniformity correction (NUC).The goal of the MMSE method is to determine the optimal NUC parameters for making the corrected image the closest to the ideal image. Moreover, this method can be achieved in one frame, making it more competitive than other scene-based NUC algorithms. We also demonstrate the calibration results of our algorithm using real and virtual infrared image sequences. The experiments verify the positive effect of our algorithm.

  20. Practical Non-Uniform Channelization for Multistandard Base Stations

    Institute of Scientific and Technical Information of China (English)

    Alvaro Palomo Navarro; Rudi Villing; Ronan J. Farrell

    2011-01-01

    A multistandard software-defined radio base station must perform non-uniform channelization of multiplexed frequency bands. Non-uniform channelization accounts for a significant portion of the digital signal processing workload in the base station receiver and can be difficult to realize in a physical implementation. In non-uniform channelization methods based on generalized DFT filter banks, large prototype filter orders are a significant issue for implementation. In this paper, a multistage filter design is applied to two different non-uniform generalized DFT-based channelizers in order to reduce their filter orders. To evaluate the approach, a TETRA and TEDS base station is used. Experimental results show that the new multistage design reduces both the number of coefficients and operations and leads to a more feasible design and practical physical implementation.

  1. Absolute parametric instability in a nonuniform plane plasma waveguide

    Indian Academy of Sciences (India)

    Khaled Hamed El-Shorbagy; Atef Ahmed El-Bendary; Shatha Jameel Monaquel

    2013-04-01

    The paper reports an analysis of the effect of spatial plasma nonuniformity on absolute parametric instability (API) of electrostatic waves in magnetized plane waveguides subjected to an intense high-frequency (HF) electric field using the separation method. In this case the effect of strong static magnetic field is considered. The problem of strong magnetic field is solved in 1D nonuniform plane plasma waveguide. The equation describing the spatial part of the electric potential is obtained. Also, the growth rates and conditions of the parametric instability for periodic and aperiodic cases are obtained. It is found that the spatial nonuniformity of the plasma exerts a stabilizing effect on the API. It is shown that the growth rates of periodic and aperiodic API in nonuniform plasma are less compared to that of uniform plasma.

  2. Physics of Grain Alignment

    CERN Document Server

    Lazarian, A

    2000-01-01

    Aligned grains provide one of the easiest ways to study magnetic fields in diffuse gas and molecular clouds. How reliable our conclusions about the inferred magnetic field depends critically on our understanding of the physics of grain alignment. Although grain alignment is a problem of half a century standing recent progress achieved in the field makes us believe that we are approaching the solution of this mystery. I review basic physical processes involved in grain alignment and show why mechanisms that were favored for decades do not look so promising right now. I also discuss why the radiative torque mechanism ignored for more than 20 years looks right now the most powerful means of grain alignment.

  3. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G. Gomez

    2011-01-01

    A new set of muon alignment constants was approved in August. The relative position between muon chambers is essentially unchanged, indicating good detector stability. The main changes concern the global positioning of the barrel and of the endcap rings to match the new Tracker geometry. Detailed studies of the differences between track-based and optical alignment of DTs have proven to be a valuable tool for constraining Tracker alignment weak modes, and this information is now being used as part of the alignment procedure. In addition to the “split-cosmic” analysis used to investigate the muon momentum resolution at high momentum, a new procedure based on reconstructing the invariant mass of di-muons from boosted Zs is under development. Both procedures show an improvement in the momentum precision of Global Muons with respect to Tracker-only Muons. Recent developments in track-based alignment include a better treatment of the tails of residual distributions and accounting for correla...

  4. SPEAR3 Construction Alignment

    Energy Technology Data Exchange (ETDEWEB)

    LeCocq, Catherine; Banuelos, Cristobal; Fuss, Brian; Gaudreault, Francis; Gaydosh, Michael; Griffin, Levirt; Imfeld, Hans; McDougal, John; Perry, Michael; Rogers,; /SLAC

    2005-08-17

    An ambitious seven month shutdown of the existing SPEAR2 synchrotron radiation facility was successfully completed in March 2004 when the first synchrotron light was observed in the new SPEAR3 ring, SPEAR3 completely replaced SPEAR2 with new components aligned on a new highly-flat concrete floor. Devices such as magnets and vacuum chambers had to be fiducialized and later aligned on girder rafts that were then placed into the ring over pre-aligned support plates. Key to the success of aligning this new ring was to ensure that the new beam orbit matched the old SPEAR2 orbit so that existing experimental beamlines would not have to be reoriented. In this presentation a pictorial summary of the Alignment Engineering Group's surveying tasks for the construction of the SPEAR3 ring is provided. Details on the networking and analysis of various surveys throughout the project can be found in the accompanying paper.

  5. Impact of a nonuniform charge distribution on virus assembly

    Science.gov (United States)

    Li, Siyu; Erdemci-Tandogan, Gonca; Wagner, Jef; van der Schoot, Paul; Zandi, Roya

    2017-08-01

    Many spherical viruses encapsulate their genomes in protein shells with icosahedral symmetry. This process is spontaneous and driven by electrostatic interactions between positive domains on the virus coat proteins and the negative genomes. We model the effect of the nonuniform icosahedral charge distribution from the protein shell instead using a mean-field theory. We find that this nonuniform charge distribution strongly affects the optimal genome length and that it can explain the experimentally observed phenomenon of overcharging of virus and viruslike particles.

  6. Childhood chronic inflammatory demyelinating polyneuropathy with nonuniform pathologic features.

    Science.gov (United States)

    Luan, Xinghua; Zheng, Riliang; Chen, Bin; Yuan, Yun

    2010-08-01

    Nonuniform pathologic changes in chronic inflammatory demyelinating polyneuropathy were previously reported only in adult humans. We analyzed the pathologic features of 12 children, aged 2-17 years, with chronic inflammatory demyelinating polyneuropathy. Six patients manifested a preceding illness. Five patients presented a chronic, monophasic course, and seven presented a relapsing-remitting course. Three patients exhibited multiple cranial-nerve involvement. Five of 12 (41.7%) patients presented nonuniform features. Two subtypes of nonuniform lesions were revealed. One exhibited varying myelinated fiber content between nerve fascicles, and one exhibited onion bulbs involving a variable number of fascicles. Macrophages were evident in 11 patients, and the number of CD3-positive T cells in the nonuniform group was greater compared with the uniform group (P = 0.045). Our results demonstrate that childhood chronic inflammatory demyelinating polyneuropathy exhibits pathologically nonuniform features, thus providing more evidence to assist in differential diagnoses of pediatric patients. However, clinical and electrophysiologic features, as well as responses to treatment, were similar in the nonuniform and uniform groups.

  7. The Replication Recipe: What makes for a convincing replication?

    NARCIS (Netherlands)

    Brandt, M.J.; IJzerman, H.; Dijksterhuis, A.J.; Farach, F.J.; Geller, J.; Giner-Sorolla, R.; Grange, J.A.; Perugini, M.; Spies, J.R.; Veer, A. van 't

    2014-01-01

    Psychological scientists have recently started to reconsider the importance of close replications in building a cumulative knowledge base; however, there is no consensus about what constitutes a convincing close replication study. To facilitate convincing close replication attempts we have developed

  8. Galaxy alignments: An overview

    CERN Document Server

    Joachimi, Benjamin; Kitching, Thomas D; Leonard, Adrienne; Mandelbaum, Rachel; Schäfer, Björn Malte; Sifón, Cristóbal; Hoekstra, Henk; Kiessling, Alina; Kirk, Donnacha; Rassat, Anais

    2015-01-01

    The alignments between galaxies, their underlying matter structures, and the cosmic web constitute vital ingredients for a comprehensive understanding of gravity, the nature of matter, and structure formation in the Universe. We provide an overview on the state of the art in the study of these alignment processes and their observational signatures, aimed at a non-specialist audience. The development of the field over the past one hundred years is briefly reviewed. We also discuss the impact of galaxy alignments on measurements of weak gravitational lensing, and discuss avenues for making theoretical and observational progress over the coming decade.

  9. Discriminative Shape Alignment

    DEFF Research Database (Denmark)

    Loog, M.; de Bruijne, M.

    2009-01-01

    The alignment of shape data to a common mean before its subsequent processing is an ubiquitous step within the area shape analysis. Current approaches to shape analysis or, as more specifically considered in this work, shape classification perform the alignment in a fully unsupervised way......, not taking into account that eventually the shapes are to be assigned to two or more different classes. This work introduces a discriminative variation to well-known Procrustes alignment and demonstrates its benefit over this classical method in shape classification tasks. The focus is on two......-dimensional shapes from a two-class recognition problem....

  10. Replication regions of two pairs of incompatible lactococcal theta-replicating plasmids.

    Science.gov (United States)

    Gravesen, A; von Wright, A; Josephsen, J; Vogensen, F K

    1997-01-01

    Incompatibility tests were performed employing 12 replicons belonging to a family of homologous lactococcal theta-replicating plasmids. Two pairs of incompatible plasmids were found, namely, pFV1001 and pFV1201, and pJW565 and pFW094. The replicons of plasmids pFV1001, pFV1201, pJW565, pJW566, and pFW094 were sequenced. Alignments were made of the replicational origins (repA) and putative replication proteins (RepB) of these and 11 related plasmid sequences. Comparison of the alignments with the incompatibility data indicated that the incompatibility determinant could be contained within the 22-bp tandem repeats DRII and/or the inverted repeat IR1 in repA. In support, the incompatibility determinant of pJW563 was localized to a 743-bp fragment encompassing repA. A stretch of 13 amino acids of RepB was proposed to be responsible for the plasmid-specific initiation of replication. This stretch is part of a domain containing features that are highly conserved within the proposed DNA binding regions of the initiation proteins from several well-characterized plasmids from Gram-negative bacteria, including pSC101, R6K, and mini-F.

  11. Modeling DNA Replication.

    Science.gov (United States)

    Bennett, Joan

    1998-01-01

    Recommends the use of a model of DNA made out of Velcro to help students visualize the steps of DNA replication. Includes a materials list, construction directions, and details of the demonstration using the model parts. (DDR)

  12. Eukaryotic DNA Replication Fork.

    Science.gov (United States)

    Burgers, Peter M J; Kunkel, Thomas A

    2017-06-20

    This review focuses on the biogenesis and composition of the eukaryotic DNA replication fork, with an emphasis on the enzymes that synthesize DNA and repair discontinuities on the lagging strand of the replication fork. Physical and genetic methodologies aimed at understanding these processes are discussed. The preponderance of evidence supports a model in which DNA polymerase ε (Pol ε) carries out the bulk of leading strand DNA synthesis at an undisturbed replication fork. DNA polymerases α and δ carry out the initiation of Okazaki fragment synthesis and its elongation and maturation, respectively. This review also discusses alternative proposals, including cellular processes during which alternative forks may be utilized, and new biochemical studies with purified proteins that are aimed at reconstituting leading and lagging strand DNA synthesis separately and as an integrated replication fork.

  13. Abiotic self-replication.

    Science.gov (United States)

    Meyer, Adam J; Ellefson, Jared W; Ellington, Andrew D

    2012-12-18

    The key to the origins of life is the replication of information. Linear polymers such as nucleic acids that both carry information and can be replicated are currently what we consider to be the basis of living systems. However, these two properties are not necessarily coupled. The ability to mutate in a discrete or quantized way, without frequent reversion, may be an additional requirement for Darwinian evolution, in which case the notion that Darwinian evolution defines life may be less of a tautology than previously thought. In this Account, we examine a variety of in vitro systems of increasing complexity, from simple chemical replicators up to complex systems based on in vitro transcription and translation. Comparing and contrasting these systems provides an interesting window onto the molecular origins of life. For nucleic acids, the story likely begins with simple chemical replication, perhaps of the form A + B → T, in which T serves as a template for the joining of A and B. Molecular variants capable of faster replication would come to dominate a population, and the development of cycles in which templates could foster one another's replication would have led to increasingly complex replicators and from thence to the initial genomes. The initial genomes may have been propagated by RNA replicases, ribozymes capable of joining oligonucleotides and eventually polymerizing mononucleotide substrates. As ribozymes were added to the genome to fill gaps in the chemistry necessary for replication, the backbone of a putative RNA world would have emerged. It is likely that such replicators would have been plagued by molecular parasites, which would have been passively replicated by the RNA world machinery without contributing to it. These molecular parasites would have been a major driver for the development of compartmentalization/cellularization, as more robust compartments could have outcompeted parasite-ridden compartments. The eventual outsourcing of metabolic

  14. Adenovirus DNA Replication

    OpenAIRE

    Hoeben, Rob C.; Uil, Taco G.

    2013-01-01

    Adenoviruses have attracted much attention as probes to study biological processes such as DNA replication, transcription, splicing, and cellular transformation. More recently these viruses have been used as gene-transfer vectors and oncolytic agents. On the other hand, adenoviruses are notorious pathogens in people with compromised immune functions. This article will briefly summarize the basic replication strategy of adenoviruses and the key proteins involved and will deal with the new deve...

  15. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G.Gomez

    Since September, the muon alignment system shifted from a mode of hardware installation and commissioning to operation and data taking. All three optical subsystems (Barrel, Endcap and Link alignment) have recorded data before, during and after CRAFT, at different magnetic fields and during ramps of the magnet. This first data taking experience has several interesting goals: •    study detector deformations and movements under the influence of the huge magnetic forces; •    study the stability of detector structures and of the alignment system over long periods, •    study geometry reproducibility at equal fields (specially at 0T and 3.8T); •    reconstruct B=0T geometry and compare to nominal/survey geometries; •    reconstruct B=3.8T geometry and provide DT and CSC alignment records for CMSSW. However, the main goal is to recons...

  16. Impact of Information Technology Governance Structures on Strategic Alignment

    Science.gov (United States)

    Gordon, Fitzroy R.

    2013-01-01

    This dissertation is a study of the relationship between Information Technology (IT) strategic alignment and IT governance structure within the organization. This dissertation replicates Asante (2010) among a different population where the prior results continue to hold, the non-experimental approach explored two research questions but include two…

  17. Impact of Information Technology Governance Structures on Strategic Alignment

    Science.gov (United States)

    Gordon, Fitzroy R.

    2013-01-01

    This dissertation is a study of the relationship between Information Technology (IT) strategic alignment and IT governance structure within the organization. This dissertation replicates Asante (2010) among a different population where the prior results continue to hold, the non-experimental approach explored two research questions but include two…

  18. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    S. Szillasi

    2013-01-01

    The CMS detector has been gradually opened and whenever a wheel became exposed the first operation was the removal of the MABs, the sensor structures of the Hardware Barrel Alignment System. By the last days of June all 36 MABs have arrived at the Alignment Lab at the ISR where, as part of the Alignment Upgrade Project, they are refurbished with new Survey target holders. Their electronic checkout is on the way and finally they will be recalibrated. During LS1 the alignment system will be upgraded in order to allow more precise reconstruction of the MB4 chambers in Sector 10 and Sector 4. This requires new sensor components, so called MiniMABs (pictured below), that have already been assembled and calibrated. Image 6: Calibrated MiniMABs are ready for installation For the track-based alignment, the systematic uncertainties of the algorithm are under scrutiny: this study will enable the production of an improved Monte Carlo misalignment scenario and to update alignment position errors eventually, crucial...

  19. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G. Gomez

    2012-01-01

      A new muon alignment has been produced for 2012 A+B data reconstruction. It uses the latest Tracker alignment and single-muon data samples to align both DTs and CSCs. Physics validation has been performed and shows a modest improvement in stand-alone muon momentum resolution in the barrel, where the alignment is essentially unchanged from the previous version. The reference-target track-based algorithm using only collision muons is employed for the first time to align the CSCs, and a substantial improvement in resolution is observed in the endcap and overlap regions for stand-alone muons. This new alignment is undergoing the approval process and is expected to be deployed as part of a new global tag in the beginning of December. The pT dependence of the φ-bias in curvature observed in Monte Carlo was traced to a relative vertical misalignment between the Tracker and barrel muon systems. Moving the barrel as a whole to match the Tracker cures this pT dependence, leaving only the &phi...

  20. Incremental Alignment Manifold Learning

    Institute of Scientific and Technical Information of China (English)

    Zhi Han; De-Yu Meng; Zong-Sen Xu; Nan-Nan Gu

    2011-01-01

    A new manifold learning method, called incremental alignment method (IAM), is proposed for nonlinear dimensionality reduction of high dimensional data with intrinsic low dimensionality. The main idea is to incrementally align low-dimensional coordinates of input data patch-by-patch to iteratively generate the representation of the entire dataset. The method consists of two major steps, the incremental step and the alignment step. The incremental step incrementally searches neighborhood patch to be aligned in the next step, and the alignment step iteratively aligns the low-dimensional coordinates of the neighborhood patch searched to generate the embeddings of the entire dataset. Compared with the existing manifold learning methods, the proposed method dominates in several aspects: high efficiency, easy out-of-sample extension, well metric-preserving, and averting of the local minima issue. All these properties are supported by a series of experiments performed on the synthetic and real-life datasets. In addition, the computational complexity of the proposed method is analyzed, and its efficiency is theoretically argued and experimentally demonstrated.

  1. Minichromosome replication in vitro: inhibition of re-replication by replicatively assembled nucleosomes.

    Science.gov (United States)

    Krude, T; Knippers, R

    1994-08-19

    Single-stranded circular DNA, containing the SV40 origin sequence, was used as a template for complementary DNA strand synthesis in cytosolic extracts from HeLa cells. In the presence of the replication-dependent chromatin assembly factor CAF-1, defined numbers of nucleosomes were assembled during complementary DNA strand synthesis. These minichromosomes were then induced to semiconservatively replicate by the addition of the SV40 initiator protein T antigen (re-replication). The results indicate that re-replication of minichromosomes appears to be inhibited by two independent mechanisms. One acts at the initiation of minichromosome re-replication, and the other affects replicative chain elongation. To directly demonstrate the inhibitory effect of replicatively assembled nucleosomes, two types of minichromosomes were prepared: (i) post-replicative minichromosomes were assembled in a reaction coupled to replication as above; (ii) pre-replicative minichromosomes were assembled independently of replication on double-stranded DNA. Both types of minichromosomes were used as templates for DNA replication under identical conditions. Replicative fork movement was found to be impeded only on post-replicative minichromosome templates. In contrast, pre-replicative minichromosomes allowed one unconstrained replication cycle, but re-replication was inhibited due to a block in fork movement. Thus, replicatively assembled chromatin may have a profound influence on the re-replication of DNA.

  2. Measurements of conductivity nonuniformities and fluctuations in combustion MHD plasmas

    Science.gov (United States)

    Kowalik, R. M.

    1980-03-01

    Diagnostics for the characterization of electrical conductivity nonuniformities in combustion magnetohydrodynamic (MHD) plasmas were developed. An initial characterization of nonuniformities in the Stanford M-2 linear generator was obtained and recommendations were made concerning the use of the diagnostics in practical MHD generator configurations. A laser induced fluorescene (LIF) diagnostic for nonintrusive measurements of local conductivity fluctuations was developed. This diagnostic and other line of sight averaged optical nonuniformity diagnostics were successfully demonstrated in several experiments in the Standford M-2 combustion systems. Results were used to characterize the nonuniformities in the M-2 system and to compare and evaluate the diagnostics. Conductivity nonuniformities were found to be predominantly streamers which had relatively long length scales of the order of l m in the axial flow direction. Shortet transverse length scales of the order of 0.1 m were found perpendicular to the flow direction. A combination of LIF and plasma luminosity diagnostics is recommended for future characterizations of conductivity uniformities in combustion MHD plasmas.

  3. Non-uniform sampling of NMR relaxation data

    Energy Technology Data Exchange (ETDEWEB)

    Linnet, Troels E.; Teilum, Kaare, E-mail: kaare.teilum@bio.ku.dk [University of Copenhagen, SBiNLab and the Linderstrøm-Lang Centre for Protein Science, Department of Biology (Denmark)

    2016-02-15

    The use of non-uniform sampling of NMR spectra may give significant reductions in the data acquisition time. For quantitative experiments such as the measurement of spin relaxation rates, non-uniform sampling is however not widely used as inaccuracies in peak intensities may lead to errors in the extracted dynamic parameters. By systematic reducing the coverage of the Nyquist grid of {sup 15}N Carr-Purcell-Meiboom-Gill (CPMG) relaxation dispersion datasets for four different proteins and performing a full data analysis of the resulting non-uniform sampled datasets, we have compared the performance of the multi-dimensional decomposition and iterative re-weighted least-squares algorithms in reconstructing spectra with accurate peak intensities. As long as a single fully sampled spectrum is included in a series of otherwise non-uniform sampled two-dimensional spectra, multi-dimensional decomposition reconstructs the non-uniform sampled spectra with high accuracy. For two of the four analyzed datasets, a coverage of only 20 % results in essentially the same results as the fully sampled data. As exemplified by other data, such a low coverage is in general not enough to produce reliable results. We find that a coverage level not compromising the final results can be estimated by recording a single full two-dimensional spectrum and reducing the spectrum quality in silico.

  4. Curriculum Alignment Research Suggests that Alignment Can Improve Student Achievement

    Science.gov (United States)

    Squires, David

    2012-01-01

    Curriculum alignment research has developed showing the relationship among three alignment categories: the taught curriculum, the tested curriculum and the written curriculum. Each pair (for example, the taught and the written curriculum) shows a positive impact for aligning those results. Following this, alignment results from the Third…

  5. Curriculum Alignment Research Suggests that Alignment Can Improve Student Achievement

    Science.gov (United States)

    Squires, David

    2012-01-01

    Curriculum alignment research has developed showing the relationship among three alignment categories: the taught curriculum, the tested curriculum and the written curriculum. Each pair (for example, the taught and the written curriculum) shows a positive impact for aligning those results. Following this, alignment results from the Third…

  6. Investigating variation in replicability: A "Many Labs" replication project

    NARCIS (Netherlands)

    Klein, R.A.; Ratliff, K.A.; Vianello, M.; Adams, R.B.; Bahnik, S.; Bernstein, M.J.; Bocian, K.; Brandt, M.J.; Brooks, B.; Brumbaugh, C.C.; Cemalcilar, Z.; Chandler, J.; Cheong, W.; Davis, W.E.; Devos, T.; Eisner, M.; Frankowska, N.; Furrow, D.; Galliani, E.M.; Hasselman, F.W.; Hicks, J.A.; Hovermale, J.F.; Hunt, S.J.; Huntsinger, J.R.; IJzerman, H.; John, M.S.; Joy-Gaba, J.A.; Kappes, H.B.; Krueger, L.E.; Kurtz, J.; Levitan, C.A.; Mallett, R.K.; Morris, W.L.; Nelson, A.J.; Nier, J.A.; Packard, G.; Pilati, R.; Rutchick, A.M.; Schmidt, K.; Skorinko, J.L.M.; Smith, R.; Steiner, T.G.; Storbeck, J.; Van Swol, L.M.; Thompson, D.; Veer, A.E. van 't; Vaughn, L.A.; Vranka, M.; Wichman, A.L.; Woodzicka, J.A.; Nosek, B.A.

    2014-01-01

    Although replication is a central tenet of science, direct replications are rare in psychology. This research tested variation in the replicability of 13 classic and contemporary effects across 36 independent samples totaling 6,344 participants. In the aggregate, 10 effects replicated consistently.

  7. Hepatitis B virus replication

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Hepadnaviruses, including human hepatitis B virus (HBV), replicate through reverse transcription of an RNA intermediate, the pregenomic RNA (pgRNA). Despite this kinship to retroviruses, there are fundamental differences beyond the fact that hepadnavirions contain DNA instead of RNA. Most peculiar is the initiation of reverse transcription: it occurs by protein-priming, is strictly committed to using an RNA hairpin on the pgRNA,ε, as template, and depends on cellular chaperones;moreover, proper replication can apparently occur only in the specialized environment of intact nucleocapsids.This complexity has hampered an in-depth mechanistic understanding. The recent successful reconstitution in the test tube of active replication initiation complexes from purified components, for duck HBV (DHBV),now allows for the analysis of the biochemistry of hepadnaviral replication at the molecular level. Here we review the current state of knowledge at all steps of the hepadnaviral genome replication cycle, with emphasis on new insights that turned up by the use of such cellfree systems. At this time, they can, unfortunately,not be complemented by three-dimensional structural information on the involved components. However, at least for the s RNA element such information is emerging,raising expectations that combining biophysics with biochemistry and genetics will soon provide a powerful integrated approach for solving the many outstanding questions. The ultimate, though most challenging goal,will be to visualize the hepadnaviral reverse transcriptase in the act of synthesizing DNA, which will also have strong implications for drug development.

  8. MaxAlign: maximizing usable data in an alignment

    DEFF Research Database (Denmark)

    Oliveira, Rodrigo Gouveia; Sackett, Peter Wad; Pedersen, Anders Gorm

    2007-01-01

    BACKGROUND: The presence of gaps in an alignment of nucleotide or protein sequences is often an inconvenience for bioinformatical studies. In phylogenetic and other analyses, for instance, gapped columns are often discarded entirely from the alignment. RESULTS: MaxAlign is a program that optimizes...... the alignment prior to such analyses. Specifically, it maximizes the number of nucleotide (or amino acid) symbols that are present in gap-free columns - the alignment area - by selecting the optimal subset of sequences to exclude from the alignment. MaxAlign can be used prior to phylogenetic and bioinformatical...... analyses as well as in other situations where this form of alignment improvement is useful. In this work we test MaxAlign's performance in these tasks and compare the accuracy of phylogenetic estimates including and excluding gapped columns from the analysis, with and without processing with MaxAlign...

  9. Photovoltaic healing of non-uniformities in semiconductor devices

    Energy Technology Data Exchange (ETDEWEB)

    Karpov, Victor G.; Roussillon, Yann; Shvydka, Diana; Compaan, Alvin D.; Giolando, Dean M.

    2006-08-29

    A method of making a photovoltaic device using light energy and a solution to normalize electric potential variations in the device. A semiconductor layer having nonuniformities comprising areas of aberrant electric potential deviating from the electric potential of the top surface of the semiconductor is deposited onto a substrate layer. A solution containing an electrolyte, at least one bonding material, and positive and negative ions is applied over the top surface of the semiconductor. Light energy is applied to generate photovoltage in the semiconductor, causing a redistribution of the ions and the bonding material to the areas of aberrant electric potential. The bonding material selectively bonds to the nonuniformities in a manner such that the electric potential of the nonuniformities is normalized relative to the electric potential of the top surface of the semiconductor layer. A conductive electrode layer is then deposited over the top surface of the semiconductor layer.

  10. LDPC Code Design for Nonuniform Power-Line Channels

    Directory of Open Access Journals (Sweden)

    Masoud Ardakani

    2007-01-01

    Full Text Available We investigate low-density parity-check code design for discrete multitone channels over power lines. Discrete multitone channels are well modeled as nonuniform channels, that is, different bits experience various channel parameters. We propose a coding system for discrete multitone channels that allows for using a single code over a nonuniform channel. The number of code parameters for the proposed system is much greater than the number of code parameters in conventional channel. Therefore, search-based optimization methods are impractical. We first formulate the problem of optimizing the rate of an irregular low-density parity-check code, with guaranteed convergence over a general nonuniform channel, as an iterative linear programming which is significantly more efficient than search-based methods. Then we use this technique for a typical power-line channel. The methodology of this paper is directly applicable to all decoding algorithms for which a density evolution analysis is possible.

  11. LDPC Code Design for Nonuniform Power-Line Channels

    Directory of Open Access Journals (Sweden)

    Sanaei Ali

    2007-01-01

    Full Text Available We investigate low-density parity-check code design for discrete multitone channels over power lines. Discrete multitone channels are well modeled as nonuniform channels, that is, different bits experience various channel parameters. We propose a coding system for discrete multitone channels that allows for using a single code over a nonuniform channel. The number of code parameters for the proposed system is much greater than the number of code parameters in conventional channel. Therefore, search-based optimization methods are impractical. We first formulate the problem of optimizing the rate of an irregular low-density parity-check code, with guaranteed convergence over a general nonuniform channel, as an iterative linear programming which is significantly more efficient than search-based methods. Then we use this technique for a typical power-line channel. The methodology of this paper is directly applicable to all decoding algorithms for which a density evolution analysis is possible.

  12. Psychology, replication & beyond.

    Science.gov (United States)

    Laws, Keith R

    2016-06-01

    Modern psychology is apparently in crisis and the prevailing view is that this partly reflects an inability to replicate past findings. If a crisis does exists, then it is some kind of 'chronic' crisis, as psychologists have been censuring themselves over replicability for decades. While the debate in psychology is not new, the lack of progress across the decades is disappointing. Recently though, we have seen a veritable surfeit of debate alongside multiple orchestrated and well-publicised replication initiatives. The spotlight is being shone on certain areas and although not everyone agrees on how we should interpret the outcomes, the debate is happening and impassioned. The issue of reproducibility occupies a central place in our whig history of psychology.

  13. Recognition of Computer Viruses by Detecting Their Gene of Self Replication

    Science.gov (United States)

    2006-03-01

    addresses that are shared with write access. It uses entry-point obscuring ( EPO ) and an encryption method that is both very simple to implement and very...and code-optimized at a lower level. "* Replication includes a split-inject- regenerate mechanism for the virus body "* Replication includes a correct...sections and a file alignment: ghost° = Sheader + Sseci + Ssec2 + +. SseN Fa Viral code regeneration mechanism is indicative of cavity replication. Unless

  14. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    Gervasio Gomez

    2012-01-01

      The new alignment for the DT chambers has been successfully used in physics analysis starting with the 52X Global Tag. The remaining main areas of development over the next few months will be preparing a new track-based CSC alignment and producing realistic APEs (alignment position errors) and MC misalignment scenarios to match the latest muon alignment constants. Work on these items has been delayed from the intended timeline, mostly due to a large involvement of the muon alignment man-power in physics analyses over the first half of this year. As CMS keeps probing higher and higher energies, special attention must be paid to the reconstruction of very-high-energy muons. Recent muon POG reports from mid-June show a φ-dependence in curvature bias in Monte Carlo samples. This bias is observed already at the tracker level, where it is constant with muon pT, while it grows with pT as muon chamber information is added to the tracks. Similar studies show a much smaller effect in data, at le...

  15. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G. Gomez

    2010-01-01

    For the last three months, the Muon Alignment group has focussed on providing a new, improved set of alignment constants for the end-of-year data reprocessing. These constants were delivered on time and approved by the CMS physics validation team on November 17. The new alignment incorporates several improvements over the previous one from March for nearly all sub-systems. Motivated by the loss of information from a hardware failure in May (an entire MAB was lost), the optical barrel alignment has moved from a modular, super-plane reconstruction, to a full, single loop calculation of the entire geometry for all DTs in stations 1, 2 and 3. This makes better use of the system redundancy, mitigating the effect of the information loss. Station 4 is factorised and added afterwards to make the system smaller (and therefore faster to run), and also because the MAB calibration at the MB4 zone is less precise. This new alignment procedure was tested at 0 T against photogrammetry resulting in precisions of the order...

  16. MUON DETECTORS: ALIGNMENT

    CERN Document Server

    M. Dallavalle

    2013-01-01

    A new Muon misalignment scenario for 2011 (7 TeV) Monte Carlo re-processing was re-leased. The scenario is based on running of standard track-based reference-target algorithm (exactly as in data) using single-muon simulated sample (with the transverse-momentum spectrum matching data). It used statistics similar to what was used for alignment with 2011 data, starting from an initially misaligned Muon geometry from uncertainties of hardware measurements and using the latest Tracker misalignment geometry. Validation of the scenario (with muons from Z decay and high-pT simulated muons) shows that it describes data well. The study of systematic uncertainties (dominant by now due to huge amount of data collected by CMS and used for muon alignment) is finalised. Realistic alignment position errors are being obtained from the estimated uncertainties and are expected to improve the muon reconstruction performance. Concerning the Hardware Alignment System, the upgrade of the Barrel Alignment is in progress. By now, d...

  17. Ergodic Secret Alignment

    CERN Document Server

    Bassily, Raef

    2010-01-01

    In this paper, we introduce two new achievable schemes for the fading multiple access wiretap channel (MAC-WT). In the model that we consider, we assume that perfect knowledge of the state of all channels is available at all the nodes in a causal fashion. Our schemes use this knowledge together with the time varying nature of the channel model to align the interference from different users at the eavesdropper perfectly in a one-dimensional space while creating a higher dimensionality space for the interfering signals at the legitimate receiver hence allowing for better chance of recovery. While we achieve this alignment through signal scaling at the transmitters in our first scheme (scaling based alignment (SBA)), we let nature provide this alignment through the ergodicity of the channel coefficients in the second scheme (ergodic secret alignment (ESA)). For each scheme, we obtain the resulting achievable secrecy rate region. We show that the secrecy rates achieved by both schemes scale with SNR as 1/2log(SNR...

  18. A new nonuniformity correction algorithm for infrared line scanners

    Science.gov (United States)

    Sui, Jing; Jin, Wei-qi; Dong, Li-quan; Wang, Xia

    2006-05-01

    Nonuniformity correction (NUC) is a critical task for achieving higher performances in modern infrared imaging systems. The striping fixed pattern noise produced by the scanning-type infrared imaging system can hardly be removed clearly by many scene-based non-uniformity correction methods, which can work effectively for staring focal plane arrays (FPA). We proposed an improved nonuniformity algorithm that corrects the aggregate nonuniformity by two steps for the infrared line scanners (IRLS). The novel contribution in our approach is the integration of local constant statistics (LCS) constraint and neural networks. First, the nonuniformity due to the readout electronics is corrected by treating every row of pixels as one channel and normalizing the channel outputs so that each channel produces pixels with the same mean and standard deviation as median value of the local channels statistics. Second, for IRLS every row is generated by pushbrooming one detector on line sensors, we presume each detector has one neuron with a weight and an offset as correction parameters, which can update column by column recursively at Least Mean Square sense. A one-dimensional median filter is used to produce ideal output of linear neural network and some optimization strategies are added to increase the robustness of learning process. Applications to both simulated and real infrared images demonstrated that this algorithm is self-adaptive and able to complete NUC by only one frames. If the nonuniformity is not so severe then only the first step can obtain a good correction result. Combination of two steps can achieve a higher correction level and remove stripe pattern noise clearly.

  19. Investigation of Nonuniform Dose Voxel Geometry in Monte Carlo Calculations.

    Science.gov (United States)

    Yuan, Jiankui; Chen, Quan; Brindle, James; Zheng, Yiran; Lo, Simon; Sohn, Jason; Wessels, Barry

    2015-08-01

    The purpose of this work is to investigate the efficacy of using multi-resolution nonuniform dose voxel geometry in Monte Carlo (MC) simulations. An in-house MC code based on the dose planning method MC code was developed in C++ to accommodate the nonuniform dose voxel geometry package since general purpose MC codes use their own coupled geometry packages. We devised the package in a manner that the entire calculation volume was first divided into a coarse mesh and then the coarse mesh was subdivided into nonuniform voxels with variable voxel sizes based on density difference. We name this approach as multi-resolution subdivision (MRS). It generates larger voxels in small density gradient regions and smaller voxels in large density gradient regions. To take into account the large dose gradients due to the beam penumbra, the nonuniform voxels can be further split using ray tracing starting from the beam edges. The accuracy of the implementation of the algorithm was verified by comparing with the data published by Rogers and Mohan. The discrepancy was found to be 1% to 2%, with a maximum of 3% at the interfaces. Two clinical cases were used to investigate the efficacy of nonuniform voxel geometry in the MC code. Applying our MRS approach, we started with the initial voxel size of 5 × 5 × 3 mm(3), which was further divided into smaller voxels. The smallest voxel size was 1.25 × 1.25 × 3 mm(3). We found that the simulation time per history for the nonuniform voxels is about 30% to 40% faster than the uniform fine voxels (1.25 × 1.25 × 3 mm(3)) while maintaining similar accuracy.

  20. Assessment indices for uniform and non-uniform thermal environments

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Different assessment indices for thermal environments were compared and selected for proper assessment of indoor thermal environments.30 subjects reported their overall thermal sensation,thermal comfort,and thermal acceptability in uniform and non-uniform conditions.The results show that these three assessment indices provide equivalent evaluations in uniform environments.However,overall thermal sensation differs from the other two indices and cannot be used as a proper index for the evaluation of non-uniform environments.The relationship between the percentage and the mean vote for each index is established.

  1. Transverse vibrations of arbitrary non-uniform beams

    Institute of Scientific and Technical Information of China (English)

    郭树起; 杨绍普

    2014-01-01

    Free and steady state forced transverse vibrations of non-uniform beams are investigated with a proposed method, leading to a series solution. The obtained series is verified to be convergent and linearly independent in a convergence test and by the non-zero value of the corresponding Wronski determinant, respectively. The obtained solution is rigorous, which can be reduced to a classical solution for uniform beams. The proposed method can deal with arbitrary non-uniform Euler-Bernoulli beams in principle, but the methods in terms of special functions or elementary functions can only work in some special cases.

  2. On two-dimensional magnetic reconnection with nonuniform resistivity

    Science.gov (United States)

    Malyshkin, Leonid M.; Kulsrud, Russell M.

    2010-12-01

    In this paper, two theoretical approaches for the calculation of the rate of quasi-stationary, two-dimensional magnetic reconnection with nonuniform anomalous resistivity are considered in the framework of incompressible magnetohydrodynamics (MHD). In the first, 'global' equations approach, the MHD equations are approximately solved for a whole reconnection layer, including the upstream and downstream regions and the layer center. In the second, 'local' equations approach, the equations are solved across the reconnection layer, including only the upstream region and the layer center. Both approaches give the same approximate answer for the reconnection rate. Our theoretical model is in agreement with the results of recent simulations of reconnection with spatially nonuniform resistivity.

  3. Longitudinal waves in one dimensional non-uniform waveguides

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Wave approach is used to analyze the longitudinal wave motion in one dimensional non-uniform waveguides.With assumptions of constant wave velocity and no wave conversion,there exist four types of non-uniform rods and corresponding traveling wave solutions are investigated.The obtained results indicate that the kinetic energy is preserved as a constant and the wave amplitude is inversely proportional to square root of the cross-sectional area of the rod.Under certain condition,there exists a cut-off frequ...

  4. FMIT alignment cart

    Energy Technology Data Exchange (ETDEWEB)

    Potter, R.C.; Dauelsberg, L.B.; Clark, D.C.; Grieggs, R.J.

    1981-01-01

    The Fusion Materials Irradiation Test (FMIT) Facility alignment cart must perform several functions. It must serve as a fixture to receive the drift-tube girder assembly when it is removed from the linac tank. It must transport the girder assembly from the linac vault to the area where alignment or disassembly is to take place. It must serve as a disassembly fixture to hold the girder while individual drift tubes are removed for repair. It must align the drift tube bores in a straight line parallel to the girder, using an optical system. These functions must be performed without violating any clearances found within the building. The bore tubes of the drift tubes will be irradiated, and shielding will be included in the system for easier maintenance.

  5. Strategic Alignment of Business Intelligence

    OpenAIRE

    Cederberg, Niclas

    2010-01-01

    This thesis is about the concept of strategic alignment of business intelligence. It is based on a theoretical foundation that is used to define and explain business intelligence, data warehousing and strategic alignment. By combining a number of different methods for strategic alignment a framework for alignment of business intelligence is suggested. This framework addresses all different aspects of business intelligence identified as relevant for strategic alignment of business intelligence...

  6. PILOT optical alignment

    Science.gov (United States)

    Longval, Y.; Mot, B.; Ade, P.; André, Y.; Aumont, J.; Baustista, L.; Bernard, J.-Ph.; Bray, N.; de Bernardis, P.; Boulade, O.; Bousquet, F.; Bouzit, M.; Buttice, V.; Caillat, A.; Charra, M.; Chaigneau, M.; Crane, B.; Crussaire, J.-P.; Douchin, F.; Doumayrou, E.; Dubois, J.-P.; Engel, C.; Etcheto, P.; Gélot, P.; Griffin, M.; Foenard, G.; Grabarnik, S.; Hargrave, P..; Hughes, A.; Laureijs, R.; Lepennec, Y.; Leriche, B.; Maestre, S.; Maffei, B.; Martignac, J.; Marty, C.; Marty, W.; Masi, S.; Mirc, F.; Misawa, R.; Montel, J.; Montier, L.; Narbonne, J.; Nicot, J.-M.; Pajot, F.; Parot, G.; Pérot, E.; Pimentao, J.; Pisano, G.; Ponthieu, N.; Ristorcelli, I.; Rodriguez, L.; Roudil, G.; Salatino, M.; Savini, G.; Simonella, O.; Saccoccio, M.; Tapie, P.; Tauber, J.; Torre, J.-P.; Tucker, C.

    2016-07-01

    PILOT is a balloon-borne astronomy experiment designed to study the polarization of dust emission in the diffuse interstellar medium in our Galaxy at wavelengths 240 μm with an angular resolution about two arcminutes. Pilot optics is composed an off-axis Gregorian type telescope and a refractive re-imager system. All optical elements, except the primary mirror, are in a cryostat cooled to 3K. We combined the optical, 3D dimensional measurement methods and thermo-elastic modeling to perform the optical alignment. The talk describes the system analysis, the alignment procedure, and finally the performances obtained during the first flight in September 2015.

  7. Group Based Interference Alignment

    CERN Document Server

    Ma, Yanjun; Chen, Rui; Yao, Junliang

    2010-01-01

    in $K$-user single-input single-output (SISO) frequency selective fading interference channels, it is shown that the achievable multiplexing gain is almost surely $K/2$ by using interference alignment (IA). However when the signaling dimensions is limited, allocating all the resource to all the users simultaneously is not optimal. According to this problem, a group based interference alignment (GIA) scheme is proposed and a search algorithm is designed to get the group patterns and the resource allocation among them. Analysis results show that our proposed scheme achieves a higher multiplexing gain when the resource is limited.

  8. Orientation and Alignment Echoes

    CERN Document Server

    Karras, G; Billard, F; Lavorel, B; Hartmann, J -M; Faucher, O; Gershnabel, E; Prior, Y; Averbukh, I Sh

    2015-01-01

    We present what is probably the simplest classical system featuring the echo phenomenon - a collection of randomly oriented free rotors with dispersed rotational velocities. Following excitation by a pair of time-delayed impulsive kicks, the mean orientation/alignment of the ensemble exhibits multiple echoes and fractional echoes. We elucidate the mechanism of the echo formation by kick-induced filamentation of phase space, and provide the first experimental demonstration of classical alignment echoes in a thermal gas of CO_2 molecules excited by a pair of femtosecond laser pulses.

  9. DNA replication origins in archaea

    OpenAIRE

    Zhenfang eWu; Jingfang eLiu; Haibo eYang; Hua eXiang

    2014-01-01

    DNA replication initiation, which starts at specific chromosomal site (known as replication origins), is the key regulatory stage of chromosome replication. Archaea, the third domain of life, use a single or multiple origin(s) to initiate replication of their circular chromosomes. The basic structure of replication origins is conserved among archaea, typically including an AT-rich unwinding region flanked by several conserved repeats (origin recognition box, ORB) that are located adjacent to ...

  10. Replication studies in longevity

    DEFF Research Database (Denmark)

    Varcasia, O; Garasto, S; Rizza, T

    2001-01-01

    In Danes we replicated the 3'APOB-VNTR gene/longevity association study previously carried out in Italians, by which the Small alleles (less than 35 repeats) had been identified as frailty alleles for longevity. In Danes, neither genotype nor allele frequencies differed between centenarians and 20...

  11. Replication-Fork Dynamics

    NARCIS (Netherlands)

    Duderstadt, Karl E.; Reyes-Lamothe, Rodrigo; van Oijen, Antoine M.; Sherratt, David J.

    2014-01-01

    The proliferation of all organisms depends on the coordination of enzymatic events within large multiprotein replisomes that duplicate chromosomes. Whereas the structure and function of many core replisome components have been clarified, the timing and order of molecular events during replication re

  12. Coronavirus Attachment and Replication

    Science.gov (United States)

    1988-03-28

    synthesis during RNA replication of vesicular stomatitis virus. J. Virol. 49:303-309. Pedersen, N.C. 1976a. Feline infectious peritonitis: Something old...receptors on intestinal brush border membranes from normal host species were developed for canine (CCV), feline (FIPV), porcine (TGEV), human (HCV...gastroenteritis receptor on pig BBMs ...... ................. ... 114 Feline infectious peritonitis virus receptor on cat BBMs ... .............. 117 Human

  13. Simulation of beamline alignment operations

    Energy Technology Data Exchange (ETDEWEB)

    Annese, C; Miller, M G

    1999-02-02

    The CORBA-based Simulator was a Laboratory Directed Research and Development (LDRD) project that applied simulation techniques to explore critical questions about distributed control systems. The simulator project used a three-prong approach that studied object-oriented distribution tools, computer network modeling, and simulation of key control system scenarios. The National Ignition Facility's (NIF) optical alignment system was modeled to study control system operations. The alignment of NIF's 192 beamlines is a large complex operation involving more than 100 computer systems and 8000 mechanized devices. The alignment process is defined by a detailed set of procedures; however, many of the steps are deterministic. The alignment steps for a poorly aligned component are similar to that of a nearly aligned component; however, additional operations/iterations are required to complete the process. Thus, the same alignment operations will require variable amounts of time to perform depending on the current alignment condition as well as other factors. Simulation of the alignment process is necessary to understand beamline alignment time requirements and how shared resources such as the Output Sensor and Target Alignment Sensor effect alignment efficiency. The simulation has provided alignment time estimates and other results based on documented alignment procedures and alignment experience gained in the laboratory. Computer communication time, mechanical hardware actuation times, image processing algorithm execution times, etc. have been experimentally determined and incorporated into the model. Previous analysis of alignment operations utilized average implementation times for all alignment operations. Resource sharing becomes rather simple to model when only average values are used. The time required to actually implement the many individual alignment operations will be quite dynamic. The simulation model estimates the time to complete an operation using

  14. Aligning Responsible Business Practices

    DEFF Research Database (Denmark)

    Weller, Angeli E.

    2017-01-01

    This article offers an in-depth case study of a global high tech manufacturer that aligned its ethics and compliance, corporate social responsibility, and sustainability practices. Few large companies organize their responsible business practices this way, despite conceptual relevance and calls...... and managers interested in understanding how responsible business practices may be collectively organized....

  15. MUON DETECTORS: ALIGNMENT

    CERN Multimedia

    G. Gomez and Y. Pakhotin

    2012-01-01

      A new track-based alignment for the DT chambers is ready for deployment: an offline tag has already been produced which will become part of the 52X Global Tag. This alignment was validated within the muon alignment group both at low and high momentum using a W/Z skim sample. It shows an improved mass resolution for pairs of stand-alone muons, improved curvature resolution at high momentum, and improved DT segment extrapolation residuals. The validation workflow for high-momentum muons used to depend solely on the “split cosmics” method, looking at the curvature difference between muon tracks reconstructed in the upper or lower half of CMS. The validation has now been extended to include energetic muons decaying from heavily boosted Zs: the di-muon invariant mass for global and stand-alone muons is reconstructed, and the invariant mass resolution is compared for different alignments. The main areas of development over the next few months will be preparing a new track-based C...

  16. Aligning Theory with Practice

    Science.gov (United States)

    Kurz, Terri L.; Batarelo, Ivana

    2009-01-01

    This article describes a structure to help preservice teachers get invaluable field experience by aligning theory with practice supported by the integration of elementary school children into their university mathematics methodology course. This course structure allowed preservice teachers to learn about teaching mathematics in a nonthreatening…

  17. Alignment of concerns

    DEFF Research Database (Denmark)

    Andersen, Tariq Osman; Bansler, Jørgen P.; Kensing, Finn;

    2014-01-01

    The emergence of patient-centered eHealth systems introduces new challenges, where patients come to play an increasingly important role. Realizing the promises requires an in-depth understanding of not only the technology, but also the needs of both clinicians and patients. However, insights from...... as a design rationale for successful eHealth, termed 'alignment of concerns'....

  18. Aligning Mental Representations

    DEFF Research Database (Denmark)

    Kano Glückstad, Fumiko

    2013-01-01

    on the application of the BMG to publicly available datasets, the Leuven natural concept database [3] representing semantic structures of domain knowledge possessed by individual subjects [3]. Results indicate that the BMG is potentially a model applicable to simulating the alignment of domain knowledge from...

  19. Josephson flux-flow oscillators in nonuniform microwave fields

    DEFF Research Database (Denmark)

    Salerno, Mario; Samuelsen, Mogens Rugholm

    2000-01-01

    We present a simple theory for Josephson flux-flow oscillators in the presence of nonuniform microwave fields. In particular we derive an analytical expression for the I-V characteristic of the oscillator from which we show that satellite steps are spaced around the main flux-flow resonance by only...

  20. Nonuniformity compensation for IR focal plane array sensors

    Science.gov (United States)

    Venkateswarlu, Ronda; Er, Meng H.; Gan, Yu H.; Fong, Yew C.

    1997-08-01

    Recent reports indicate that cooled and uncooled IR focal plane array sensors are progressing to a field-worthy level for commercial and defense applications. They offer higher sensitivity, amenability to signal processing and mechanical simplicity. However these sensors contain large detector-to- detector dark current (offset) and responsivity (gain) variations. These variations result in a severe problem called fixed pattern noise that can mask/distort the image obtained from the sensor. The correction process is generally termed as nonuniformity compensation. Conventional two-point compensation techniques are accurate enough, but require built-in controllable temperature references along with mechanical and electro-optical shutters. Therefore this compensation technique detracts the mechanical simplicity of using IR focal plane arrays. Scene-based nonuniformity techniques dispenses with the requirement of temperature references and shutters, but are not accurate enough for certain applications. This paper discusses two-point and scene-based nonuniformity compensation algorithms and proposes an empirical formula to automatically calculate the scene constants, which is an essential step towards practical applications. This paper reports the analyzed results of testing the algorithms on a number of IR images. A practical problem of 'artifacts' which arise when using scene-based nonuniformity compensation is also discussed. A common hardware scheme to implement both the algorithms is also presented in this paper.

  1. Non-uniform Euler-Bernoulli beams’ natural frequencies

    Directory of Open Access Journals (Sweden)

    Hugo Aya

    2011-05-01

    Full Text Available This paper has studied the problem of natural frequencies for Euler-Bernoulli beams having non-uniform cross-section. The numerically-obtained solutions were compared to asymptotic solutions obtained by the Wentzel-Kramers-Brillouin (WKB method. It was established that WKB formula precision was higher than 3% for high frequencies (≥ 4 mode.

  2. Experimental data on Stone Stability under non-uniform flow

    NARCIS (Netherlands)

    Hoan, N.T.

    2007-01-01

    Previous research (e.g., Jongeling et al 2003; Hofland 2005) has shown that turbulence has an important influence on stone stability and in non-uniform flow it should be modeled explicitly. The dimensionless entrainment rate should be used to describe the bed response because of its complete

  3. Constructal design for a rectangular body with nonuniform heat generation

    Science.gov (United States)

    Feng, Huijun; Chen, Lingen; Xie, Zhihui; Sun, Fengrui

    2016-08-01

    Nonuniform heat generation models with constant and variable cross-section high-conductivity channels (HCCs) are built in this paper. The minimum dimensionless peak temperature (DPT) is taken as the optimization objective. Different from the models with uniform heat generation and constant cross-section HCCs built by Bejan (1997) and Ledezma et al. (1997), the model with nonuniform heat generation and variable cross-section HCC is more practical and can help to improve the heat conduction performance of a thermal system. The results show that for the rectangular first-order assembly (RFOA) with nonuniform heat generation, there exist both the optimal shape of the RFOA and the optimal HCCs width ratio, which lead to the minimum DPT. They are different from those with uniform heat generation. When the heat is nonuniformly generated in the RFOA, the minimum DPT of the RFOA with variable cross-section HCC is reduced by 12.11% compared with that with constant cross-section HCC. Moreover, the numerical results are also verified by the analytical method.

  4. Nonuniform sampling and maximum entropy reconstruction in multidimensional NMR.

    Science.gov (United States)

    Hoch, Jeffrey C; Maciejewski, Mark W; Mobli, Mehdi; Schuyler, Adam D; Stern, Alan S

    2014-02-18

    NMR spectroscopy is one of the most powerful and versatile analytic tools available to chemists. The discrete Fourier transform (DFT) played a seminal role in the development of modern NMR, including the multidimensional methods that are essential for characterizing complex biomolecules. However, it suffers from well-known limitations: chiefly the difficulty in obtaining high-resolution spectral estimates from short data records. Because the time required to perform an experiment is proportional to the number of data samples, this problem imposes a sampling burden for multidimensional NMR experiments. At high magnetic field, where spectral dispersion is greatest, the problem becomes particularly acute. Consequently multidimensional NMR experiments that rely on the DFT must either sacrifice resolution in order to be completed in reasonable time or use inordinate amounts of time to achieve the potential resolution afforded by high-field magnets. Maximum entropy (MaxEnt) reconstruction is a non-Fourier method of spectrum analysis that can provide high-resolution spectral estimates from short data records. It can also be used with nonuniformly sampled data sets. Since resolution is substantially determined by the largest evolution time sampled, nonuniform sampling enables high resolution while avoiding the need to uniformly sample at large numbers of evolution times. The Nyquist sampling theorem does not apply to nonuniformly sampled data, and artifacts that occur with the use of nonuniform sampling can be viewed as frequency-aliased signals. Strategies for suppressing nonuniform sampling artifacts include the careful design of the sampling scheme and special methods for computing the spectrum. Researchers now routinely report that they can complete an N-dimensional NMR experiment 3(N-1) times faster (a 3D experiment in one ninth of the time). As a result, high-resolution three- and four-dimensional experiments that were prohibitively time consuming are now practical

  5. Reversible Switching of Cooperating Replicators

    Science.gov (United States)

    Urtel, Georg C.; Rind, Thomas; Braun, Dieter

    2017-02-01

    How can molecules with short lifetimes preserve their information over millions of years? For evolution to occur, information-carrying molecules have to replicate before they degrade. Our experiments reveal a robust, reversible cooperation mechanism in oligonucleotide replication. Two inherently slow replicating hairpin molecules can transfer their information to fast crossbreed replicators that outgrow the hairpins. The reverse is also possible. When one replication initiation site is missing, single hairpins reemerge from the crossbreed. With this mechanism, interacting replicators can switch between the hairpin and crossbreed mode, revealing a flexible adaptation to different boundary conditions.

  6. ABS: Sequence alignment by scanning

    KAUST Repository

    Bonny, Mohamed Talal

    2011-08-01

    Sequence alignment is an essential tool in almost any computational biology research. It processes large database sequences and considered to be high consumers of computation time. Heuristic algorithms are used to get approximate but fast results. We introduce fast alignment algorithm, called Alignment By Scanning (ABS), to provide an approximate alignment of two DNA sequences. We compare our algorithm with the well-known alignment algorithms, the FASTA (which is heuristic) and the \\'Needleman-Wunsch\\' (which is optimal). The proposed algorithm achieves up to 76% enhancement in alignment score when it is compared with the FASTA Algorithm. The evaluations are conducted using different lengths of DNA sequences. © 2011 IEEE.

  7. Fast global sequence alignment technique

    KAUST Repository

    Bonny, Mohamed Talal

    2011-11-01

    Bioinformatics database is growing exponentially in size. Processing these large amount of data may take hours of time even if super computers are used. One of the most important processing tool in Bioinformatics is sequence alignment. We introduce fast alignment algorithm, called \\'Alignment By Scanning\\' (ABS), to provide an approximate alignment of two DNA sequences. We compare our algorithm with the wellknown sequence alignment algorithms, the \\'GAP\\' (which is heuristic) and the \\'Needleman-Wunsch\\' (which is optimal). The proposed algorithm achieves up to 51% enhancement in alignment score when it is compared with the GAP Algorithm. The evaluations are conducted using different lengths of DNA sequences. © 2011 IEEE.

  8. Spontaneous formation of non-uniform double helices for elastic rods under torsion

    Energy Technology Data Exchange (ETDEWEB)

    Li, Hongyuan [Department of Applied Physics, School of Science, Xi' an Jiaotong University, Shaanxi 710049 (China); Zhao, Shumin, E-mail: zhaosm@mail.xjtu.edu.cn [Department of Applied Physics, School of Science, Xi' an Jiaotong University, Shaanxi 710049 (China); Xia, Minggang [Department of Optical Information Science and Technology, School of Science, Xi' an Jiaotong University, 710049 (China); Laboratory of Nanostructure and Physics Properties, School of Science, Xi' an Jiaotong University, 710049 (China); He, Siyu [Department of Applied Physics, School of Science, Xi' an Jiaotong University, Shaanxi 710049 (China); Yang, Qifan [Department of Biomedical Engineering, School of Life Science and Technology, Xi' an Jiaotong University, Shaanxi 710049 (China); Yan, Yuming [Department of Electrical Engineering and Automation, School of Electrical Engineering, Xi' an Jiaotong University, Shaanxi 710049 (China); Zhao, Hanqiao [Department of Biomedical Engineering, School of Life Science and Technology, Xi' an Jiaotong University, Shaanxi 710049 (China)

    2017-02-19

    The spontaneous formation of double helices for filaments under torsion is common and significant. For example, the research on the supercoiling of DNA is helpful for understanding the replication and transcription of DNA. Similar double helices can appear in carbon nanotube yarns, cables, telephone wires and so forth. We noticed that non-uniform double helices can be produced due to the surface friction induced by the self-contact. Therefore an ideal model was presented to investigate the formation of double helices for elastic rods under torque. A general equilibrium condition which is valid for both the smooth surface and the rough surface situations is derived by using the variational method. By adding further constraints, the smooth and rough surface situations are investigated in detail respectively. Additionally, the model showed that the specific process of how to twist and slack the rod can determine the surface friction and hence influence the configuration of the double helix formed by rods with rough surfaces. Based on this principle, a method of manufacturing double helices with designed configurations was proposed and demonstrated. Finally, experiments were performed to verify the model and the results agreed well with the theory. - Highlights: • An ideal model is conceived to investigate the spontaneous formation of double helices for rods under torsion. • Variational method is used to obtain a universal result for the double helix formation process • Self-contact and surface friction is considered to analyze the non-uniform double helix. • A novel method of producing double helix with arbitrary configuration is proposed and demonstrated. • The experiment results agree well with the theory.

  9. Automatic array alignment in data-parallel programs

    Science.gov (United States)

    Chatterjee, Siddhartha; Gilbert, John R.; Schreiber, Robert; Teng, Shang-Hua

    1993-01-01

    FORTRAN 90 and other data-parallel languages express parallelism in the form of operations on data aggregates such as arrays. Misalignment of the operands of an array operation can reduce program performance on a distributed-memory parallel machine by requiring nonlocal data accesses. Determining array alignments that reduce communication is therefore a key issue in compiling such languages. We present a framework for the automatic determination of array alignments in array-based, data-parallel languages. Our language model handles array sectioning, reductions, spreads, transpositions, and masked operations. We decompose alignment functions into three constituents: axis, stride, and offset. For each of these subproblems, we show how to solve the alignment problem for a basic block of code, possibly containing common subexpressions. Alignments are generated for all array objects in the code, both named program variables and intermediate results. We assign computation to processors by virtue of explicit alignment of all temporaries; the resulting work assignment is in general better than that provided by the 'owner-computes' rule. Finally, we present some ideas for dealing with control flow, replication, and dynamic alignments that depend on loop induction variables.

  10. Formatt: Correcting protein multiple structural alignments by incorporating sequence alignment

    Directory of Open Access Journals (Sweden)

    Daniels Noah M

    2012-10-01

    Full Text Available Abstract Background The quality of multiple protein structure alignments are usually computed and assessed based on geometric functions of the coordinates of the backbone atoms from the protein chains. These purely geometric methods do not utilize directly protein sequence similarity, and in fact, determining the proper way to incorporate sequence similarity measures into the construction and assessment of protein multiple structure alignments has proved surprisingly difficult. Results We present Formatt, a multiple structure alignment based on the Matt purely geometric multiple structure alignment program, that also takes into account sequence similarity when constructing alignments. We show that Formatt outperforms Matt and other popular structure alignment programs on the popular HOMSTRAD benchmark. For the SABMark twilight zone benchmark set that captures more remote homology, Formatt and Matt outperform other programs; depending on choice of embedded sequence aligner, Formatt produces either better sequence and structural alignments with a smaller core size than Matt, or similarly sized alignments with better sequence similarity, for a small cost in average RMSD. Conclusions Considering sequence information as well as purely geometric information seems to improve quality of multiple structure alignments, though defining what constitutes the best alignment when sequence and structural measures would suggest different alignments remains a difficult open question.

  11. A Joint Criterion for Reachability and Observability of Nonuniformly Sampled Discrete Systems

    CERN Document Server

    Fúster-Sabater, Amparo

    2010-01-01

    A joint characterization of reachability (controllability) and observability (constructibility) for linear SISO nonuniformly sampled discrete systems is presented. The work generalizes to the nonuniform sampling the criterion known for the uniform sampling. Emphasis is on the nonuniform sampling sequence, which is believed to be an additional element for analysis and handling of discrete systems.

  12. Inflation by alignment

    Energy Technology Data Exchange (ETDEWEB)

    Burgess, C.P. [PH -TH Division, CERN,CH-1211, Genève 23 (Switzerland); Department of Physics & Astronomy, McMaster University,1280 Main Street West, Hamilton ON (Canada); Perimeter Institute for Theoretical Physics,31 Caroline Street North, Waterloo ON (Canada); Roest, Diederik [Van Swinderen Institute for Particle Physics and Gravity, University of Groningen,Nijenborgh 4, 9747 AG Groningen (Netherlands)

    2015-06-08

    Pseudo-Goldstone bosons (pGBs) can provide technically natural inflatons, as has been comparatively well-explored in the simplest axion examples. Although inflationary success requires trans-Planckian decay constants, f≳M{sub p}, several mechanisms have been proposed to obtain this, relying on (mis-)alignments between potential and kinetic energies in multiple-field models. We extend these mechanisms to a broader class of inflationary models, including in particular the exponential potentials that arise for pGB potentials based on noncompact groups (and so which might apply to moduli in an extra-dimensional setting). The resulting potentials provide natural large-field inflationary models and can predict a larger primordial tensor signal than is true for simpler single-field versions of these models. In so doing we provide a unified treatment of several alignment mechanisms, showing how each emerges as a limit of the more general setup.

  13. Aligning component upgrades

    Directory of Open Access Journals (Sweden)

    Roberto Di Cosmo

    2011-08-01

    Full Text Available Modern software systems, like GNU/Linux distributions or Eclipse-based development environment, are often deployed by selecting components out of large component repositories. Maintaining such software systems by performing component upgrades is a complex task, and the users need to have an expressive preferences language at their disposal to specify the kind of upgrades they are interested in. Recent research has shown that it is possible to develop solvers that handle preferences expressed as a combination of a few basic criteria used in the MISC competition, ranging from the number of new components to the freshness of the final configuration. In this work we introduce a set of new criteria that allow the users to specify their preferences for solutions with components aligned to the same upstream sources, provide an efficient encoding and report on the experimental results that prove that optimising these alignment criteria is a tractable problem in practice.

  14. Inflation by Alignment

    CERN Document Server

    Burgess, Cliff

    2015-01-01

    Pseudo-Goldstone bosons (pGBs) can provide technically natural inflatons, as has been comparatively well-explored in the simplest axion examples. Although inflationary success requires trans-Planckian decay constants, f > Mp, several mechanisms have been proposed to obtain this, relying on (mis-)alignments between potential and kinetic energies in multiple-field models. We extend these mechanisms to a broader class of inflationary models, including in particular the exponential potentials that arise for pGB potentials based on noncompact groups (and so which might apply to moduli in an extra-dimensional setting). The resulting potentials provide natural large-field inflationary models and can predict a larger primordial tensor signal than is true for simpler single-field versions of these models. In so doing we provide a unified treatment of several alignment mechanisms, showing how each emerges as a limit of the more general setup.

  15. Aligning component upgrades

    CERN Document Server

    Di Cosmo, Roberto; Michel, Claude; 10.4204/EPTCS.65.1

    2011-01-01

    Modern software systems, like GNU/Linux distributions or Eclipse-based development environment, are often deployed by selecting components out of large component repositories. Maintaining such software systems by performing component upgrades is a complex task, and the users need to have an expressive preferences language at their disposal to specify the kind of upgrades they are interested in. Recent research has shown that it is possible to develop solvers that handle preferences expressed as a combination of a few basic criteria used in the MISC competition, ranging from the number of new components to the freshness of the final configuration. In this work we introduce a set of new criteria that allow the users to specify their preferences for solutions with components aligned to the same upstream sources, provide an efficient encoding and report on the experimental results that prove that optimising these alignment criteria is a tractable problem in practice.

  16. Chromatin replication and epigenome maintenance

    DEFF Research Database (Denmark)

    Alabert, Constance; Groth, Anja

    2012-01-01

    initiates, whereas the replication process itself disrupts chromatin and challenges established patterns of genome regulation. Specialized replication-coupled mechanisms assemble new DNA into chromatin, but epigenome maintenance is a continuous process taking place throughout the cell cycle. If DNA...

  17. Chromatin replication and epigenome maintenance

    DEFF Research Database (Denmark)

    Alabert, Constance; Groth, Anja

    2012-01-01

    initiates, whereas the replication process itself disrupts chromatin and challenges established patterns of genome regulation. Specialized replication-coupled mechanisms assemble new DNA into chromatin, but epigenome maintenance is a continuous process taking place throughout the cell cycle. If DNA...

  18. Alignment of concerns

    DEFF Research Database (Denmark)

    Andersen, Tariq Osman; Bansler, Jørgen P.; Kensing, Finn

    E-health promises to enable and support active patient participation in chronic care. However, these fairly recent innovations are complicated matters and emphasize significant challenges, such as patients’ and clinicians’ different ways of conceptualizing disease and illness. Informed by insight...... from medical phenomenology and our own empirical work in telemonitoring and medical care of heart patients, we propose a design rationale for e-health systems conceptualized as the ‘alignment of concerns’....

  19. Orbit IMU alignment: Error analysis

    Science.gov (United States)

    Corson, R. W.

    1980-01-01

    A comprehensive accuracy analysis of orbit inertial measurement unit (IMU) alignments using the shuttle star trackers was completed and the results are presented. Monte Carlo techniques were used in a computer simulation of the IMU alignment hardware and software systems to: (1) determine the expected Space Transportation System 1 Flight (STS-1) manual mode IMU alignment accuracy; (2) investigate the accuracy of alignments in later shuttle flights when the automatic mode of star acquisition may be used; and (3) verify that an analytical model previously used for estimating the alignment error is a valid model. The analysis results do not differ significantly from expectations. The standard deviation in the IMU alignment error for STS-1 alignments was determined to the 68 arc seconds per axis. This corresponds to a 99.7% probability that the magnitude of the total alignment error is less than 258 arc seconds.

  20. Nuclear reactor alignment plate configuration

    Energy Technology Data Exchange (ETDEWEB)

    Altman, David A; Forsyth, David R; Smith, Richard E; Singleton, Norman R

    2014-01-28

    An alignment plate that is attached to a core barrel of a pressurized water reactor and fits within slots within a top plate of a lower core shroud and upper core plate to maintain lateral alignment of the reactor internals. The alignment plate is connected to the core barrel through two vertically-spaced dowel pins that extend from the outside surface of the core barrel through a reinforcement pad and into corresponding holes in the alignment plate. Additionally, threaded fasteners are inserted around the perimeter of the reinforcement pad and into the alignment plate to further secure the alignment plate to the core barrel. A fillet weld also is deposited around the perimeter of the reinforcement pad. To accomodate thermal growth between the alignment plate and the core barrel, a gap is left above, below and at both sides of one of the dowel pins in the alignment plate holes through with the dowel pins pass.

  1. Seeking the perfect alignment

    CERN Multimedia

    2002-01-01

    The first full-scale tests of the ATLAS Muon Spectrometer are about to begin in Prévessin. The set-up includes several layers of Monitored Drift Tubes Chambers (MDTs) and will allow tests of the performance of the detectors and of their highly accurate alignment system.   Monitored Drift Chambers in Building 887 in Prévessin, where they are just about to be tested. Muon chambers are keeping the ATLAS Muon Spectrometer team quite busy this summer. Now that most people go on holiday, the beam and alignment tests for these chambers are just starting. These chambers will measure with high accuracy the momentum of high-energy muons, and this implies very demanding requirements for their alignment. The MDT chambers consist of drift tubes, which are gas-filled metal tubes, 3 cm in diameter, with wires running down their axes. With high voltage between the wire and the tube wall, the ionisation due to traversing muons is detected as electrical pulses. With careful timing of the pulses, the position of the muon t...

  2. Initiation of adenovirus DNA replication.

    OpenAIRE

    Reiter, T; Fütterer, J; Weingärtner, B; Winnacker, E L

    1980-01-01

    In an attempt to study the mechanism of initiation of adenovirus DNA replication, an assay was developed to investigate the pattern of DNA synthesis in early replicative intermediates of adenovirus DNA. By using wild-type virus-infected cells, it was possible to place the origin of adenovirus type 2 DNA replication within the terminal 350 to 500 base pairs from either of the two molecular termini. In addition, a variety of parameters characteristic of adenovirus DNA replication were compared ...

  3. Chromatin replication and epigenome maintenance

    DEFF Research Database (Denmark)

    Alabert, Constance; Groth, Anja

    2012-01-01

    Stability and function of eukaryotic genomes are closely linked to chromatin structure and organization. During cell division the entire genome must be accurately replicated and the chromatin landscape reproduced on new DNA. Chromatin and nuclear structure influence where and when DNA replication...... initiates, whereas the replication process itself disrupts chromatin and challenges established patterns of genome regulation. Specialized replication-coupled mechanisms assemble new DNA into chromatin, but epigenome maintenance is a continuous process taking place throughout the cell cycle. If DNA...

  4. RECAT - Redundant Channel Alignment Technique

    Science.gov (United States)

    2016-06-07

    distribution unlimited 13. SUPPLEMENTARY NOTES NUWC2015 14. ABSTRACT A problem in the analog-to- digital , (A/D), conversion of broadband tape recorded...Alignment Technique, is used to align data taken on one pass with data from any other pass. The accuracy of this alignment is a function of the digital ...Redundant Channel Alignment Technique; analog-to- digital ; A/D; Broadband Bearing Time Processing 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF

  5. Replication Research and Special Education

    Science.gov (United States)

    Travers, Jason C.; Cook, Bryan G.; Therrien, William J.; Coyne, Michael D.

    2016-01-01

    Replicating previously reported empirical research is a necessary aspect of an evidence-based field of special education, but little formal investigation into the prevalence of replication research in the special education research literature has been conducted. Various factors may explain the lack of attention to replication of special education…

  6. Replication Research and Special Education

    Science.gov (United States)

    Travers, Jason C.; Cook, Bryan G.; Therrien, William J.; Coyne, Michael D.

    2016-01-01

    Replicating previously reported empirical research is a necessary aspect of an evidence-based field of special education, but little formal investigation into the prevalence of replication research in the special education research literature has been conducted. Various factors may explain the lack of attention to replication of special education…

  7. Method for alignment of microwires

    Energy Technology Data Exchange (ETDEWEB)

    Beardslee, Joseph A.; Lewis, Nathan S.; Sadtler, Bryce

    2017-01-24

    A method of aligning microwires includes modifying the microwires so they are more responsive to a magnetic field. The method also includes using a magnetic field so as to magnetically align the microwires. The method can further include capturing the microwires in a solid support structure that retains the longitudinal alignment of the microwires when the magnetic field is not applied to the microwires.

  8. Replication data collection highlights value in diversity of replication attempts

    Science.gov (United States)

    DeSoto, K. Andrew; Schweinsberg, Martin

    2017-01-01

    Researchers agree that replicability and reproducibility are key aspects of science. A collection of Data Descriptors published in Scientific Data presents data obtained in the process of attempting to replicate previously published research. These new replication data describe published and unpublished projects. The different papers in this collection highlight the many ways that scientific replications can be conducted, and they reveal the benefits and challenges of crucial replication research. The organizers of this collection encourage scientists to reuse the data contained in the collection for their own work, and also believe that these replication examples can serve as educational resources for students, early-career researchers, and experienced scientists alike who are interested in learning more about the process of replication. PMID:28291224

  9. Combined Approach for Nonuniformity Correction in Infrared Focal Plane Array

    Institute of Scientific and Technical Information of China (English)

    XUE Hui

    2009-01-01

    A new algorithm of nonuniformity correction for infrared focal plane array(IRFPA) is reported,which is a combined algorithm based on both the two-point correction and artificial neural networks correction.The combined algorithm is calibrated by two-point correction,and the calibrated correction coefficients are automatically modified by BP algorithm.So it is not only calibrated,but also real-time processed.In adaptive nonuniformity correction algorithm,the phenomena ghost artifact and target fade-out are avoided by edge extraction.In order to get intensified image,the modified median filters are adopted.The simulated data indicates the proposed scheme is an effective algorithm.

  10. Non-Uniform Heat Transfer in Thermal Regenerators

    DEFF Research Database (Denmark)

    Jensen, Jesper Buch

    This thesis presents investigations on the heat transfer in complex heat ex- changers in general and in regenerative heat exchangers (regenerators) in par- ticular. The motivation for this work is a result of inconsistencies obeserved in the results from a series of experiments on active magnetic...... regenerators (AMRs) with parallel plates. The results suggest that random variations in the regenerator geometries causes maldistributed fluid flow inside the regener- ators, which affects the regenerator performance. In order to study the heat transfer processes in regenerators with non-uniform geometries......, a numerical model, which simulates a single-blow operation in a parallel-plate regenerator, was developed and used to model the heat transfer under various conditions. In addition to the modeling of the heat transfer, a series of experiments on passive regenerators with non-uniform, but precisely controlled...

  11. TRANSIENT ANALYSIS OF NONUNIFORM TRANSMISSION LINES WITH NONLINEAR TERMINAL NETWORKS

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    A semi-analytical method in time domain is presented for analysis of the transient response of nonuniform transmission lines. In this method, the telegraph equations in time domain is differenced in space domain first, and is transformed into a set of first-order differential equations of voltage and current with respect to time. By integrating these differential equations with respect to time, and precise computation, the solution of these differential equations can be obtained. This method can solve the transient response of various kinds of transmission lines with arbitrary terminal networks. Particularly, it can analyze the nonuniform lines with initial conditions, for which there is no existing effective method to analyze the time response so far. The results obtained with this method are stable and accurate. Two examples are given to illustrate the application of this method.

  12. Computation of nonuniform transmission lines using the FDTD method

    Energy Technology Data Exchange (ETDEWEB)

    Miranda, G.C.; Paulino, J.O.S. [Universidade Federal de Minas Gerais, Belo Horizonte, MG (Brazil). School of Engineering

    1997-12-31

    Calculation of lightning overvoltages on transmission lines has been described. Lightning induced overvoltages are of great significance under certain conditions because of the main characteristics of the phenomena. The lightning channel model is one of the most important parameters essential to obtaining the generated electromagnetic fields. In this study, nonuniform transmission line equations were solved using the finite difference method and the leap-frog scheme, the Finite Difference Time Domain (FDTD) method. The subroutine was interfaced with the Electromagnetic Transients Program (EMTP). Two models were used to represent the characteristic impedance of the nonuniform lines used to model the transmission line towers and the lightning main channel. The advantages of the FDTD method was the much smaller code and faster processing time. 35 refs., 5 figs.

  13. X-ray Flashes from Off-axis Nonuniform Jets

    Institute of Scientific and Technical Information of China (English)

    Zhi-Ping Jin; Da-Ming Wei

    2004-01-01

    It has been widely believed that the outflows in gamma-ray bursts are jetted and some jets may have structures like ∈(θ) ∝θ-κ. We check the possibility that X-ray flashes come from such jets. Both qualitative and quantitative analyses have shown that this model can reproduce most of the observational features of both X-ray flashes and gamma-ray bursts. Using the usual parameters of gamma-ray bursts, we have carried out numerical calculations for both uniform and nonuniform jets, of their fluxes, spectra and peak energies. It seems that nonuniform jets are more appropriate to these observational properties than uniform jets. We have also shown that in our model the observational ratio of gamma-ray bursts to X-ray flashes is about a few units.

  14. Capacitated Vehicle Routing with Non-Uniform Speeds

    CERN Document Server

    Gortz, Inge Li; Nagarajan, Viswanath; Ravi, R

    2010-01-01

    The capacitated vehicle routing problem (CVRP) involves distributing (identical) items from a depot to a set of demand locations, using a single capacitated vehicle. We study a generalization of this problem to the setting of multiple vehicles having non-uniform speeds (that we call Heterogenous CVRP), and present a constant-factor approximation algorithm. The technical heart of our result lies in achieving a constant approximation to the following TSP variant (called Heterogenous TSP). Given a metric denoting distances between vertices, a depot r containing k vehicles with possibly different speeds, the goal is to find a tour for each vehicle (starting and ending at r), so that every vertex is covered in some tour and the maximum completion time is minimized. This problem is precisely Heterogenous CVRP when vehicles are uncapacitated. The presence of non-uniform speeds introduces difficulties for employing standard tour-splitting techniques. In order to get a better understanding of this technique in our con...

  15. Modified Richardson Number in Non-Uniform Saturated Moist Flow

    Institute of Scientific and Technical Information of China (English)

    YANG Shuai; GAO Shou-Ting

    2006-01-01

    @@ As a useful index, I.e. The Richardson number Ri, is modified in non-uniform saturated moist flow, based on the fact that liquid water is partially dropped out in parcel air. This is more realistic in real moist atmosphere,especially in the rainfall process. The modified Ri presents adequately the influence of numerator, I.e. Brunt-Vaisala frequency (BVF), on instability. Compared to several former formulae generalized by Durran and Klemp,the modified Ri evidently decreases the stability in rainy regions. In theory, the modified BVF and Ri fix the discontinuity of latent heat release in the transition areas between saturated and unsaturated air by introducing the condensation probability function. Furthermore, the diagnostic analysis of the modilied Ri validates the rationality of its application in the non-uniform saturated moist process.

  16. Binary fish passage models for uniform and nonuniform flows

    Energy Technology Data Exchange (ETDEWEB)

    Neary, Vincent S [ORNL

    2011-01-01

    Binary fish passage models are considered by many fisheries managers to be the best 21 available practice for culvert inventory assessments and for fishway and barrier design. 22 Misunderstandings between different binary passage modeling approaches often arise, 23 however, due to differences in terminology, application and presentation. In this paper 24 one-dimensional binary fish passage models are reviewed and refined to clarify their 25 origins and applications. For uniform flow, a simple exhaustion-threshold (ET) model 26 equation is derived that predicts the flow speed threshold in a fishway or velocity barrier 27 that causes exhaustion at a given maximum distance of ascent. Flow speeds at or above 28 the threshold predict failure to pass (exclusion). Flow speeds below the threshold predict 29 passage. The binary ET model is therefore intuitive and easily applied to predict passage 30 or exclusion. It is also shown to be consistent with the distance-maximizing model. The 31 ET model s limitation to uniform flow is addressed by deriving a passage model that 32 accounts for nonuniform flow conditions more commonly found in the field, including 33 backwater profiles and drawdown curves. Comparison of these models with 34 experimental observations of volitional passage for Gambusia affinis in uniform and 35 nonuniform flows indicates reasonable prediction of binary outcomes (passage or 36 exclusion) if the flow speed is not near the threshold flow velocity. More research is 37 needed on fish behavior, passage strategies under nonuniform flow regimes and 38 stochastic methods that account for individual differences in swimming performance at or 39 near the threshold flow speed. Future experiments should track and measure ground 40 speeds of ascending fish to test nonuniform flow passage strategies and to improve model 41 predictions. Stochastic models, such as Monte-Carlo techniques, that account for 42 different passage performance among individuals and allow

  17. On random flights with non-uniformly distributed directions

    CERN Document Server

    De Gregorio, Alessandro

    2011-01-01

    This paper deals with a new class of random flights $\\underline{\\bf X}_d(t),t>0,$ defined in the real space $\\mathbb{R}^d, d\\geq 2,$ characterized by non-uniform probability distributions on the multidimensional sphere. These random motions differ from similar models appeared in literature which take directions according to the uniform law. The family of angular probability distributions introduced in this paper depends on a parameter $\

  18. Non-uniform plastic deformation of micron scale objects

    DEFF Research Database (Denmark)

    Niordson, Christian Frithiof; Hutchinson, J. W.

    2003-01-01

    Significant increases in apparent flow strength are observed when non-uniform plastic deformation of metals occurs at the scale ranging from roughly one to ten microns. Several basic plane strain problems are analyzed numerically in this paper based on a new formulation of strain gradient plastic...... in the numerical analysis of the higher order gradient theory will be discussed and related to prior formulations having some of the same features....

  19. Using Nonuniform Fiber to Generate Slow Light via SBS

    Directory of Open Access Journals (Sweden)

    Wenhai Li

    2008-01-01

    Full Text Available The data pulse delay based on slow light induced by stimulated Brillouin scattering (SBS in a nonuniform dispersion decreasing fiber (DDF is demonstrated experimentally, and the distortions of data pulses at different beat frequencies are studied. We found that a delay exceeding a pulse width can be achieved at particular beat frequency, and the DDF has larger delay versus gain slope coefficient with much better output pulse quality than single-mode fiber.

  20. Anatomy of Mammalian Replication Domains

    Science.gov (United States)

    Takebayashi, Shin-ichiro; Ogata, Masato; Okumura, Katsuzumi

    2017-01-01

    Genetic information is faithfully copied by DNA replication through many rounds of cell division. In mammals, DNA is replicated in Mb-sized chromosomal units called “replication domains.” While genome-wide maps in multiple cell types and disease states have uncovered both dynamic and static properties of replication domains, we are still in the process of understanding the mechanisms that give rise to these properties. A better understanding of the molecular basis of replication domain regulation will bring new insights into chromosome structure and function. PMID:28350365

  1. Non-Uniform Electromagnetic Fields in the SAMURAI TPC

    Science.gov (United States)

    Estee, J.; Barney, J.; Chajecki, Z.; Chan, C. F.; Dunn, J. W.; Gilbert, J.; Lu, F.; Lynch, W. G.; Shane, R.; Tsang, M. B.; McIntosh, A. B.; Yennello, S. J.; Famiano, M.; Isobe, T.; Sakurai, H.; Taketani, A.; Murakami, T.; Samurai-Tpc Collaboration

    2011-10-01

    A Time Projection Chamber (TPC) is being developed for the SAMURAI dipole magnet at RIKEN. The main scientific objective for the TPC is to provide constraints on the nuclear symmetry at supra-saturation density. The poster presentation will discuss the design of the TPC field cage and the external electrodes that shape the high electric fields near the cathode. Garfield calculations of the electric field as well as TOSCA calculations of the magnetic field of the SAMURAI dipole will be shown and the impact of the non-uniformity of both fields on electron transport will be discussed. These non-uniformities can introduce components into the electron drift velocity in directions other than the expected vertical direction. This poster presentation will discuss the initial design of a laser calibration system, which will be used to calibrate away the influence of these non-uniformities in the electric and magnetic fields. This work is supported by the DOE under Grant DE-SC0004835.

  2. Forced unraveling of chromatin fibers with nonuniform linker DNA lengths

    Science.gov (United States)

    Ozer, Gungor; Collepardo-Guevara, Rosana; Schlick, Tamar

    2015-02-01

    The chromatin fiber undergoes significant structural changes during the cell's life cycle to modulate DNA accessibility. Detailed mechanisms of such structural transformations of chromatin fibers as affected by various internal and external conditions such as the ionic conditions of the medium, the linker DNA length, and the presence of linker histones, constitute an open challenge. Here we utilize Monte Carlo (MC) simulations of a coarse grained model of chromatin with nonuniform linker DNA lengths as found in vivo to help explain some aspects of this challenge. We investigate the unfolding mechanisms of chromatin fibers with alternating linker lengths of 26-62 bp and 44-79 bp using a series of end-to-end stretching trajectories with and without linker histones and compare results to uniform-linker-length fibers. We find that linker histones increase overall resistance of nonuniform fibers and lead to fiber unfolding with superbeads-on-a-string cluster transitions. Chromatin fibers with nonuniform linker DNA lengths display a more complex, multi-step yet smoother process of unfolding compared to their uniform counterparts, likely due to the existence of a more continuous range of nucleosome-nucleosome interactions. This finding echoes the theme that some heterogeneity in fiber component is biologically advantageous.

  3. Continuity of non-uniform recursive subdivision surfaces

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    Since Doo-Sabin and Catmull-Clark surfaces were proposed in 1978, eigenstructure, convergence and continuity analyses of stationary subdivision have been performed very well, but it has been very difficult to prove the convergence and continuity of non-uniform recursive subdivision surfaces (NURSSes, for short) of arbitrary topology. In fact, so far a problem whether or not there exists the limit surface as well as G1 continuity of a non-uniform Catmull-Clark subdivision has not been solved yet. Here the concept of equivalent knot spacing is introduced. A new technique for eigenanalysis, convergence and continuity analyses of non-uniform Catmull-Clark surfaces is proposed such that the convergence and G1 continuity of NURSSes at extraordinary points are proved. In addition, slightly improved rules for NURSSes are developed. This offers us one more alternative for modeling free-form surfaces of arbitrary topologies with geometric features such as cusps, sharp edges, creases and darts, while elsewhere maintaining the same order of continuity as B-spline surfaces.

  4. Continuity of non-uniform recursive subdivision surfaces

    Institute of Scientific and Technical Information of China (English)

    秦开怀; 王华维

    2000-01-01

    Since Doo-Sabin and Catmull-Clark surfaces were proposed in 1978, eigenstructure, convergence and continuity analyses of stationary subdivision have been performed very well, but it has been very difficult to prove the convergence and continuity of non-uniform recursive subdivision surfaces (NURSSes, for short) of arbitrary topology. In fact, so far a problem whether or not there exists the limit surface as well as G1 continuity of a non-uniform Catmull-Clark subdivision has not been solved yet. Here the concept of equivalent knot spacing is introduced. A new technique for eigenanaly-sis, convergence and continuity analyses of non-uniform Catmull-Clark surfaces is proposed such that the convergence and G1 continuity of NURSSes at extraordinary points are proved. In addition, slightly improved rules for NURSSes are developed. This offers us one more alternative for modeling free-form surfaces of arbitrary topologies with geometric features such as cusps, sharp edges, creases and darts, while elsewhere ma

  5. Naturalness preserved enhancement algorithm for non-uniform illumination images.

    Science.gov (United States)

    Wang, Shuhang; Zheng, Jin; Hu, Hai-Miao; Li, Bo

    2013-09-01

    Image enhancement plays an important role in image processing and analysis. Among various enhancement algorithms, Retinex-based algorithms can efficiently enhance details and have been widely adopted. Since Retinex-based algorithms regard illumination removal as a default preference and fail to limit the range of reflectance, the naturalness of non-uniform illumination images cannot be effectively preserved. However, naturalness is essential for image enhancement to achieve pleasing perceptual quality. In order to preserve naturalness while enhancing details, we propose an enhancement algorithm for non-uniform illumination images. In general, this paper makes the following three major contributions. First, a lightness-order-error measure is proposed to access naturalness preservation objectively. Second, a bright-pass filter is proposed to decompose an image into reflectance and illumination, which, respectively, determine the details and the naturalness of the image. Third, we propose a bi-log transformation, which is utilized to map the illumination to make a balance between details and naturalness. Experimental results demonstrate that the proposed algorithm can not only enhance the details but also preserve the naturalness for non-uniform illumination images.

  6. Alignment of suprathermally rotating grains

    Science.gov (United States)

    Lazarian, A.

    1995-12-01

    It is shown that mechanical alignment can be efficient for suprathermally rotating grains, provided that they drift with supersonic velocities. Such a drift should be widely spread due to both Alfvenic waves and ambipolar diffusion. Moreover, if suprathermal rotation is caused by grain interaction with a radiative flux, it is shown that mechanical alignment may be present even in the absence of supersonic drift. This means that the range of applicability of mechanical alignment is wider than generally accepted and that it can rival the paramagnetic one. We also study the latter mechanism and re-examine the interplay between poisoning of active sites and desorption of molecules blocking the access to the active sites of H_2 formation, in order to explain the observed poor alignment of small grains and good alignment of large grains. To obtain a more comprehensive picture of alignment, we briefly discuss the alignment by radiation fluxes and by grain magnetic moments.

  7. Semiautomated improvement of RNA alignments

    DEFF Research Database (Denmark)

    Andersen, Ebbe Sloth; Lind-Thomsen, Allan; Knudsen, Bjarne

    2007-01-01

    We have developed a semiautomated RNA sequence editor (SARSE) that integrates tools for analyzing RNA alignments. The editor highlights different properties of the alignment by color, and its integrated analysis tools prevent the introduction of errors when doing alignment editing. SARSE readily...... connects to external tools to provide a flexible semiautomatic editing environment. A new method, Pcluster, is introduced for dividing the sequences of an RNA alignment into subgroups with secondary structure differences. Pcluster was used to evaluate 574 seed alignments obtained from the Rfam database...... and we identified 71 alignments with significant prediction of inconsistent base pairs and 102 alignments with significant prediction of novel base pairs. Four RNA families were used to illustrate how SARSE can be used to manually or automatically correct the inconsistent base pairs detected by Pcluster...

  8. Modeling inhomogeneous DNA replication kinetics.

    Directory of Open Access Journals (Sweden)

    Michel G Gauthier

    Full Text Available In eukaryotic organisms, DNA replication is initiated at a series of chromosomal locations called origins, where replication forks are assembled proceeding bidirectionally to replicate the genome. The distribution and firing rate of these origins, in conjunction with the velocity at which forks progress, dictate the program of the replication process. Previous attempts at modeling DNA replication in eukaryotes have focused on cases where the firing rate and the velocity of replication forks are homogeneous, or uniform, across the genome. However, it is now known that there are large variations in origin activity along the genome and variations in fork velocities can also take place. Here, we generalize previous approaches to modeling replication, to allow for arbitrary spatial variation of initiation rates and fork velocities. We derive rate equations for left- and right-moving forks and for replication probability over time that can be solved numerically to obtain the mean-field replication program. This method accurately reproduces the results of DNA replication simulation. We also successfully adapted our approach to the inverse problem of fitting measurements of DNA replication performed on single DNA molecules. Since such measurements are performed on specified portion of the genome, the examined DNA molecules may be replicated by forks that originate either within the studied molecule or outside of it. This problem was solved by using an effective flux of incoming replication forks at the model boundaries to represent the origin activity outside the studied region. Using this approach, we show that reliable inferences can be made about the replication of specific portions of the genome even if the amount of data that can be obtained from single-molecule experiments is generally limited.

  9. CELT optics Alignment Procedure

    Science.gov (United States)

    Mast, Terry S.; Nelson, Jerry E.; Chanan, Gary A.; Noethe, Lothar

    2003-01-01

    The California Extremely Large Telescope (CELT) is a project to build a 30-meter diameter telescope for research in astronomy at visible and infrared wavelengths. The current optical design calls for a primary, secondary, and tertiary mirror with Ritchey-Chretién foci at two Nasmyth platforms. The primary mirror is a mosaic of 1080 actively-stabilized hexagonal segments. This paper summarizes a CELT report that describes a step-by-step procedure for aligning the many degrees of freedom of the CELT optics.

  10. ATLAS Inner Detector Alignment

    CERN Document Server

    Bocci, A

    2008-01-01

    The ATLAS experiment is a multi-purpose particle detector that will study high-energy particle collisions produced by the Large Hadron Collider at CERN. In order to achieve its physics goals, the ATLAS tracking requires that the positions of the silicon detector elements have to be known to a precision better than 10 μm. Several track-based alignment algorithms have been developed for the Inner Detector. An extensive validation has been performed with simulated events and real data coming from the ATLAS. Results from such validation are reported in this paper.

  11. TSGC and JSC Alignment

    Science.gov (United States)

    Sanchez, Humberto

    2013-01-01

    NASA and the SGCs are, by design, intended to work closely together and have synergistic Vision, Mission, and Goals. The TSGC affiliates and JSC have been working together, but not always in a concise, coordinated, nor strategic manner. Today we have a couple of simple ideas to present about how TSGC and JSC have started to work together in a more concise, coordinated, and strategic manner, and how JSC and non-TSG Jurisdiction members have started to collaborate: Idea I: TSGC and JSC Technical Alignment Idea II: Concept of Clusters.

  12. Comparison of Two Forced Alignment Systems for Aligning Bribri Speech

    Directory of Open Access Journals (Sweden)

    Rolando Coto-Solano

    2017-04-01

    Full Text Available Forced alignment provides drastic savings in time when aligning speech recordings and is particularly useful for the study of Indigenous languages, which are severely under-resourced in corpora and models. Here we compare two forced alignment systems, FAVE-align and EasyAlign, to determine which one provides more precision when processing running speech in the Chibchan language Bribri. We aligned a segment of a story narrated in Bribri and compared the errors in finding the center of the words and the edges of phonemes when compared with the manual correction. FAVE-align showed better performance: It has an error of 7% compared to 24% with EasyAlign when finding the center of words, and errors of 22~24 ms when finding the edges of phonemes, compared to errors of 86~130 ms with EasyAlign. In addition to this, EasyAlign failed to detect 7% of phonemes, while also inserting 58 spurious phones into the transcription. Future research includes verifying these results for other genres and other Chibchan languages. Finally, these results provide additional evidence for the applicability of natural language processing methods to Chibchan languages and point to future work such as the construction of corpora and the training of automated speech recognition systems.

  13. Non-Uniform Plasma Discharges in Near Earth Space Environment and Ionosphere to Troposphere Responses

    Science.gov (United States)

    McCanney, J. M.

    2009-05-01

    excess current of protons in the solar wind, which creates an overall capacitor with inherent non-uniform electric field surrounding the Sun. On a local scale the voltage gradients are quite low, but all objects in this solar capacitor, including the planets and their moon systems, discharge this capacitor over extensive trans-planetary distances, thus creating excessive current flows, which also respond to CMEs and solar flares which carry a far greater potential gradient in the passing solar wind. The key to understanding reactions to non-uniform electric fields in the LEB environment is based on the fact that planetary Debye shielding takes on a new form, which is extended from that of the neutral environment typically considered in previous theoretical models. An attempt is made to solve the fundamental problem of the source of energy that drives these systems. The effects of moons and their positions relative to the planet and solar wind, as well as multiple planetary electrical alignments, are shown to contribute to the overall discharge phenomenon. A connection is made between these energy sources and cyclonic storms, earthquakes and volcanic "trigger" mechanisms. The goal of this research is to create an overall space weather model that couples the single energy source (the non-uniform plasma environment of the Sun created by an excess current of positive charge in the solar wind) to the earth's magnetosphere and ionosphere (and other planetary environments) and ultimately to the low altitude weather systems.

  14. Capillary Self-Alignment of Microchips on Soft Substrates

    Directory of Open Access Journals (Sweden)

    Bo Chang

    2016-03-01

    Full Text Available Soft micro devices and stretchable electronics have attracted great interest for their potential applications in sensory skins and wearable bio-integrated devices. One of the most important steps in building printed circuits is the alignment of assembled micro objects. Previously, the capillary self-alignment of microchips driven by surface tension effects has been shown to be able to achieve high-throughput and high-precision in the integration of micro parts on rigid hydrophilic/superhydrophobic patterned surfaces. In this paper, the self-alignment of microchips on a patterned soft and stretchable substrate, which consists of hydrophilic pads surrounded by a superhydrophobic polydimethylsiloxane (PDMS background, is demonstrated for the first time. A simple process has been developed for making superhydrophobic soft surface by replicating nanostructures of black silicon onto a PDMS surface. Different kinds of PDMS have been investigated, and the parameters for fabricating superhydrophobic PDMS have been optimized. A self-alignment strategy has been proposed that can result in reliable self-alignment on a soft PDMS substrate. Our results show that capillary self-alignment has great potential for building soft printed circuits.

  15. All about alignment

    CERN Multimedia

    2006-01-01

    The ALICE absorbers, iron wall and superstructure have been installed with great precision. The ALICE front absorber, positioned in the centre of the detector, has been installed and aligned. Weighing more than 400 tonnes, the ALICE absorbers and the surrounding support structures have been installed and aligned with a precision of 1-2 mm, hardly an easy task but a very important one. The ALICE absorbers are made of three parts: the front absorber, a 35-tonne cone-shaped structure, and two small-angle absorbers, long straight cylinder sections weighing 18 and 40 tonnes. The three pieces lined up have a total length of about 17 m. In addition to these, ALICE technicians have installed a 300-tonne iron filter wall made of blocks that fit together like large Lego pieces and a surrounding metal support structure to hold the tracking and trigger chambers. The absorbers house the vacuum chamber and are also the reference surface for the positioning of the tracking and trigger chambers. For this reason, the ab...

  16. Quantitative Study of Thermal Disturbances Due to Nonuniformly Perfused Tumors in Peripheral Regions of Women's Breast.

    Science.gov (United States)

    Makrariya, Akshara; Adlakha, Neeru

    2017-01-01

    distribution in matured breast of different shapes. By selecting appropriate model parameters, we have shown the spatial thermal variation in matured breast of different shapes which could be replicated by the proposed model. We have also shown the thermal disturbances caused by different shapes and sizes of tumors by selecting appropriate values of parameters. In addition, the thermal information from our model provides us the basis for prediction of shape and size of tumors in terms of change of the slope of temperature profiles at the junction of tumor and normal tissues and tumor periphery and tumor core. The proposed model was successfully used to study the impact of different sizes and shapes of nonuniformly perfused tumor on thermograms in peripheral regions of ellipse-shaped woman's breast. The proposed model is more realistic in terms of shape and size of tumors and woman's breast in comparison with earlier models reported in the literature. The finite element discretization of breast into large number of triangular ring elements effectively models the heterogeneity of region. The changes in slope of the thermal curves at the junctions of various peripheral and tumor layers are due to the nonhomogeneous nature of the region. The location of major thermal disturbances in the tissues indicates the presence of tumor. The change in the slope of the thermal curves gives us idea about the position, type, and size of the tumors in the peripheral tissues. This thermal information can be exploited for detection of tumors by thermographic techniques.

  17. Testing the tidal alignment model of galaxy intrinsic alignment

    CERN Document Server

    Blazek, Jonathan; Seljak, Uros

    2011-01-01

    Weak gravitational lensing has become a powerful probe of large-scale structure and cosmological parameters. Precision weak lensing measurements require an understanding of the intrinsic alignment of galaxy ellipticities, which can in turn inform models of galaxy formation. It is hypothesized that elliptical galaxies align with the background tidal field and that this alignment mechanism dominates the correlation between ellipticities on cosmological scales (in the absence of lensing). We use recent large-scale structure measurements from the Sloan Digital Sky Survey to test this picture with several statistics: (1) the correlation between ellipticity and galaxy overdensity, w_{g+}; (2) the intrinsic alignment auto-correlation functions; (3) the correlation functions of curl-free, E, and divergence-free, B, modes (the latter of which is zero in the linear tidal alignment theory); (4) the alignment correlation function, w_g(r_p,theta), a recently developed statistic that generalizes the galaxy correlation func...

  18. Overcoming low-alignment signal contrast induced alignment failure by alignment signal enhancement

    Science.gov (United States)

    Lee, Byeong Soo; Kim, Young Ha; Hwang, Hyunwoo; Lee, Jeongjin; Kong, Jeong Heung; Kang, Young Seog; Paarhuis, Bart; Kok, Haico; de Graaf, Roelof; Weichselbaum, Stefan; Droste, Richard; Mason, Christopher; Aarts, Igor; de Boeij, Wim P.

    2016-03-01

    Overlay is one of the key factors which enables optical lithography extension to 1X node DRAM manufacturing. It is natural that accurate wafer alignment is a prerequisite for good device overlay. However, alignment failures or misalignments are commonly observed in a fab. There are many factors which could induce alignment problems. Low alignment signal contrast is one of the main issues. Alignment signal contrast can be degraded by opaque stack materials or by alignment mark degradation due to processes like CMP. This issue can be compounded by mark sub-segmentation from design rules in combination with double or quadruple spacer process. Alignment signal contrast can be improved by applying new material or process optimization, which sometimes lead to the addition of another process-step with higher costs. If we can amplify the signal components containing the position information and reduce other unwanted signal and background contributions then we can improve alignment performance without process change. In this paper we use ASML's new alignment sensor (as was introduced and released on the NXT:1980Di) and sample wafers with special stacks which can induce poor alignment signal to demonstrate alignment and overlay improvement.

  19. Replicated Spectrographs in Astronomy

    CERN Document Server

    Hill, Gary J

    2014-01-01

    As telescope apertures increase, the challenge of scaling spectrographic astronomical instruments becomes acute. The next generation of extremely large telescopes (ELTs) strain the availability of glass blanks for optics and engineering to provide sufficient mechanical stability. While breaking the relationship between telescope diameter and instrument pupil size by adaptive optics is a clear path for small fields of view, survey instruments exploiting multiplex advantages will be pressed to find cost-effective solutions. In this review we argue that exploiting the full potential of ELTs will require the barrier of the cost and engineering difficulty of monolithic instruments to be broken by the use of large-scale replication of spectrographs. The first steps in this direction have already been taken with the soon to be commissioned MUSE and VIRUS instruments for the Very Large Telescope and the Hobby-Eberly Telescope, respectively. MUSE employs 24 spectrograph channels, while VIRUS has 150 channels. We compa...

  20. Pareto optimal pairwise sequence alignment.

    Science.gov (United States)

    DeRonne, Kevin W; Karypis, George

    2013-01-01

    Sequence alignment using evolutionary profiles is a commonly employed tool when investigating a protein. Many profile-profile scoring functions have been developed for use in such alignments, but there has not yet been a comprehensive study of Pareto optimal pairwise alignments for combining multiple such functions. We show that the problem of generating Pareto optimal pairwise alignments has an optimal substructure property, and develop an efficient algorithm for generating Pareto optimal frontiers of pairwise alignments. All possible sets of two, three, and four profile scoring functions are used from a pool of 11 functions and applied to 588 pairs of proteins in the ce_ref data set. The performance of the best objective combinations on ce_ref is also evaluated on an independent set of 913 protein pairs extracted from the BAliBASE RV11 data set. Our dynamic-programming-based heuristic approach produces approximated Pareto optimal frontiers of pairwise alignments that contain comparable alignments to those on the exact frontier, but on average in less than 1/58th the time in the case of four objectives. Our results show that the Pareto frontiers contain alignments whose quality is better than the alignments obtained by single objectives. However, the task of identifying a single high-quality alignment among those in the Pareto frontier remains challenging.

  1. SUMO and KSHV Replication

    Energy Technology Data Exchange (ETDEWEB)

    Chang, Pei-Ching [Institute of Microbiology and Immunology, National Yang-Ming University, Taipei 112, Taiwan (China); Kung, Hsing-Jien, E-mail: hkung@nhri.org.tw [Institute for Translational Medicine, College of Medical Science and Technology, Taipei Medical University, Taipei 110, Taiwan (China); Department of Biochemistry and Molecular Medicine, University of California, Davis, CA 95616 (United States); UC Davis Cancer Center, University of California, Davis, CA 95616 (United States); Division of Molecular and Genomic Medicine, National Health Research Institutes, 35 Keyan Road, Zhunan, Miaoli County 35053, Taiwan (China)

    2014-09-29

    Small Ubiquitin-related MOdifier (SUMO) modification was initially identified as a reversible post-translational modification that affects the regulation of diverse cellular processes, including signal transduction, protein trafficking, chromosome segregation, and DNA repair. Increasing evidence suggests that the SUMO system also plays an important role in regulating chromatin organization and transcription. It is thus not surprising that double-stranded DNA viruses, such as Kaposi’s sarcoma-associated herpesvirus (KSHV), have exploited SUMO modification as a means of modulating viral chromatin remodeling during the latent-lytic switch. In addition, SUMO regulation allows the disassembly and assembly of promyelocytic leukemia protein-nuclear bodies (PML-NBs), an intrinsic antiviral host defense, during the viral replication cycle. Overcoming PML-NB-mediated cellular intrinsic immunity is essential to allow the initial transcription and replication of the herpesvirus genome after de novo infection. As a consequence, KSHV has evolved a way as to produce multiple SUMO regulatory viral proteins to modulate the cellular SUMO environment in a dynamic way during its life cycle. Remarkably, KSHV encodes one gene product (K-bZIP) with SUMO-ligase activities and one gene product (K-Rta) that exhibits SUMO-targeting ubiquitin ligase (STUbL) activity. In addition, at least two viral products are sumoylated that have functional importance. Furthermore, sumoylation can be modulated by other viral gene products, such as the viral protein kinase Orf36. Interference with the sumoylation of specific viral targets represents a potential therapeutic strategy when treating KSHV, as well as other oncogenic herpesviruses. Here, we summarize the different ways KSHV exploits and manipulates the cellular SUMO system and explore the multi-faceted functions of SUMO during KSHV’s life cycle and pathogenesis.

  2. Spontaneous formation of non-uniform double helices for elastic rods under torsion

    Science.gov (United States)

    Li, Hongyuan; Zhao, Shumin; Xia, Minggang; He, Siyu; Yang, Qifan; Yan, Yuming; Zhao, Hanqiao

    2017-02-01

    The spontaneous formation of double helices for filaments under torsion is common and significant. For example, the research on the supercoiling of DNA is helpful for understanding the replication and transcription of DNA. Similar double helices can appear in carbon nanotube yarns, cables, telephone wires and so forth. We noticed that non-uniform double helices can be produced due to the surface friction induced by the self-contact. Therefore an ideal model was presented to investigate the formation of double helices for elastic rods under torque. A general equilibrium condition which is valid for both the smooth surface and the rough surface situations is derived by using the variational method. By adding further constraints, the smooth and rough surface situations are investigated in detail respectively. Additionally, the model showed that the specific process of how to twist and slack the rod can determine the surface friction and hence influence the configuration of the double helix formed by rods with rough surfaces. Based on this principle, a method of manufacturing double helices with designed configurations was proposed and demonstrated. Finally, experiments were performed to verify the model and the results agreed well with the theory.

  3. Onorbit IMU alignment error budget

    Science.gov (United States)

    Corson, R. W.

    1980-01-01

    The Star Tracker, Crew Optical Alignment Sight (COAS), and Inertial Measurement Unit (IMU) from a complex navigation system with a multitude of error sources were combined. A complete list of the system errors is presented. The errors were combined in a rational way to yield an estimate of the IMU alignment accuracy for STS-1. The expected standard deviation in the IMU alignment error for STS-1 type alignments was determined to be 72 arc seconds per axis for star tracker alignments and 188 arc seconds per axis for COAS alignments. These estimates are based on current knowledge of the star tracker, COAS, IMU, and navigation base error specifications, and were partially verified by preliminary Monte Carlo analysis.

  4. Catalyzing alignment processes

    DEFF Research Database (Denmark)

    Lauridsen, Erik Hagelskjær; Jørgensen, Ulrik

    2004-01-01

    in societal and industrial environmental awareness and improvements. The coordination of these elements – covered by the notion of coherence – is seen as the most important mechanism for bringing about a change in environmental impact. The elements comprise of regulatory regimes and available technology......, the networks of environmental professionals that work in the environmental organisation, in consulting and regulatory enforcement, and dominating business cultures. These have previously been identified in the literature as individually significant in relation to the evolving environmental agendas...... time and in combination with other social processes establish more aligned and standardized environmental performance between countries. However, examples of the introduction of environmental management suggests that EMS’ only plays a minor role in developing the actual environmental objectives...

  5. Lunar Alignments - Identification and Analysis

    Science.gov (United States)

    González-García, A. César

    Lunar alignments are difficult to establish given the apparent lack of written accounts clearly pointing toward lunar alignments for individual temples. While some individual cases are reviewed and highlighted, the weight of the proof must fall on statistical sampling. Some definitions for the lunar alignments are provided in order to clarify the targets, and thus, some new tools are provided to try to test the lunar hypothesis in several cases, especially in megalithic astronomy.

  6. Efficient usage of Adabas replication

    CERN Document Server

    Storr, Dieter W

    2011-01-01

    In today's IT organization replication becomes more and more an essential technology. This makes Software AG's Event Replicator for Adabas an important part of your data processing. Setting the right parameters and establishing the best network communication, as well as selecting efficient target components, is essential for successfully implementing replication. This book provides comprehensive information and unique best-practice experience in the field of Event Replicator for Adabas. It also includes sample codes and configurations making your start very easy. It describes all components ne

  7. Solving the Telomere Replication Problem

    Science.gov (United States)

    Maestroni, Laetitia; Matmati, Samah; Coulon, Stéphane

    2017-01-01

    Telomeres are complex nucleoprotein structures that protect the extremities of linear chromosomes. Telomere replication is a major challenge because many obstacles to the progression of the replication fork are concentrated at the ends of the chromosomes. This is known as the telomere replication problem. In this article, different and new aspects of telomere replication, that can threaten the integrity of telomeres, will be reviewed. In particular, we will focus on the functions of shelterin and the replisome for the preservation of telomere integrity. PMID:28146113

  8. GraphAlignment: Bayesian pairwise alignment of biological networks

    Directory of Open Access Journals (Sweden)

    Kolář Michal

    2012-11-01

    Full Text Available Abstract Background With increased experimental availability and accuracy of bio-molecular networks, tools for their comparative and evolutionary analysis are needed. A key component for such studies is the alignment of networks. Results We introduce the Bioconductor package GraphAlignment for pairwise alignment of bio-molecular networks. The alignment incorporates information both from network vertices and network edges and is based on an explicit evolutionary model, allowing inference of all scoring parameters directly from empirical data. We compare the performance of our algorithm to an alternative algorithm, Græmlin 2.0. On simulated data, GraphAlignment outperforms Græmlin 2.0 in several benchmarks except for computational complexity. When there is little or no noise in the data, GraphAlignment is slower than Græmlin 2.0. It is faster than Græmlin 2.0 when processing noisy data containing spurious vertex associations. Its typical case complexity grows approximately as O(N2.6. On empirical bacterial protein-protein interaction networks (PIN and gene co-expression networks, GraphAlignment outperforms Græmlin 2.0 with respect to coverage and specificity, albeit by a small margin. On large eukaryotic PIN, Græmlin 2.0 outperforms GraphAlignment. Conclusions The GraphAlignment algorithm is robust to spurious vertex associations, correctly resolves paralogs, and shows very good performance in identification of homologous vertices defined by high vertex and/or interaction similarity. The simplicity and generality of GraphAlignment edge scoring makes the algorithm an appropriate choice for global alignment of networks.

  9. Electromechanical effects on multilayered cells in nonuniform rotating fields.

    Science.gov (United States)

    Sebastián, José Luis; Muñoz, Sagrario; Sancho, Miguel; Martínez, Genoveva; Alvarez, Gabriel

    2011-07-01

    We use the Maxwell stress tensor to calculate the dielectrophoretic force and electrorotational torque acting on a realistic four-shelled model of the yeast Saccharomyces cerevisiae in a nonuniform rotating electric field generated by four coplanar square electrodes. The comparison of these results with numerical calculations of the dipolar and quadrupolar contributions obtained from an integral equation for the polarization charge density shows the effect of the quadrupole contribution in the proximity of the electrode plane. We also show that under typical experimental conditions the substitution of the multilayered cell by an equivalent cell with homogeneous permittivity underestimates the quadrupole contribution to the force and torque by 1 order of magnitude.

  10. Ionization coefficient approach to modeling breakdown in nonuniform geometries.

    Energy Technology Data Exchange (ETDEWEB)

    Warne, Larry Kevin; Jorgenson, Roy Eberhardt; Nicolaysen, Scott D.

    2003-11-01

    This report summarizes the work on breakdown modeling in nonuniform geometries by the ionization coefficient approach. Included are: (1) fits to primary and secondary ionization coefficients used in the modeling; (2) analytical test cases for sphere-to-sphere, wire-to-wire, corner, coaxial, and rod-to-plane geometries; a compilation of experimental data with source references; comparisons between code results, test case results, and experimental data. A simple criterion is proposed to differentiate between corona and spark. The effect of a dielectric surface on avalanche growth is examined by means of Monte Carlo simulations. The presence of a clean dry surface does not appear to enhance growth.

  11. FAST ALGORITHM FOR NON-UNIFORMLY SAMPLED SIGNAL SPECTRUM RECONSTRUCTION

    Institute of Scientific and Technical Information of China (English)

    Zhu Zhenqian; Zhang Zhimin; Wang Yu

    2013-01-01

    In this paper,a fast algorithm to reconstruct the spectrum of non-uniformly sampled signals is proposed.Compared with the original algorithm,the fast algorithm has a higher computational efficiency,especially when sampling sequence is long.Particularly,a transformation matrix is built,and the reconstructed spectrum is perfectly synthesized from the spectrum of every sampling channel.The fast algorithm has solved efficiency issues of spectrum reconstruction algorithm,and making it possible for the actual application of spectrum reconstruction algorithm in multi-channel Synthetic Aperture Radar (SAR).

  12. Timing-Driven Nonuniform Depopulation-Based Clustering

    Directory of Open Access Journals (Sweden)

    Hanyu Liu

    2010-01-01

    hence improve routability by spreading the logic over the architecture. However, all depopulation-based clustering algorithms to this date increase critical path delay. In this paper, we present a timing-driven nonuniform depopulation-based clustering technique, T-NDPack, that targets critical path delay and channel width constraints simultaneously. T-NDPack adjusts the CLB capacity based on the criticality of the Basic Logic Element (BLE. Results show that T-NDPack reduces minimum channel width by 11.07% while increasing the number of CLBs by 13.28% compared to T-VPack. More importantly, T-NDPack decreases critical path delay by 2.89%.

  13. Nonuniform nuclear structures and QPOs in giant flares

    Energy Technology Data Exchange (ETDEWEB)

    Sotani, Hajime [Division of Theoretical Astronomy, National Astronomical Observatory of Japan, 2-21-1 Osawa, Mitaka, Tokyo 181-8588 (Japan)

    2012-11-12

    We show that the shear modes in the neutron star crust are quite sensitive to the existence of nonuniform nuclear structures, the so-called 'pasta'. Due to the existence of pasta phase, the frequencies of shear modes are reduced. Since the torsional shear frequencies depend strongly on the structure of pasta phase, through the observations of stellar oscillations, one can probe the pasta structure in the crust. Additionally, considering the effect of pasta phase, we show the possibility to explain all the observed frequencies in the SGR 1806-20 with using only crust torsional oscillations.

  14. Non-uniform impact excitation of a cylindrical bar

    Science.gov (United States)

    Karp, Baruch; Dorogoy, Avraham; Wang, Zonggang

    2009-06-01

    An experimental and numerical study of a non-uniform impact excitation of a circular bar is reported. In experiments, nine strikers with different contact area were accelerated against a circular bar. Axial surface strain of the impacted bar was measured at several distances from the impinged end to include the near and the far fields. The same experimental conditions were solved numerically using a commercial finite element code. It was demonstrated that the far-field response is insensitive to both the size and the form of the striker's colliding end. The distance at which such insensitivity is set is estimated to be approximately one and a half bar diameters.

  15. The demagnetizing field of a non-uniform rectangular prism

    DEFF Research Database (Denmark)

    Smith, Anders; Nielsen, Kaspar Kirstein; Christensen, Dennis

    2010-01-01

    is solved by an analytical calculation and the coupling between applied field, the demagnetization tensor field and spatially varying temperature is solved through iteration. We show that the demagnetizing field is of great importance in many cases and that it is necessary to take into account the non......The effect of demagnetization on the magnetic properties of a rectangular ferromagnetic prism under non-uniform conditions is investigated. A numerical model for solving the spatially varying internal magnetic field is developed, validated and applied to relevant cases. The demagnetizing field...

  16. Non-uniform Fulde-Ferrell-Larkin-Ovchinnikov (FFLO) state

    Energy Technology Data Exchange (ETDEWEB)

    Buzdin, A., E-mail: a.bouzdine@cpmoh.u-bordeaux1.fr [LOMA, University of Bordeaux, 351 cours de la Liberation, F-33405 Talence (France)

    2012-06-01

    We provide a general review of the properties of the non-uniform superconducting Fulde-Ferrell-Larkin-Ovchinnikov (FFLO) phase. Special emphasis is made on the orbital and crystal structure effects which may result in the quantum transitions between the higher Landau level states and should be responsible for the strong modification of the anisotropy of the critical field. The FFLO-type instability may be also expected in ultracold Fermi gases. In these systems it is caused not by the Zeeman interaction but by the tuning of the population imbalance between two lowest hyperfine states of the atoms. We also briefly discuss their properties.

  17. Non-uniform Braneworld Stars: an Exact Solution

    CERN Document Server

    Ovalle, J

    2008-01-01

    The first exact interior solution to Einstein's field equations for a static and non-uniform braneworld star with local and non-local bulk terms is presented. It is shown that the bulk Weyl scalar ${\\cal U}(r)$ is always negative inside the stellar distribution, in consequence it reduces both the effective density and the effective pressure. It is found that the anisotropy generated by bulk gravity effect has an acceptable physical behaviour inside the distribution. Using a Reissner-N\\"{o}rdstrom-like exterior solution, the effects of bulk gravity on pressure and density are found through matching conditions.

  18. Laser Plasmas : Optical guiding of laser beam in nonuniform plasma

    Indian Academy of Sciences (India)

    Tarsem Singh Gill

    2000-11-01

    A plasma channel produced by a short ionising laser pulse is axially nonuniform resulting from the self-defocusing. Through such preformed plasma channel, when a delayed pulse propagates, the phenomena of diffraction, refraction and self-phase modulation come into play. We have solved the nonlinear parabolic partial differential equation governing the propagation characteristics for an approximate analytical solution using variational approach. Results are compared with the theoretical model of Liu and Tripathi (Phys. Plasmas 1, 3100 (1994)) based on paraxial ray approximation. Particular emphasis is on both beam width and longitudinal phase delay which are crucial to many applications.

  19. MHD-effects in a turbulent medium of nonuniform density

    Energy Technology Data Exchange (ETDEWEB)

    Vaynshteyn, S.I.

    1978-01-01

    Turbulence in a medium of nonuniform density, such as the convective solar layer, is analyzed with the assumption that Del rho = rho lambda (exponential stratification). Considered are first the simplest case of a quasi-isotropic turbulence, then addition of a scalar factor such as the temperature, and finally anisotropic turbulence. The magnetic field and MHD-effects are then calculated without diffusion, and with two-dimensional turbulence as a special case. Also the values of the essential parameters in this problem are estimated. 7 references.

  20. Pyro-Align: Sample-Align based Multiple Alignment system for Pyrosequencing Reads of Large Number

    CERN Document Server

    Saeed, Fahad

    2009-01-01

    Pyro-Align is a multiple alignment program specifically designed for pyrosequencing reads of huge number. Multiple sequence alignment is shown to be NP-hard and heuristics are designed for approximate solutions. Multiple sequence alignment of pyrosequenceing reads is complex mainly because of 2 factors. One being the huge number of reads, making the use of traditional heuristics,that scale very poorly for large number, unsuitable. The second reason is that the alignment cannot be performed arbitrarily, because the position of the reads with respect to the original genome is important and has to be taken into account.In this report we present a short description of the multiple alignment system for pyrosequencing reads.

  1. Investigation of multiple spindle characteristics under non-uniform bearing preload

    Directory of Open Access Journals (Sweden)

    Yanfei Zhang

    2016-02-01

    Full Text Available The non-uniform distribution load during machining and assembly process is crucial for spindle system, especially in complex working conditions. The conception of non-uniform preload adjustment approach was proposed and experimentally investigated in this article. Based on the mechanical equivalent principle, the non-uniform preload was theoretically transformed to the combination of uniform preload and an extra moment. Then, the non-uniform preload of rolling bearing was experimentally measured and analyzed via a spacer with 15-µm wear loss on the end face. The spindle performance factors, such as rotation accuracy, temperature rising, acceleration, and vibration, were all monitored. The rotation center of spindle was deviated in different non-uniform preload conditions. Meanwhile, the temperature and vibration performance of non-uniform preload are superior to those of uniform bearing preload.

  2. Mask alignment system for semiconductor processing

    Energy Technology Data Exchange (ETDEWEB)

    Webb, Aaron P.; Carlson, Charles T.; Weaver, William T.; Grant, Christopher N.

    2017-02-14

    A mask alignment system for providing precise and repeatable alignment between ion implantation masks and workpieces. The system includes a mask frame having a plurality of ion implantation masks loosely connected thereto. The mask frame is provided with a plurality of frame alignment cavities, and each mask is provided with a plurality of mask alignment cavities. The system further includes a platen for holding workpieces. The platen may be provided with a plurality of mask alignment pins and frame alignment pins configured to engage the mask alignment cavities and frame alignment cavities, respectively. The mask frame can be lowered onto the platen, with the frame alignment cavities moving into registration with the frame alignment pins to provide rough alignment between the masks and workpieces. The mask alignment cavities are then moved into registration with the mask alignment pins, thereby shifting each individual mask into precise alignment with a respective workpiece.

  3. Charter School Replication. Policy Guide

    Science.gov (United States)

    Rhim, Lauren Morando

    2009-01-01

    "Replication" is the practice of a single charter school board or management organization opening several more schools that are each based on the same school model. The most rapid strategy to increase the number of new high-quality charter schools available to children is to encourage the replication of existing quality schools. This policy guide…

  4. Collaborative Filtering in a Non-Uniform World: Learning with the Weighted Trace Norm

    CERN Document Server

    Salakhutdinov, Ruslan

    2010-01-01

    We show that matrix completion with trace-norm regularization can be significantly hurt when entries of the matrix are sampled non-uniformly. We introduce a weighted version of the trace-norm regularizer that works well also with non-uniform sampling. Our experimental results demonstrate that the weighted trace-norm regularization indeed yields significant gains on the (highly non-uniformly sampled) Netflix dataset.

  5. LHCb experience with LFC replication

    CERN Document Server

    Bonifazi, F; Perez, E D; D'Apice, A; dell'Agnello, L; Düllmann, D; Girone, M; Re, G L; Martelli, B; Peco, G; Ricci, P P; Sapunenko, V; Vagnoni, V; Vitlacil, D

    2008-01-01

    Database replication is a key topic in the framework of the LHC Computing Grid to allow processing of data in a distributed environment. In particular, the LHCb computing model relies on the LHC File Catalog, i.e. a database which stores information about files spread across the GRID, their logical names and the physical locations of all the replicas. The LHCb computing model requires the LFC to be replicated at Tier-1s. The LCG 3D project deals with the database replication issue and provides a replication service based on Oracle Streams technology. This paper describes the deployment of the LHC File Catalog replication to the INFN National Center for Telematics and Informatics (CNAF) and to other LHCb Tier-1 sites. We performed stress tests designed to evaluate any delay in the propagation of the streams and the scalability of the system. The tests show the robustness of the replica implementation with performance going much beyond the LHCb requirements.

  6. DATABASE REPLICATION IN HETEROGENOUS PLATFORM

    Directory of Open Access Journals (Sweden)

    Hendro Nindito

    2014-01-01

    Full Text Available The application of diverse database technologies in enterprises today is increasingly a common practice. To provide high availability and survavibality of real-time information, a database replication technology that has capability to replicate databases under heterogenous platforms is required. The purpose of this research is to find the technology with such capability. In this research, the data source is stored in MSSQL database server running on Windows. The data will be replicated to MySQL running on Linux as the destination. The method applied in this research is prototyping in which the processes of development and testing can be done interactively and repeatedly. The key result of this research is that the replication technology applied, which is called Oracle GoldenGate, can successfully manage to do its task in replicating data in real-time and heterogeneous platforms.

  7. LHCb experience with LFC replication

    CERN Document Server

    Carbone, Angelo; Dafonte Perez, Eva; D'Apice, Antimo; dell'Agnello, Luca; Duellmann, Dirk; Girone, Maria; Lo Re, Giuseppe; Martelli, Barbara; Peco, Gianluca; Ricci, Pier Paolo; Sapunenko, Vladimir; Vagnoni, Vincenzo; Vitlacil, Dejan

    2007-01-01

    Database replication is a key topic in the framework of the LHC Computing Grid to allow processing of data in a distributed environment. In particular, the LHCb computing model relies on the LHC File Catalog, i.e. database which stores information about files spread across the GRID, their logical names and the physical locations of all the replicas. The LHCb computing model requires the LFC to be replicated at Tier-1s. The LCG 3D project deals with the database replication issue and provides a replication service based on Oracle Streams technology. This paper describes the deployment of the LHC File Catalog replication to the INFN National Center for Telematics and Informations (CNAF) and to other LHCb Tier-1 sites. We performed stress tests designed to evaluate any delay in the propagation of the streams and the scalability of the system. The tests show the robustness of the replica implementation with performance going much beyond the LHCb requirements.

  8. Noise power spectrum measurements under nonuniform gains and their compensations

    Science.gov (United States)

    Kim, Dong Sik; Kim, Eun; Shin, Choul Woo

    2016-03-01

    The fixed pattern noise, which is due to the nonuniform amplifier gains and scintillator sensitivities, should be alleviated in radiography imaging and should have less influence on measuring the noise power spectrum (NPS) of the radiography detector. In order to reduce the influence, background trend removing methods, which are based on low-pass filtering, polynomial fitting, and subtracting the average image of the uniform exposure images, are traditionally employed in the literature. In terms of removing the fixed pattern noise, the subtraction method shows a good performance. However, the number of images to be averaged is practically finite and thus the noise contained in the average image contaminates the image difference and inflates the NPS curve. In this paper, an image formation model considering the nonuniform gain is constructed and two measuring methods, which are based on the subtraction and gain correction, respectively, are considered. In order to accurately measure a normalized NPS (NNPS) in the measuring methods, the number of images to be averaged is considered for NNPS compensations. For several flat-panel radiography detectors, the NNPS measurements are conducted and compared with conventional approaches, which have no compensation stages. Through experiments it is shown that the compensation can provide accurate NNPS measurements less influenced by the fixed pattern noise.

  9. Elastic deformations driven by non-uniform lubrication flows

    Science.gov (United States)

    Rubin, Shimon; Tulchinsky, Arie; Gat, Amir D.; Bercovici, Moran

    2017-02-01

    The ability to create dynamic deformations of micron-sized structures is relevant to a wide variety of applications such as adaptable optics, soft robotics, and reconfigurable microfluidic devices. In this work we examine non-uniform lubrication flow as a mechanism to create complex deformation fields in an elastic plate. We consider a Kirchoff-Love elasticity model for the plate and Hele-Shaw flow in a narrow gap between the plate and a parallel rigid surface. Based on linearization of the Reynolds equation, we obtain a governing equation which relates elastic deformations to gradients in non-homogenous physical properties of the fluid (e.g. body forces, viscosity, and slip velocity). We then focus on a specific case of non-uniform Helmholtz-Smoluchowski electroosmotic slip velocity, and provide a method for determining the zeta-potential distribution necessary to generate arbitrary static and quasi-static deformations of the elastic plate. Extending the problem to time-dependent solutions, we analyze transient effects on asymptotically static solutions, and finally provide a closed form solution for a Green's function for time periodic actuations.

  10. Asynchronous signal-dependent non-uniform sampler

    Science.gov (United States)

    Can-Cimino, Azime; Chaparro, Luis F.; Sejdić, Ervin

    2014-05-01

    Analog sparse signals resulting from biomedical and sensing network applications are typically non-stationary with frequency-varying spectra. By ignoring that the maximum frequency of their spectra is changing, uniform sampling of sparse signals collects unnecessary samples in quiescent segments of the signal. A more appropriate sampling approach would be signal-dependent. Moreover, in many of these applications power consumption and analog processing are issues of great importance that need to be considered. In this paper we present a signal dependent non-uniform sampler that uses a Modified Asynchronous Sigma Delta Modulator which consumes low-power and can be processed using analog procedures. Using Prolate Spheroidal Wave Functions (PSWF) interpolation of the original signal is performed, thus giving an asynchronous analog to digital and digital to analog conversion. Stable solutions are obtained by using modulated PSWFs functions. The advantage of the adapted asynchronous sampler is that range of frequencies of the sparse signal is taken into account avoiding aliasing. Moreover, it requires saving only the zero-crossing times of the non-uniform samples, or their differences, and the reconstruction can be done using their quantized values and a PSWF-based interpolation. The range of frequencies analyzed can be changed and the sampler can be implemented as a bank of filters for unknown range of frequencies. The performance of the proposed algorithm is illustrated with an electroencephalogram (EEG) signal.

  11. Identification of the material properties in nonuniform nanostructures

    Science.gov (United States)

    Bao, Gang; Xu, Xiang

    2015-12-01

    This paper is concerned with addressing two significant challenges arising from quantifying mechanical properties of nanomaterials, namely nonuniformity of the nanomaterial and the high noise level of measurements. For nonuniformity, an explicit solution is derived for the general Euler-Bernoulli equation in terms of the Green function for the Poisson equation. Then, by examining a stochastic source, the systematic error may be removed from measurements, which leads to more accurate estimation of mechanical properties. Based on Itô integral properties, three deterministic Fredholm integral equations can be deduced to extract the stiffness and the structure of the random source from measured data. To overcome ill-posedness and high nonlinearity in solving the Fredholm equations, a Tikhonov regularization method is developed with an a priori strategy of choosing the regularization parameter. Moreover, under a regularity assumption for the stiffness coefficient and structures of the random source, the convergence rate can be obtained in the sense of probability. Numerical examples are presented to illustrate the validity and effectiveness of the novel model and regularization method.

  12. Longitudinal oscillations in a non-uniform spatially dispersive plasma

    Energy Technology Data Exchange (ETDEWEB)

    Calogeracos, Alex, E-mail: a.calogeracos@yahoo.co.uk

    2015-03-15

    Longitudinal oscillations of the electron fluid in the hydrodynamic model of a metal are examined with pressure effects taken into account. It is well-known that this entails spatial dispersion. The equilibrium electron number density is taken to be non-uniform and a non-self-adjoint fourth order differential equation obeyed by the electric potential is derived. A velocity potential necessary for the description of sound waves is introduced in the standard fashion and the generalized version of Bloch orthogonality appropriate to a non-uniform background is deduced. We observe a duality between electric and velocity potentials in the sense that the respective differential operators are adjoint to each other. The spectrum is calculated in the special case of an exponential profile for the equilibrium electron number density. The surface plasmons are connected with the analytic properties of the scattering amplitude in the complex plane. The phase shift at threshold is expressed in terms of the number of surface plasmon modes via an expression reminiscent of Levinson’s statement in quantum mechanics.

  13. Elastic deformations driven by non-uniform lubrication flows

    CERN Document Server

    Rubin, Shimon; Gat, Amir; Bercovici, Moran

    2016-01-01

    The ability to create dynamic deformations of micron-sized structures is relevant to a wide variety of applications such as adaptable optics, soft robotics, and reconfigurable microfluidic devices. In this work we examine non-uniform lubrication flow as a mechanism to create complex deformation fields in an elastic plate. We consider a Kirchoff-Love elasticity model for the plate and Hele-Shaw flow in a narrow gap between the plate and a parallel rigid surface. Based on linearization of the Reynolds equation, we obtain a governing equation which relates elastic deformations to gradients in non-homogenous physical properties of the fluid (e.g. body forces, viscosity, and slip velocity). We then focus on a specific case of non-uniform Helmholtz-Smoluchowski electroosmotic slip velocity, and provide a method for determining the zeta-potential distribution necessary to generate arbitrary static and quasi-static deformations of the elastic plate. Extending the problem to time-dependent solutions, we analyze transi...

  14. RNA Structural Alignments, Part I

    DEFF Research Database (Denmark)

    Havgaard, Jakob Hull; Gorodkin, Jan

    2014-01-01

    Simultaneous alignment and secondary structure prediction of RNA sequences is often referred to as "RNA structural alignment." A class of the methods for structural alignment is based on the principles proposed by Sankoff more than 25 years ago. The Sankoff algorithm simultaneously folds and alig...... the methods based on the Sankoff algorithm. All the practical implementations of the algorithm use heuristics to make them run in reasonable time and memory. These heuristics are also described in this chapter.......Simultaneous alignment and secondary structure prediction of RNA sequences is often referred to as "RNA structural alignment." A class of the methods for structural alignment is based on the principles proposed by Sankoff more than 25 years ago. The Sankoff algorithm simultaneously folds and aligns...... two or more sequences. The advantage of this algorithm over those that separate the folding and alignment steps is that it makes better predictions. The disadvantage is that it is slower and requires more computer memory to run. The amount of computational resources needed to run the Sankoff algorithm...

  15. Lexical alignment in triadic communication.

    Science.gov (United States)

    Foltz, Anouschka; Gaspers, Judith; Thiele, Kristina; Stenneken, Prisca; Cimiano, Philipp

    2015-01-01

    Lexical alignment refers to the adoption of one's interlocutor's lexical items. Accounts of the mechanisms underlying such lexical alignment differ (among other aspects) in the role assigned to addressee-centered behavior. In this study, we used a triadic communicative situation to test which factors may modulate the extent to which participants' lexical alignment reflects addressee-centered behavior. Pairs of naïve participants played a picture matching game and received information about the order in which pictures were to be matched from a voice over headphones. On critical trials, participants did or did not hear a name for the picture to be matched next over headphones. Importantly, when the voice over headphones provided a name, it did not match the name that the interlocutor had previously used to describe the object. Participants overwhelmingly used the word that the voice over headphones provided. This result points to non-addressee-centered behavior and is discussed in terms of disrupting alignment with the interlocutor as well as in terms of establishing alignment with the voice over headphones. In addition, the type of picture (line drawing vs. tangram shape) independently modulated lexical alignment, such that participants showed more lexical alignment to their interlocutor for (more ambiguous) tangram shapes compared to line drawings. Overall, the results point to a rather large role for non-addressee-centered behavior during lexical alignment.

  16. CATO: The Clone Alignment Tool.

    Directory of Open Access Journals (Sweden)

    Peter V Henstock

    Full Text Available High-throughput cloning efforts produce large numbers of sequences that need to be aligned, edited, compared with reference sequences, and organized as files and selected clones. Different pieces of software are typically required to perform each of these tasks. We have designed a single piece of software, CATO, the Clone Alignment Tool, that allows a user to align, evaluate, edit, and select clone sequences based on comparisons to reference sequences. The input and output are designed to be compatible with standard data formats, and thus suitable for integration into a clone processing pipeline. CATO provides both sequence alignment and visualizations to facilitate the analysis of cloning experiments. The alignment algorithm matches each of the relevant candidate sequences against each reference sequence. The visualization portion displays three levels of matching: 1 a top-level summary of the top candidate sequences aligned to each reference sequence, 2 a focused alignment view with the nucleotides of matched sequences displayed against one reference sequence, and 3 a pair-wise alignment of a single reference and candidate sequence pair. Users can select the minimum matching criteria for valid clones, edit or swap reference sequences, and export the results to a summary file as part of the high-throughput cloning workflow.

  17. CATO: The Clone Alignment Tool.

    Science.gov (United States)

    Henstock, Peter V; LaPan, Peter

    2016-01-01

    High-throughput cloning efforts produce large numbers of sequences that need to be aligned, edited, compared with reference sequences, and organized as files and selected clones. Different pieces of software are typically required to perform each of these tasks. We have designed a single piece of software, CATO, the Clone Alignment Tool, that allows a user to align, evaluate, edit, and select clone sequences based on comparisons to reference sequences. The input and output are designed to be compatible with standard data formats, and thus suitable for integration into a clone processing pipeline. CATO provides both sequence alignment and visualizations to facilitate the analysis of cloning experiments. The alignment algorithm matches each of the relevant candidate sequences against each reference sequence. The visualization portion displays three levels of matching: 1) a top-level summary of the top candidate sequences aligned to each reference sequence, 2) a focused alignment view with the nucleotides of matched sequences displayed against one reference sequence, and 3) a pair-wise alignment of a single reference and candidate sequence pair. Users can select the minimum matching criteria for valid clones, edit or swap reference sequences, and export the results to a summary file as part of the high-throughput cloning workflow.

  18. Alignments in the nobelium isotopes

    Institute of Scientific and Technical Information of China (English)

    ZHENG Shi-Zie; XU Fu-Rong; YUAN Cen-Xi; QI Chong

    2009-01-01

    Total-Routhian-Surface calculations have been performed to investigate the deformation and align-ment properties of the No isotopes. It is found that normal deformed and superdeformed states in these nuclei can coexist at low excitation energies. In neutron-deficient No isotopes, the superdeformed shapes can even become the ground states. Moreover, we plotted the kinematic moments of inertia of the No isotopes, which follow very nicely available experimental data. It is noted that, as the rotational frequency increases, align-ments develop at hω=0.2-0.3 MeV. Our calculations show that the occupation of the vj orbital plays an important role in the alignments of the No isotopes.

  19. Alignment of flexible protein structures.

    Science.gov (United States)

    Shatsky, M; Fligelman, Z Y; Nussinov, R; Wolfson, H J

    2000-01-01

    We present two algorithms which align flexible protein structures. Both apply efficient structural pattern detection and graph theoretic techniques. The FlexProt algorithm simultaneously detects the hinge regions and aligns the rigid subparts of the molecules. It does it by efficiently detecting maximal congruent rigid fragments in both molecules and calculating their optimal arrangement which does not violate the protein sequence order. The FlexMol algorithm is sequence order independent, yet requires as input the hypothesized hinge positions. Due its sequence order independence it can also be applied to protein-protein interface matching and drug molecule alignment. It aligns the rigid parts of the molecule using the Geometric Hashing method and calculates optimal connectivity among these parts by graph-theoretic techniques. Both algorithms are highly efficient even compared with rigid structure alignment algorithms. Typical running times on a standard desktop PC (400 MHz) are about 7 seconds for FlexProt and about 1 minute for FlexMol.

  20. The CMS Silicon Tracker Alignment

    CERN Document Server

    Castello, R

    2008-01-01

    The alignment of the Strip and Pixel Tracker of the Compact Muon Solenoid experiment, with its large number of independent silicon sensors and its excellent spatial resolution, is a complex and challenging task. Besides high precision mounting, survey measurements and the Laser Alignment System, track-based alignment is needed to reach the envisaged precision.\\\\ Three different algorithms for track-based alignment were successfully tested on a sample of cosmic-ray data collected at the Tracker Integration Facility, where 15\\% of the Tracker was tested. These results, together with those coming from the CMS global run, will provide the basis for the full-scale alignment of the Tracker, which will be carried out with the first \\emph{p-p} collisions.

  1. Interference Alignment for Secrecy

    CERN Document Server

    Koyluoglu, Onur Ozan; Lai, Lifeng; Poor, H Vincent

    2008-01-01

    This paper studies the frequency/time selective $K$-user Gaussian interference channel with secrecy constraints. Two distinct models, namely the interference channel with confidential messages and the one with an external eavesdropper, are analyzed. The key difference between the two models is the lack of channel state information (CSI) about the external eavesdropper. Using interference alignment along with secrecy pre-coding, it is shown that each user can achieve non-zero secure Degrees of Freedom (DoF) for both cases. More precisely, the proposed coding scheme achieves $\\frac{K-2}{2K-2}$ secure DoF {\\em with probability one} per user in the confidential messages model. For the external eavesdropper scenario, on the other hand, it is shown that each user can achieve $\\frac{K-2}{2K}$ secure DoF {\\em in the ergodic setting}. Remarkably, these results establish the {\\em positive impact} of interference on the secrecy capacity region of wireless networks.

  2. Space Mirror Alignment System

    Science.gov (United States)

    Jau, Bruno M.; McKinney, Colin; Smythe, Robert F.; Palmer, Dean L.

    2011-01-01

    An optical alignment mirror mechanism (AMM) has been developed with angular positioning accuracy of +/-0.2 arcsec. This requires the mirror s linear positioning actuators to have positioning resolutions of +/-112 nm to enable the mirror to meet the angular tip/tilt accuracy requirement. Demonstrated capabilities are 0.1 arc-sec angular mirror positioning accuracy, which translates into linear positioning resolutions at the actuator of 50 nm. The mechanism consists of a structure with sets of cross-directional flexures that enable the mirror s tip and tilt motion, a mirror with its kinematic mount, and two linear actuators. An actuator comprises a brushless DC motor, a linear ball screw, and a piezoelectric brake that holds the mirror s position while the unit is unpowered. An interferometric linear position sensor senses the actuator s position. The AMMs were developed for an Astrometric Beam Combiner (ABC) optical bench, which is part of an interferometer development. Custom electronics were also developed to accommodate the presence of multiple AMMs within the ABC and provide a compact, all-in-one solution to power and control the AMMs.

  3. Downlink Interference Alignment

    CERN Document Server

    Suh, Changho; Tse, David

    2010-01-01

    We develop an interference alignment (IA) technique for a downlink cellular system. In the uplink, IA schemes need channel-state-information exchange across base-stations of different cells, but our downlink IA technique requires feedback only within a cell. As a result, the proposed scheme can be implemented with a few changes to an existing cellular system where the feedback mechanism (within a cell) is already being considered for supporting multi-user MIMO. Not only is our proposed scheme implementable with little effort, it can in fact provide substantial gain especially when interference from a dominant interferer (base-station) is significantly stronger than the remaining interference: it is shown that in the two-isolated cell layout, our scheme provides four-fold gain in throughput performance over a standard multi-user MIMO technique. We show through simulations that our technique provides respectable gain under more realistic scenarios: it gives approximately 55% and 20% gain for a linear cell layou...

  4. Alignment-Annotator web server: rendering and annotating sequence alignments.

    Science.gov (United States)

    Gille, Christoph; Fähling, Michael; Weyand, Birgit; Wieland, Thomas; Gille, Andreas

    2014-07-01

    Alignment-Annotator is a novel web service designed to generate interactive views of annotated nucleotide and amino acid sequence alignments (i) de novo and (ii) embedded in other software. All computations are performed at server side. Interactivity is implemented in HTML5, a language native to web browsers. The alignment is initially displayed using default settings and can be modified with the graphical user interfaces. For example, individual sequences can be reordered or deleted using drag and drop, amino acid color code schemes can be applied and annotations can be added. Annotations can be made manually or imported (BioDAS servers, the UniProt, the Catalytic Site Atlas and the PDB). Some edits take immediate effect while others require server interaction and may take a few seconds to execute. The final alignment document can be downloaded as a zip-archive containing the HTML files. Because of the use of HTML the resulting interactive alignment can be viewed on any platform including Windows, Mac OS X, Linux, Android and iOS in any standard web browser. Importantly, no plugins nor Java are required and therefore Alignment-Anotator represents the first interactive browser-based alignment visualization. http://www.bioinformatics.org/strap/aa/ and http://strap.charite.de/aa/. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

  5. Magnetic alignment and the Poisson alignment reference system

    Science.gov (United States)

    Griffith, L. V.; Schenz, R. F.; Sommargren, G. E.

    1990-08-01

    Three distinct metrological operations are necessary to align a free-electron laser (FEL): the magnetic axis must be located, a straight line reference (SLR) must be generated, and the magnetic axis must be related to the SLR. This article begins with a review of the motivation for developing an alignment system that will assure better than 100-μm accuracy in the alignment of the magnetic axis throughout an FEL. The 100-μm accuracy is an error circle about an ideal axis for 300 m or more. The article describes techniques for identifying the magnetic axes of solenoids, quadrupoles, and wiggler poles. Propagation of a laser beam is described to the extent of revealing sources of nonlinearity in the beam. Development of a straight-line reference based on the Poisson line, a diffraction effect, is described in detail. Spheres in a large-diameter laser beam create Poisson lines and thus provide a necessary mechanism for gauging between the magnetic axis and the SLR. Procedures for installing FEL components and calibrating alignment fiducials to the magnetic axes of the components are also described. The Poisson alignment reference system should be accurate to 25 μm over 300 m, which is believed to be a factor-of-4 improvement over earlier techniques. An error budget shows that only 25% of the total budgeted tolerance is used for the alignment reference system, so the remaining tolerances should fall within the allowable range for FEL alignment.

  6. NACSA Charter School Replication Guide: The Spectrum of Replication Options. Authorizing Matters. Replication Brief 1

    Science.gov (United States)

    O'Neill, Paul

    2010-01-01

    One of the most important and high-profile issues in public education reform today is the replication of successful public charter school programs. With more than 5,000 failing public schools in the United States, there is a tremendous need for strong alternatives for parents and students. Replicating successful charter school models is an…

  7. Temporal high-pass non-uniformity correction algorithm based on grayscale mapping and hardware implementation

    Science.gov (United States)

    Jin, Minglei; Jin, Weiqi; Li, Yiyang; Li, Shuo

    2015-08-01

    In this paper, we propose a novel scene-based non-uniformity correction algorithm for infrared image processing-temporal high-pass non-uniformity correction algorithm based on grayscale mapping (THP and GM). The main sources of non-uniformity are: (1) detector fabrication inaccuracies; (2) non-linearity and variations in the read-out electronics and (3) optical path effects. The non-uniformity will be reduced by non-uniformity correction (NUC) algorithms. The NUC algorithms are often divided into calibration-based non-uniformity correction (CBNUC) algorithms and scene-based non-uniformity correction (SBNUC) algorithms. As non-uniformity drifts temporally, CBNUC algorithms must be repeated by inserting a uniform radiation source which SBNUC algorithms do not need into the view, so the SBNUC algorithm becomes an essential part of infrared imaging system. The SBNUC algorithms' poor robustness often leads two defects: artifacts and over-correction, meanwhile due to complicated calculation process and large storage consumption, hardware implementation of the SBNUC algorithms is difficult, especially in Field Programmable Gate Array (FPGA) platform. The THP and GM algorithm proposed in this paper can eliminate the non-uniformity without causing defects. The hardware implementation of the algorithm only based on FPGA has two advantages: (1) low resources consumption, and (2) small hardware delay: less than 20 lines, it can be transplanted to a variety of infrared detectors equipped with FPGA image processing module, it can reduce the stripe non-uniformity and the ripple non-uniformity.

  8. Orbit Alignment in Triple Stars

    Science.gov (United States)

    Tokovinin, Andrei

    2017-08-01

    The statistics of the angle Φ between orbital angular momenta in hierarchical triple systems with known inner visual or astrometric orbits are studied. A correlation between apparent revolution directions proves the partial orbit alignment known from earlier works. The alignment is strong in triples with outer projected separation less than ∼50 au, where the average Φ is about 20^\\circ . In contrast, outer orbits wider than 1000 au are not aligned with the inner orbits. It is established that the orbit alignment decreases with the increasing mass of the primary component. The average eccentricity of inner orbits in well-aligned triples is smaller than in randomly aligned ones. These findings highlight the role of dissipative interactions with gas in defining the orbital architecture of low-mass triple systems. On the other hand, chaotic dynamics apparently played a role in shaping more massive hierarchies. The analysis of projected configurations and triples with known inner and outer orbits indicates that the distribution of Φ is likely bimodal, where 80% of triples have {{Φ }}< 70^\\circ and the remaining ones are randomly aligned.

  9. International Expansion through Flexible Replication

    DEFF Research Database (Denmark)

    Jonsson, Anna; Foss, Nicolai Juul

    2011-01-01

    to local environments and under the impact of new learning. To illuminate these issues, we draw on a longitudinal in-depth study of Swedish home furnishing giant IKEA, involving more than 70 interviews. We find that IKEA has developed organizational mechanisms that support an ongoing learning process aimed......, etc.) are replicated in a uniform manner across stores, and change only very slowly (if at all) in response to learning (“flexible replication”). We conclude by discussing the factors that influence the approach to replication adopted by an international replicator....

  10. The Psychology of Replication and Replication in Psychology.

    Science.gov (United States)

    Francis, Gregory

    2012-11-01

    Like other scientists, psychologists believe experimental replication to be the final arbiter for determining the validity of an empirical finding. Reports in psychology journals often attempt to prove the validity of a hypothesis or theory with multiple experiments that replicate a finding. Unfortunately, these efforts are sometimes misguided because in a field like experimental psychology, ever more successful replication does not necessarily ensure the validity of an empirical finding. When psychological experiments are analyzed with statistics, the rules of probability dictate that random samples should sometimes be selected that do not reject the null hypothesis, even if an effect is real. As a result, it is possible for a set of experiments to have too many successful replications. When there are too many successful replications for a given set of experiments, a skeptical scientist should be suspicious that null or negative findings have been suppressed, the experiments were run improperly, or the experiments were analyzed improperly. This article describes the implications of this observation and demonstrates how to test for too much successful replication by using a set of experiments from a recent research paper.

  11. Regulation of Replication Recovery and Genome Integrity

    DEFF Research Database (Denmark)

    Colding, Camilla Skettrup

    Preserving genome integrity is essential for cell survival. To this end, mechanisms that supervise DNA replication and respond to replication perturbations have evolved. One such mechanism is the replication checkpoint, which responds to DNA replication stress and acts to ensure replication pausing...

  12. Aligning for Innovation - Alignment Strategy to Drive Innovation

    Science.gov (United States)

    Johnson, Hurel; Teltschik, David; Bussey, Horace, Jr.; Moy, James

    2010-01-01

    With the sudden need for innovation that will help the country achieve its long-term space exploration objectives, the question of whether NASA is aligned effectively to drive the innovation that it so desperately needs to take space exploration to the next level should be entertained. Authors such as Robert Kaplan and David North have noted that companies that use a formal system for implementing strategy consistently outperform their peers. They have outlined a six-stage management systems model for implementing strategy, which includes the aligning of the organization towards its objectives. This involves the alignment of the organization from the top down. This presentation will explore the impacts of existing U.S. industrial policy on technological innovation; assess the current NASA organizational alignment and its impacts on driving technological innovation; and finally suggest an alternative approach that may drive the innovation needed to take the world to the next level of space exploration, with NASA truly leading the way.

  13. Aligning for Innovation - Alignment Strategy to Drive Innovation

    Science.gov (United States)

    Johnson, Hurel; Teltschik, David; Bussey, Horace, Jr.; Moy, James

    2010-01-01

    With the sudden need for innovation that will help the country achieve its long-term space exploration objectives, the question of whether NASA is aligned effectively to drive the innovation that it so desperately needs to take space exploration to the next level should be entertained. Authors such as Robert Kaplan and David North have noted that companies that use a formal system for implementing strategy consistently outperform their peers. They have outlined a six-stage management systems model for implementing strategy, which includes the aligning of the organization towards its objectives. This involves the alignment of the organization from the top down. This presentation will explore the impacts of existing U.S. industrial policy on technological innovation; assess the current NASA organizational alignment and its impacts on driving technological innovation; and finally suggest an alternative approach that may drive the innovation needed to take the world to the next level of space exploration, with NASA truly leading the way.

  14. Magnetic axis alignment and the Poisson alignment reference system

    Science.gov (United States)

    Griffith, Lee V.; Schenz, Richard F.; Sommargren, Gary E.

    1989-01-01

    Three distinct metrological operations are necessary to align a free-electron laser (FEL): the magnetic axis must be located, a straight line reference (SLR) must be generated, and the magnetic axis must be related to the SLR. This paper begins with a review of the motivation for developing an alignment system that will assure better than 100 micrometer accuracy in the alignment of the magnetic axis throughout an FEL. The paper describes techniques for identifying the magnetic axis of solenoids, quadrupoles, and wiggler poles. Propagation of a laser beam is described to the extent of revealing sources of nonlinearity in the beam. Development and use of the Poisson line, a diffraction effect, is described in detail. Spheres in a large-diameter laser beam create Poisson lines and thus provide a necessary mechanism for gauging between the magnetic axis and the SLR. Procedures for installing FEL components and calibrating alignment fiducials to the magnetic axes of the components are also described. An error budget shows that the Poisson alignment reference system will make it possible to meet the alignment tolerances for an FEL.

  15. Effect of Enhancement Technique on Nonuniform and Uniform Ultrasound Images

    Directory of Open Access Journals (Sweden)

    Parveen Lehana

    2015-01-01

    Full Text Available The absence of adequate scientific resources in the area of medical sciences sometimes leads to improper diagnosis of diseases and hence the treatments of such diseases are affected badly. However, with the advancement of technology, the complicacy of various malfunctions inside the human body reduces. Ultrasound imaging is one of the biomedical scanning techniques that let the pathologist make comment reasonably and accurately on the disease or irregularity seen in the scan while low imaging quality lets the diagnosis go wrong. Even a little distortion can route the pathologist away from the main cause of the disease. In this research work, the enhancement of dark ultrasound images has been done. An algorithm is developed using enhancement technique for nonuniform and uniform dark images. Finally, we compared the quality of the processed and unprocessed images. Both ETNUD and mean and median filtering techniques were used for image analysis.

  16. Periodic envelopes of waves over non-uniform depth

    Science.gov (United States)

    Rajan, Girish K.; Bayram, Saziye; Henderson, Diane M.

    2016-04-01

    The envelope of narrow-banded, periodic, surface-gravity waves propagating in one dimension over water of finite, non-uniform depth may be modeled by the Djordjević and Redekopp ["On the development of packets of surface gravity waves moving over an uneven bottom," Z. Angew. Math. Phys. 29, 950-962 (1978)] equation (DRE). Here we find five approximate solutions of the DRE that are in the form of Jacobi-elliptic functions and discuss them within the framework of ocean swell. We find that in all cases, the maximum envelope-amplitude decreases/increases when the wave group propagates on water of decreasing/increasing depth. In the limit of the elliptic modulus approaching one, three of the solutions reduce to the envelope soliton solution. In the limit of the elliptic modulus approaching zero, two of the solutions reduce to an envelope-amplitude that is uniform in an appropriate reference frame.

  17. Multifractal analysis of non-uniformly contracting iterated function systems

    Science.gov (United States)

    Ye, Yuan-Ling

    2017-05-01

    Let X  =  [0,1]. Given a non-uniformly contracting conformal iterated function system (IFS) ≤ft\\{{{w}j}\\right\\}j=1m and a family of positive Dini continuous potential functions ≤ft\\{ {{p}j}\\right\\}j=1m , the triple system ≤ft(X,≤ft\\{{{w}j}\\right\\}j=1m,≤ft\\{ {{p}j}\\right\\}j=1m\\right) , under some conditions, determines uniquely a probability invariant measure, denoted by μ. In this paper, we study the pressure function of the system and multifractal structure of μ. We prove that the pressure function is Gateaux differentiable and the multifractal formalism holds, if the IFS ≤ft\\{{{w}j}\\right\\}j=1m has non-overlapping.

  18. Single image non-uniformity correction using compressive sensing

    Science.gov (United States)

    Jian, Xian-zhong; Lu, Rui-zhi; Guo, Qiang; Wang, Gui-pu

    2016-05-01

    A non-uniformity correction (NUC) method for an infrared focal plane array imaging system was proposed. The algorithm, based on compressive sensing (CS) of single image, overcame the disadvantages of "ghost artifacts" and bulk calculating costs in traditional NUC algorithms. A point-sampling matrix was designed to validate the measurements of CS on the time domain. The measurements were corrected using the midway infrared equalization algorithm, and the missing pixels were solved with the regularized orthogonal matching pursuit algorithm. Experimental results showed that the proposed method can reconstruct the entire image with only 25% pixels. A small difference was found between the correction results using 100% pixels and the reconstruction results using 40% pixels. Evaluation of the proposed method on the basis of the root-mean-square error, peak signal-to-noise ratio, and roughness index (ρ) proved the method to be robust and highly applicable.

  19. Vacuum polarisation in some static nonuniform magnetic fields

    Energy Technology Data Exchange (ETDEWEB)

    Calucci, G. [Trieste Univ. (Italy). Dip. di Fisica Teorica]|[INFN, Trieste (Italy)

    1995-11-01

    Vacuum polarisation in QED in presence of some configurations of external magnetic fields is investigated. The configuration considered correspond to fields is investigated. The configuration considered correspond to fields lying in a plane and without sources. The motion of a Dirac electron in this field configuration is studied and arguments are found to conclude that the lowest level gives the most important contribution. The result is that the main effect is not very different from the uniform case, the possibilities of calculating the corrections due to the uniformity is explicitly shown. A typical effect of nonuniformity of the field shows out in the refractivity of the field shows out in the refractivity of the vacuum.

  20. A Thermal Field Theory with Non-uniform Chemical Potential

    CERN Document Server

    Arai, Masato; Sasaki, Shin

    2013-01-01

    We investigate thermal one-loop effective potentials in multi-flavor models with chemical potentials. We study four-dimensional models in which each flavor have different global U(1) charges. Accordingly they have different chemical potentials. We call these "non-uniform chemical potentials," which are organized into a diagonal matrix \\mu. The mass matrix at a vacuum does not commute with \\mu. We find that the effective potential is divided into three parts. The first part is the Coleman-Weinberg potential. The UV divergence resides only in this part. The second is the correction to the Coleman-Weinberg potential that is independent of temperature, and the third depends on both temperature and \\mu. Our result is a generalization of the thermal potentials in previous studies for models with single and multi-flavors with (uniform) chemical potentials and reproduces all the known results correctly.

  1. Higher order mode propagation in nonuniform circular ducts

    Science.gov (United States)

    Cho, Y. C.; Ingard, K. U.

    1980-01-01

    This paper presents an analytical investigation of higher order mode propagation in a nonuniform circular duct without mean flow. An approximate wave equation is derived on the assumptions that the duct cross section varies slowly and that mode conversion is negligible. Exact closed form solutions are obtained for a particular class of converging-diverging circular duct which is here referred to as 'circular cosh duct'. Numerical results are presentd in terms of the transmission loss for the various duct shapes and frequencies. The results are applicable to studies of multimodal propagation as well as single mode propagation. The results are also applicable to studies of sound radiation from certain types of contoured inlet ducts, or of sound propagation in a converging-diverging duct of somewhat different shape from a cosh duct.

  2. Langevin Simulation of Non-Uniform Granular Gases

    Institute of Scientific and Technical Information of China (English)

    张端明; 雷雅洁; 潘贵军; 郁伯铭

    2003-01-01

    We present and study a fractal model of a non-uniform granular system for the first time, based on which we numerically solve the dynamics actions in the system successfully in one-dimensional case. The multi-mixture is composed of N different particles, whose granularity distribution has the fractal characteristic. The particles are subject to inelastic mutual collisions and obey to Langevin equation between collisions. Far from the equilibrium,i.e. the given typical relaxation time T of the driving Brownian process is much larger than the mean collision time Tc, the results of simulation indicate that the degree of inhomogeneity in the granularity distribution signed by the fractal dimension D of size distribution has great influence on the dynamics actions of the system. The velocity distribution deviates obviously from the Gaussian distribution and the particles cluster more pronouncedly with the larger value of D in the system. The velocity distribution and spatial clusterization change with D are presented.

  3. The study of synchronization in the periodic nonuniform folded waveguide

    Institute of Scientific and Technical Information of China (English)

    Xu Ao; Wang Wen-Xiang; Wei Yan-Yu; Gong Yu-Bin

    2009-01-01

    The periodic nonuniform folded waveguides are special structures, the physical dimension of which is between the periodic folded waveguide and the tapering period folded waveguide. Therefore, the synchronization between the microwave and the electron beam can be maintained in the whole interaction process and the periods are not tapered.In comparison with the tapering period folded waveguide, the theoretical analysis and the technological requirements for this structure are more convenient. In order to study this structure, the space harmonics are analysed, the conditions to make the m-th space harmonic synchronizing with the electron beam in the whole interaction process are present,and the dispersion curve and the coupling impedance curve axe obtained by the simulation software HFSS.

  4. Leveraging Non-Uniform Resources for Parallel Query Processing

    DEFF Research Database (Denmark)

    Mayr, Tobias; Bonnet, Philippe; Gehrke, Johannes;

    2003-01-01

    of existing parallel database systems. We show in this paper that dataflow parallelism alone is ill suited for modular clusters because running the same operation on different subsets of the data can not fully utilize non-uniform hardware resources. We propose and evaluate new load balancing techniques......Modular clusters are now composed of non- uniform nodes with different CPUs, disks or network cards so that customers can adapt the cluster configuration to the changing technologies and to their changing needs. This challenges dataflow parallelism as the primary load balancing technique...... that confirms the feasibility and effectiveness of the new techniques in a parallel execution engine prototype based on the open-source DBMS Predator....

  5. Time-Stampless Adaptive Nonuniform Sampling for Stochastic Signals

    Science.gov (United States)

    Feizi, Soheil; Goyal, Vivek K.; Medard, Muriel

    2012-10-01

    In this paper, we introduce a time-stampless adaptive nonuniform sampling (TANS) framework, in which time increments between samples are determined by a function of the $m$ most recent increments and sample values. Since only past samples are used in computing time increments, it is not necessary to save sampling times (time stamps) for use in the reconstruction process. We focus on two TANS schemes for discrete-time stochastic signals: a greedy method, and a method based on dynamic programming. We analyze the performances of these schemes by computing (or bounding) their trade-offs between sampling rate and expected reconstruction distortion for autoregressive and Markovian signals. Simulation results support the analysis of the sampling schemes. We show that, by opportunistically adapting to local signal characteristics, TANS may lead to improved power efficiency in some applications.

  6. Time-Stampless Adaptive Nonuniform Sampling for Stochastic Signals

    CERN Document Server

    Feizi, Soheil; Medard, Muriel

    2011-01-01

    In this paper, we introduce a time-stampless adaptive nonuniform sampling (TANS) framework, in which time increments between samples are determined by a function of the $m$ most recent increments and sample values. Since only past samples are used in computing time increments, it is not necessary to save sampling times (time stamps) for use in the reconstruction process. We focus on two TANS schemes for discrete-time stochastic signals: a greedy method, and a method based on dynamic programming. We analyze the performances of these schemes by computing (or bounding) their trade-offs between sampling rate and expected reconstruction distortion for autoregressive and Markovian signals. Simulation results support the analysis of the sampling schemes. We show that, by opportunistically adapting to local signal characteristics, TANS may lead to improved power efficiency in some applications.

  7. Highly Deformed Non-uniform Black Strings in Six Dimensions

    CERN Document Server

    Kalisch, Michael

    2015-01-01

    We construct numerically static non-uniform black string solutions in six dimensions by using pseudo-spectral methods. An appropriately designed adaptation of the methods in regard of the specific behaviour of the field quantities in the vicinity of our numerical boundaries provides us with extremely accurate results, that allows us to get solutions with an unprecedented deformation of the black string horizon. Consequently, we are able to investigate in detail a critical regime within a suitable parameter diagram. In particular, we observe a clearly pronounced maximum in the mass curve, which is in accordance with the results of Kleihaus, Kunz and Radu from 2006. Interestingly, by looking at extremely distorted black strings, we find two further turning points of the mass, resulting in a spiral curve in the black string's phase diagram.

  8. THE INFLUENCE OF NONUNIFORM CLOUD COVER ON TRANSIT TRANSMISSION SPECTRA

    Energy Technology Data Exchange (ETDEWEB)

    Line, Michael R. [NASA Ames Research Center, Moffet Field, CA 94035 (United States); Parmentier, Vivien, E-mail: mrline@ucsc.edu [Department of Astronomy and Astrophysics, University of California–Santa Cruz, 1156 High Street, Santa Cruz, CA 95064 (United States)

    2016-03-20

    We model the impact of nonuniform cloud cover on transit transmission spectra. Patchy clouds exist in nearly every solar system atmosphere, brown dwarfs, and transiting exoplanets. Our major findings suggest that fractional cloud coverage can exactly mimic high mean molecular weight atmospheres and vice versa over certain wavelength regions, in particular, over the Hubble Space Telescope (HST) Wide Field Camera 3 (WFC3) bandpass (1.1–1.7 μm). We also find that patchy cloud coverage exhibits a signature that is different from uniform global clouds. Furthermore, we explain analytically why the “patchy cloud-high mean molecular weight” degeneracy exists. We also explore the degeneracy of nonuniform cloud coverage in atmospheric retrievals on both synthetic and real planets. We find from retrievals on a synthetic solar composition hot Jupiter with patchy clouds and a cloud-free high mean molecular weight warm Neptune that both cloud-free high mean molecular weight atmospheres and partially cloudy atmospheres can explain the data equally well. Another key finding is that the HST WFC3 transit transmission spectra of two well-observed objects, the hot Jupiter HD 189733b and the warm Neptune HAT-P-11b, can be explained well by solar composition atmospheres with patchy clouds without the need to invoke high mean molecular weight or global clouds. The degeneracy between high molecular weight and solar composition partially cloudy atmospheres can be broken by observing the molecular Rayleigh scattering differences between the two. Furthermore, the signature of partially cloudy limbs also appears as a ∼100 ppm residual in the ingress and egress of the transit light curves, provided that the transit timing is known to seconds.

  9. ELECTRICALLY FORCED VIBRATION OF A THICKNESS-TWIST MODE PIEZOELECTRIC RESONATOR WITH NON-UNIFORM ELECTRODES

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    We study the effect of electrodes with varying thickness on thickness-twist vibration of a piezoelectric plate resonator of crystals of 6 mm symmetry. An exact theoretical analysis is performed. Results show that non-uniform electrodes have a strong effect on mode shapes, and suggest the possibility of using nonuniform electrodes for strong energy trapping.

  10. Subband image coding using filter banks with non-uniform passband distribution

    OpenAIRE

    Lu, Xiqun; Chen, Li; Chan, KwokPing

    1997-01-01

    In this paper, subband filter banks with non-uniform passband distribution in frequency domain are studied. Several design examples are presented and compared with conventional uniform bandwidth filter banks. Image coding results show that filter banks with non-uniform bandwidth outperform filter banks with uniform bandwidth, especially in low bit rate coding.

  11. Mathematical simulation application for research of nonuniform distributed-parameter circuit transients

    Science.gov (United States)

    Kuleshova, E. O.; Plyusnin, A. A.; Shandarova, E. B.; Tikhomirova, O. V.

    2016-04-01

    This paper considers the simulation capability of nonuniform distributed-parameter circuit transients by using MatLab Simulink. This approach is capable of determining currents and voltages of nodes for power networks of any configurations and modes. The paper contains results of nonuniform line simulations in idle, short-circuit and load modes.

  12. Biomarkers of replicative senescence revisited

    DEFF Research Database (Denmark)

    Nehlin, Jan

    2016-01-01

    Biomarkers of replicative senescence can be defined as those ultrastructural and physiological variations as well as molecules whose changes in expression, activity or function correlate with aging, as a result of the gradual exhaustion of replicative potential and a state of permanent cell cycle...... with their chronological age and present health status, help define their current rate of aging and contribute to establish personalized therapy plans to reduce, counteract or even avoid the appearance of aging biomarkers....

  13. Adaptive Neuro-Fuzzy Modeling of Mechanical Behavior for Vertically Aligned Carbon Nanotube Turfs

    Institute of Scientific and Technical Information of China (English)

    Mohammad A1-Khedher; Charles Pezeshki; Jeanne McHale; GFritz Knorr

    2011-01-01

    Several characterization methods have been developed to investigate the mechanical and structural properties of vertically aligned carbon nanotubes (VACNTs). Establishing analytical models at nanoscale to interpret these properties is complicated due to the nonuniformity and irregularity in quality of as-grown samples.In this paper, we propose a new methodology to investigate the correlation between indentation resistance of multi-wall carbon nanotube (MWCNT) turfs, Raman spectra and the geometrical properties of the turf structure using adaptive neuro-fuzzy phenomenological modeling. This methodology yields a novel approach for modeling at the nanoscale by evaluating the effect of structural morphologies on nanomaterial properties using Raman spectroscopy.

  14. Nucleotide Metabolism and DNA Replication.

    Science.gov (United States)

    Warner, Digby F; Evans, Joanna C; Mizrahi, Valerie

    2014-10-01

    The development and application of a highly versatile suite of tools for mycobacterial genetics, coupled with widespread use of "omics" approaches to elucidate the structure, function, and regulation of mycobacterial proteins, has led to spectacular advances in our understanding of the metabolism and physiology of mycobacteria. In this article, we provide an update on nucleotide metabolism and DNA replication in mycobacteria, highlighting key findings from the past 10 to 15 years. In the first section, we focus on nucleotide metabolism, ranging from the biosynthesis, salvage, and interconversion of purine and pyrimidine ribonucleotides to the formation of deoxyribonucleotides. The second part of the article is devoted to DNA replication, with a focus on replication initiation and elongation, as well as DNA unwinding. We provide an overview of replication fidelity and mutation rates in mycobacteria and summarize evidence suggesting that DNA replication occurs during states of low metabolic activity, and conclude by suggesting directions for future research to address key outstanding questions. Although this article focuses primarily on observations from Mycobacterium tuberculosis, it is interspersed, where appropriate, with insights from, and comparisons with, other mycobacterial species as well as better characterized bacterial models such as Escherichia coli. Finally, a common theme underlying almost all studies of mycobacterial metabolism is the potential to identify and validate functions or pathways that can be exploited for tuberculosis drug discovery. In this context, we have specifically highlighted those processes in mycobacterial DNA replication that might satisfy this critical requirement.

  15. Plasmid Rolling-Circle Replication.

    Science.gov (United States)

    Ruiz-Masó, J A; MachóN, C; Bordanaba-Ruiseco, L; Espinosa, M; Coll, M; Del Solar, G

    2015-02-01

    Plasmids are DNA entities that undergo controlled replication independent of the chromosomal DNA, a crucial step that guarantees the prevalence of the plasmid in its host. DNA replication has to cope with the incapacity of the DNA polymerases to start de novo DNA synthesis, and different replication mechanisms offer diverse solutions to this problem. Rolling-circle replication (RCR) is a mechanism adopted by certain plasmids, among other genetic elements, that represents one of the simplest initiation strategies, that is, the nicking by a replication initiator protein on one parental strand to generate the primer for leading-strand initiation and a single priming site for lagging-strand synthesis. All RCR plasmid genomes consist of a number of basic elements: leading strand initiation and control, lagging strand origin, phenotypic determinants, and mobilization, generally in that order of frequency. RCR has been mainly characterized in Gram-positive bacterial plasmids, although it has also been described in Gram-negative bacterial or archaeal plasmids. Here we aim to provide an overview of the RCR plasmids' lifestyle, with emphasis on their characteristic traits, promiscuity, stability, utility as vectors, etc. While RCR is one of the best-characterized plasmid replication mechanisms, there are still many questions left unanswered, which will be pointed out along the way in this review.

  16. RF Jitter Modulation Alignment Sensing

    Science.gov (United States)

    Ortega, L. F.; Fulda, P.; Diaz-Ortiz, M.; Perez Sanchez, G.; Ciani, G.; Voss, D.; Mueller, G.; Tanner, D. B.

    2017-01-01

    We will present the numerical and experimental results of a new alignment sensing scheme which can reduce the complexity of alignment sensing systems currently used, while maintaining the same shot noise limited sensitivity. This scheme relies on the ability of electro-optic beam deflectors to create angular modulation sidebands in radio frequency, and needs only a single-element photodiode and IQ demodulation to generate error signals for tilt and translation degrees of freedom in one dimension. It distances itself from current techniques by eliminating the need for beam centering servo systems, quadrant photodetectors and Gouy phase telescopes. RF Jitter alignment sensing can be used to reduce the complexity in the alignment systems of many laser optical experiments, including LIGO and the ALPS experiment.

  17. Control of fuel target implosion non-uniformity in heavy ion inertial fusion

    CERN Document Server

    Iinuma, T; Kondo, S; Kubo, T; Kato, H; Suzuki, T; Kawata, S; Ogoyski, A I

    2016-01-01

    In inertial fusion, one of scientific issues is to reduce an implosion non-uniformity of a spherical fuel target. The implosion non-uniformity is caused by several factors, including the driver beam illumination non-uniformity, the Rayleigh-Taylor instability (RTI) growth, etc. In this paper we propose a new control method to reduce the implosion non-uniformity; the oscillating implosion acceleration dg(t) is created by pulsating and dephasing heavy ion beams (HIBs) in heavy ion inertial fusion (HIF). The dg(t) would reduce the RTI growth effectively. The original concept of the non- uniformity control in inertial fusion was proposed in (Kawata, et al., 1993). In this paper it was found that the pulsating and dephasing HIBs illumination provide successfully the controlled dg(t) and that dg(t) induced by the pulsating HIBs reduces well the implosion non-uniformity. Consequently the pulsating HIBs improve a pellet gain remarkably in HIF.

  18. Electromagnetic performance analysis of reflector antennas with non-uniform errors along radius

    Institute of Scientific and Technical Information of China (English)

    Peiyuan Lian; Congsi Wang; Wei Wang; Binbin Xiang

    2016-01-01

    Based on the works of Greve and Rahmat-Sami , the electromagnetic (EM) performance of the reflector antenna with non-uniform surface errors along radius is further addressed. A mathematical model is developed to describe the weighting func-tion for the non-uniform surface errors along radius. Then, some discussions on the peak gain loss (PGL) and the first sidelobe level increase (SLLI) caused by the non-uniform surface errors are presented and several significant radiation characteristics of the reflector with non-uniform errors are pointed out. Last, based on the proposed model, the weighted root mean square (RMS) value of the surface errors is produced to evaluate the EM performance and several representative cases with different non-uniform errors are presented with good results. Results show that the weighted RMS value should be taken into account for a better quality evalu-ation of the reflector surface.

  19. VARIABLE NON-UNIFORM QUANTIZED BELIEF PROPAGATION ALGORITHM FOR LDPC DECODING

    Institute of Scientific and Technical Information of China (English)

    Liu Binbin; Bai Dong; Mei Shunliang

    2008-01-01

    Non-uniform quantization for messages in Low-Density Parity-Check (LDPC) decoding can reduce implementation complexity and mitigate performance loss. But the distribution of messages varies in the iterative decoding. This letter proposes a variable non-uniform quantized Belief Propaga- tion (BP) algorithm. The BP decoding is analyzed by density evolution with Gaussian approximation. Since the probability density of messages can be well approximated by Gaussian distribution, by the unbiased estimation of variance, the distribution of messages can be tracked during the iteration. Thus the non-uniform quantization scheme can be optimized to minimize the distortion. Simulation results show that the variable non-uniform quantization scheme can achieve better error rate performance and faster decoding convergence than the conventional non-uniform quantization and uniform quantization schemes.

  20. Evaluating strategies to normalise biological replicates of Western blot data.

    Science.gov (United States)

    Degasperi, Andrea; Birtwistle, Marc R; Volinsky, Natalia; Rauch, Jens; Kolch, Walter; Kholodenko, Boris N

    2014-01-01

    Western blot data are widely used in quantitative applications such as statistical testing and mathematical modelling. To ensure accurate quantitation and comparability between experiments, Western blot replicates must be normalised, but it is unclear how the available methods affect statistical properties of the data. Here we evaluate three commonly used normalisation strategies: (i) by fixed normalisation point or control; (ii) by sum of all data points in a replicate; and (iii) by optimal alignment of the replicates. We consider how these different strategies affect the coefficient of variation (CV) and the results of hypothesis testing with the normalised data. Normalisation by fixed point tends to increase the mean CV of normalised data in a manner that naturally depends on the choice of the normalisation point. Thus, in the context of hypothesis testing, normalisation by fixed point reduces false positives and increases false negatives. Analysis of published experimental data shows that choosing normalisation points with low quantified intensities results in a high normalised data CV and should thus be avoided. Normalisation by sum or by optimal alignment redistributes the raw data uncertainty in a mean-dependent manner, reducing the CV of high intensity points and increasing the CV of low intensity points. This causes the effect of normalisations by sum or optimal alignment on hypothesis testing to depend on the mean of the data tested; for high intensity points, false positives are increased and false negatives are decreased, while for low intensity points, false positives are decreased and false negatives are increased. These results will aid users of Western blotting to choose a suitable normalisation strategy and also understand the implications of this normalisation for subsequent hypothesis testing.

  1. Calibration of shaft alignment instruments

    Science.gov (United States)

    Hemming, Bjorn

    1998-09-01

    Correct shaft alignment is vital for most rotating machines. Several shaft alignment instruments, ranging form dial indicator based to laser based, are commercially available. At VTT Manufacturing Technology a device for calibration of shaft alignment instruments was developed during 1997. A feature of the developed device is the similarity to the typical use of shaft alignment instruments i.e. the rotation of two shafts during the calibration. The benefit of the rotation is that all errors of the shaft alignment instrument, for example the deformations of the suspension bars, are included. However, the rotation increases significantly the uncertainty of calibration because of errors in the suspension of the shafts in the developed device for calibration of shaft alignment instruments. Without rotation the uncertainty of calibration is 0.001 mm for the parallel offset scale and 0,003 mm/m for the angular scale. With rotation the uncertainty of calibration is 0.002 mm for the scale and 0.004 mm/m for the angular scale.

  2. Sensing Characteristics of A Precision Aligner Using Moire Gratings for Precision Alignment System

    Institute of Scientific and Technical Information of China (English)

    ZHOU Lizhong; Hideo Furuhashi; Yoshiyuki Uchida

    2001-01-01

    Sensing characteristics of a precision aligner using moire gratings for precision alignment sysem has been investigated. A differential moire alignment system and a modified alignment system were used. The influence of the setting accuracy of the gap length and inclination of gratings on the alignment accuracy has been studied experimentally and theoretically. Setting accuracy of the gap length less than 2.5μm is required in modified moire alignment. There is no influence of the gap length on the alignment accuracy in the differential alignment system. The inclination affects alignment accuracies in both differential and modified moire alignment systems.

  3. Some Analytical Properties of the Model for Stochastic Evolutionary Games in Finite Populations with Non-uniform Interaction Rate

    Institute of Scientific and Technical Information of China (English)

    QUAN Ji; WANG Xian-Jia

    2013-01-01

    Traditional evolutionary games assume uniform interaction rate,which means that the rate at which individuals meet and interact is independent of their strategies.But in some systems,especially biological systems,the players interact with each other discriminately.Taylor and Nowak (2006) were the first to establish the corresponding non-uniform interaction rate model by allowing the interaction rates to depend on strategies.Their model is based on replicator dynamics which assumes an infinite size population.But in reality,the number of individuals in the population is always finite,and there will be some random interference in the individuals' strategy selection process.Therefore,it is more practical to establish the corresponding stochastic evolutionary model in finite populations.In fact,the analysis of evolutionary games in a finite size population is more difficult.Just as Taylor and Nowak said in the outlook section of their paper,"The analysis of non-uniform interaction rates should be extended to stochastic game dynamics of finite populations." In this paper,we are exactly doing this work.We extend Taylor and Nowak's model from infinite to finite case,especially focusing on the influence of non-uniform connection characteristics on the evolutionary stable state of the system.We model the strategy evolutionary process of the population by a continuous ergodic Markov process.Based on the fimit distribution of the process,we can give the evolutionary stable state of the system.We make a complete classification of the symmetric 2 × 2 games.For each case game,the corresponding limit distribution of the Markov-based process is given when noise intensity is small enough.In contrast with most literatures in evolutionary games using the simulation method,all our results obtained are analytical.Especially,in the dominant-case game,coexistence of the two strategies may become evolutionary stable states in our model.This result can be used to explain the emergence of

  4. Liquid jets injected into non-uniform crossflow

    Science.gov (United States)

    Tambe, Samir

    An experimental study has been conducted with liquid jets injected transversely into a crossflow to study the effect of non-uniformities in the crossflow velocity distribution to the jet behavior. Two different non-uniform crossflows were created during this work, a shear-laden crossflow and a swirling crossflow. The shear-laden crossflow was generated by merging two independent, co-directional, parallel airstreams creating a shear mixing layer at the interface between them. The crossflow exhibited a quasi-linear velocity gradient across the height of the test chamber. By varying the velocities of the two airstreams, the sense and the slope of the crossflow velocity gradient could be changed. Particle Image Velocimetry (PIV) studies were conducted to characterize the crossflow. The parameter, UR, is defined as the ratio of the velocities of the two streams and governs the velocity gradient. A positive velocity gradient was observed for UR > 1 and a negative velocity gradient for UR 1), jet penetration increased and the Sauter Mean Diameter (SMD) distribution became more uniform. For low UR (designed axial swirlers. Three swirlers were used, with vane exit angles of 30°, 45° and 60°. Laser Doppler Velocimetry (LDV) was used to study the crossflow velocities. The axial (Ux) and the tangential (Utheta) components of the crossflow velocity were observed to decrease with increasing radial distance away from the centerbody. The flow angle of the crossflow was smaller than the vane exit angle, with the difference increasing with the vane exit angle. Water jets were injected from a 0.5 mm diameter orifice located on a cylindrical centerbody. Multi-plane PIV measurements were conducted to study the penetration and droplet velocity distribution of the jets. The jets were observed to follow a path close to the helical trajectory of the crossflow with a flow angle slightly less than the crossflow. This deficit in flow angle is attributed to the centrifugal acceleration

  5. Degradation nonuniformity in the solar diffuser bidirectional reflectance distribution function.

    Science.gov (United States)

    Sun, Junqiang; Chu, Mike; Wang, Menghua

    2016-08-01

    The assumption of angular dependence stability of the solar diffuser (SD) throughout degradation is critical to the on-orbit calibration of the reflective solar bands (RSBs) in many satellite sensors. Recent evidence has pointed to the contrary, and in this work, we present a thorough investigative effort into the angular dependence of the SD degradation for the Visible Infrared Imaging Radiometer Suite (VIIRS) onboard the Suomi National Polar-orbiting Partnership (SNPP) satellite and for the twin Moderate-resolution Imaging Spectroradiometer (MODIS) onboard Terra and Aqua spacecrafts. One common key step in the RSB calibration is the use of the SD degradation performance measured by an accompanying solar diffuser stability monitor (SDSM) as a valid substitute for the SD degradation factor in the direction of the RSB view. If SD degradations between these two respective directions do not maintain the same relative relationship over time, then the unmitigated use of the SDSM-measured SD degradation factor in the RSB calibration calculation will generate bias, and consequently, long-term drift in derived science products. We exploit the available history of the on-orbit calibration events to examine the response of the SDSM and the RSB detectors to the incident illumination reflecting off SD versus solar declination angle and show that the angular dependency, particularly at short wavelengths, evolves with respect to time. The generalized and the decisive conclusion is that the bidirectional reflectance distribution function (BRDF) of the SD degrades nonuniformly with respect to both incident and outgoing directions. Thus, the SDSM-based measurements provide SD degradation factors that are biased relative to the RSB view direction with respect to the SD. The analysis also reveals additional interesting phenomena, for example, the sharp behavioral change in the evolving angular dependence observed in Terra MODIS and SNPP VIIRS. For SNPP VIIRS the mitigation for this

  6. DIDA: Distributed Indexing Dispatched Alignment.

    Directory of Open Access Journals (Sweden)

    Hamid Mohamadi

    Full Text Available One essential application in bioinformatics that is affected by the high-throughput sequencing data deluge is the sequence alignment problem, where nucleotide or amino acid sequences are queried against targets to find regions of close similarity. When queries are too many and/or targets are too large, the alignment process becomes computationally challenging. This is usually addressed by preprocessing techniques, where the queries and/or targets are indexed for easy access while searching for matches. When the target is static, such as in an established reference genome, the cost of indexing is amortized by reusing the generated index. However, when the targets are non-static, such as contigs in the intermediate steps of a de novo assembly process, a new index must be computed for each run. To address such scalability problems, we present DIDA, a novel framework that distributes the indexing and alignment tasks into smaller subtasks over a cluster of compute nodes. It provides a workflow beyond the common practice of embarrassingly parallel implementations. DIDA is a cost-effective, scalable and modular framework for the sequence alignment problem in terms of memory usage and runtime. It can be employed in large-scale alignments to draft genomes and intermediate stages of de novo assembly runs. The DIDA source code, sample files and user manual are available through http://www.bcgsc.ca/platform/bioinfo/software/dida. The software is released under the British Columbia Cancer Agency License (BCCA, and is free for academic use.

  7. Defects of mitochondrial DNA replication.

    Science.gov (United States)

    Copeland, William C

    2014-09-01

    Mitochondrial DNA is replicated by DNA polymerase γ in concert with accessory proteins such as the mitochondrial DNA helicase, single-stranded DNA binding protein, topoisomerase, and initiating factors. Defects in mitochondrial DNA replication or nucleotide metabolism can cause mitochondrial genetic diseases due to mitochondrial DNA deletions, point mutations, or depletion, which ultimately cause loss of oxidative phosphorylation. These genetic diseases include mitochondrial DNA depletion syndromes such as Alpers or early infantile hepatocerebral syndromes, and mitochondrial DNA deletion disorders, such as progressive external ophthalmoplegia, ataxia-neuropathy, or mitochondrial neurogastrointestinal encephalomyopathy. This review focuses on our current knowledge of genetic defects of mitochondrial DNA replication (POLG, POLG2, C10orf2, and MGME1) that cause instability of mitochondrial DNA and mitochondrial disease.

  8. Regulation of beta cell replication

    DEFF Research Database (Denmark)

    Lee, Ying C; Nielsen, Jens Høiriis

    2008-01-01

    Beta cell mass, at any given time, is governed by cell differentiation, neogenesis, increased or decreased cell size (cell hypertrophy or atrophy), cell death (apoptosis), and beta cell proliferation. Nutrients, hormones and growth factors coupled with their signalling intermediates have been...... suggested to play a role in beta cell mass regulation. In addition, genetic mouse model studies have indicated that cyclins and cyclin-dependent kinases that determine cell cycle progression are involved in beta cell replication, and more recently, menin in association with cyclin-dependent kinase...... inhibitors has been demonstrated to be important in beta cell growth. In this review, we consider and highlight some aspects of cell cycle regulation in relation to beta cell replication. The role of cell cycle regulation in beta cell replication is mostly from studies in rodent models, but whether...

  9. Shell Separation for Mirror Replication

    Science.gov (United States)

    1999-01-01

    NASA's Space Optics Manufacturing Center has been working to expand our view of the universe via sophisticated new telescopes. The Optics Center's goal is to develop low-cost, advanced space optics technologies for the NASA program in the 21st century - including the long-term goal of imaging Earth-like planets in distant solar systems. To reduce the cost of mirror fabrication, Marshall Space Flight Center (MSFC) has developed replication techniques, the machinery, and materials to replicate electro-formed nickel mirrors. Optics replication uses reusable forms, called mandrels, to make telescope mirrors ready for final finishing. MSFC optical physicist Bill Jones monitors a device used to chill a mandrel, causing it to shrink and separate from the telescope mirror without deforming the mirror's precisely curved surface.

  10. Further Development of Ko Displacement Theory for Deformed Shape Predictions of Nonuniform Aerospace Structures

    Science.gov (United States)

    Ko, William L.; Fleischer, Van Tran

    2009-01-01

    The Ko displacement theory previously formulated for deformed shape predictions of nonuniform beam structures is further developed mathematically. The further-developed displacement equations are expressed explicitly in terms of geometrical parameters of the beam and bending strains at equally spaced strain-sensing stations along the multiplexed fiber-optic sensor line installed on the bottom surface of the beam. The bending strain data can then be input into the displacement equations for calculations of local slopes, deflections, and cross-sectional twist angles for generating the overall deformed shapes of the nonuniform beam. The further-developed displacement theory can also be applied to the deformed shape predictions of nonuniform two-point supported beams, nonuniform panels, nonuniform aircraft wings and fuselages, and so forth. The high degree of accuracy of the further-developed displacement theory for nonuniform beams is validated by finite-element analysis of various nonuniform beam structures. Such structures include tapered tubular beams, depth-tapered unswept and swept wing boxes, width-tapered wing boxes, and double-tapered wing boxes, all under combined bending and torsional loads. The Ko displacement theory, combined with the fiber-optic strain-sensing system, provide a powerful tool for in-flight deformed shape monitoring of unmanned aerospace vehicles by ground-based pilots to maintain safe flights.

  11. Correction of multi-spectral MRI intensity non-uniformity via spatially regularized feature condensing

    Science.gov (United States)

    Vovk, Uros; Pernus, Franjo; Likar, Bostjan

    2003-05-01

    In MRI, image intensity non-uniformity is an adverse phenomenon that increases inter-tissue overlapping. The aim of this study was to provide a novel general framework, named regularized feature condensing (RFC), for condensing the distribution of image features and apply it to correct intensity non-uniformity via spatial regularization. The proposed RCF method is an iterative procedure, which consists of four basic steps. First, creation of a feature space, which consists of multi-spectral image intensities and corresponding second derivatives. Second, estimation of the intensity condensing map in feature space, i.e. the estimation of the increase of feature probability densities by a well-established mean shift procedure. Third, regularization of intensity condensing map in image space, which yields the estimation of intensity non-uniformity. Fourth, applying the estimation of non-uniformity correction to the input image. In this way, the intensity distributions of distinct tissues are gradually condensed via spatial regularization. The method was tested on simulated and real MR brain images for which gold standard segmentations were available. The results showed that the method did not induce additional intensity variations in simulated uniform images and efficiently removed intensity non-uniformity in real MR brain images. The proposed RCF method is a powerful fully automated intensity non-uniformity correction method that makes no a prior assumptions on the image intensity distribution and provides non-parametric non-uniformity correction.

  12. General Alignment Concept of the CMS experiment

    CERN Document Server

    Lampen, T

    2006-01-01

    Efficient and accurate track reconstruction requires proper alignment of the tracking devices used. Here we describe the general alignment strategy envisaged for the CMS experiment. The hardware alignment devices of CMS are presented as well as the different track based alignment approaches.

  13. Photosensitive Polymers for Liquid Crystal Alignment

    Science.gov (United States)

    Mahilny, U. V.; Stankevich, A. I.; Trofimova, A. V.; Muravsky, A. A.; Murauski, A. A.

    The peculiarities of alignment of liquid crystal (LC) materials by the layers of photocrosslinkable polymers with side benzaldehyde groups are considered. The investigation of mechanism of photostimulated alignment by rubbed benzaldehyde layer is performed. The methods of creation of multidomain aligning layers on the basis of photostimulated rubbing alignment are described.

  14. Personality and Academic Motivation: Replication, Extension, and Replication

    Science.gov (United States)

    Jones, Martin H.; McMichael, Stephanie N.

    2015-01-01

    Previous work examines the relationships between personality traits and intrinsic/extrinsic motivation. We replicate and extend previous work to examine how personality may relate to achievement goals, efficacious beliefs, and mindset about intelligence. Approximately 200 undergraduates responded to the survey with a 150 participants replicating…

  15. Alignment method for parabolic trough solar concentrators

    Science.gov (United States)

    Diver, Richard B [Albuquerque, NM

    2010-02-23

    A Theoretical Overlay Photographic (TOP) alignment method uses the overlay of a theoretical projected image of a perfectly aligned concentrator on a photographic image of the concentrator to align the mirror facets of a parabolic trough solar concentrator. The alignment method is practical and straightforward, and inherently aligns the mirror facets to the receiver. When integrated with clinometer measurements for which gravity and mechanical drag effects have been accounted for and which are made in a manner and location consistent with the alignment method, all of the mirrors on a common drive can be aligned and optimized for any concentrator orientation.

  16. Adaptive Processing for Sequence Alignment

    KAUST Repository

    Zidan, Mohammed Affan

    2012-01-26

    Disclosed are various embodiments for adaptive processing for sequence alignment. In one embodiment, among others, a method includes obtaining a query sequence and a plurality of database sequences. A first portion of the plurality of database sequences is distributed to a central processing unit (CPU) and a second portion of the plurality of database sequences is distributed to a graphical processing unit (GPU) based upon a predetermined splitting ratio associated with the plurality of database sequences, where the database sequences of the first portion are shorter than the database sequences of the second portion. A first alignment score for the query sequence is determined with the CPU based upon the first portion of the plurality of database sequences and a second alignment score for the query sequence is determined with the GPU based upon the second portion of the plurality of database sequences.

  17. Laser shaft alignment measurement model

    Science.gov (United States)

    Mo, Chang-tao; Chen, Changzheng; Hou, Xiang-lin; Zhang, Guoyu

    2007-12-01

    Laser beam's track which is on photosensitive surface of the a receiver will be closed curve, when driving shaft and the driven shaft rotate with same angular velocity and rotation direction. The coordinate of arbitrary point which is on the curve is decided by the relative position of two shafts. Basing on the viewpoint, a mathematic model of laser alignment is set up. By using a data acquisition system and a data processing model of laser alignment meter with single laser beam and a detector, and basing on the installation parameter of computer, the state parameter between two shafts can be obtained by more complicated calculation and correction. The correcting data of the four under chassis of the adjusted apparatus moving on the level and the vertical plane can be calculated. This will instruct us to move the apparatus to align the shafts.

  18. Generalized quantum counting algorithm for non-uniform amplitude distribution

    Science.gov (United States)

    Tan, Jianing; Ruan, Yue; Li, Xi; Chen, Hanwu

    2017-03-01

    We give generalized quantum counting algorithm to increase universality of quantum counting algorithm. Non-uniform initial amplitude distribution is possible due to the diversity of situations on counting problems or external noise in the amplitude initialization procedure. We give the reason why quantum counting algorithm is invalid on this situation. By modeling in three-dimensional space spanned by unmarked state, marked state and free state to the entire Hilbert space of n qubits, we find Grover iteration can be regarded as improper rotation in the space. This allows us to give formula to solve counting problem. Furthermore, we express initial amplitude distribution in the eigenvector basis of improper rotation matrix. This is necessary to obtain mathematical analysis of counting problem on various situations. Finally, we design four simulation experiments, the results of which show that compared with original quantum counting algorithm, generalized quantum counting algorithm wins great satisfaction from three aspects: (1) Whether initial amplitude distribution is uniform; (2) the diversity of situations on counting problems; and (3) whether phase estimation technique can get phase exactly.

  19. The Non-uniform Fast Fourier Transform in Computed Tomography

    CERN Document Server

    Tang, Junqi

    2016-01-01

    This project is aimed at designing the fast forward projection algorithm and also the backprojection algorithm for cone beam CT imaging systems with circular X-ray source trajectory. The principle of the designs is based on utilizing the potential computational efficiency which the Fourier Slice Theorem and the Non-uniform Fast Fourier Transform (NUFFT) will bring forth. In this Masters report, the detailed design of the NUFFT based forward projector including a novel 3D (derivative of) Radon space resampling method will be given. Meanwhile the complexity of the NUFFT based forward projector is analysed and compared with the non-Fourier based CT projector, and the advantage of the NUFFT based forward projection in terms of the computational efficiency is demonstrated in this report. Base on the design of the forward algorithm, the NUFFT based 3D direct reconstruction algorithm will be derived. The experiments will be taken to test the performance of the forward algorithm and the backprojection algorithm to sh...

  20. A non-uniform distribution of the nearest brown dwarfs

    CERN Document Server

    Bihain, G

    2016-01-01

    The census of solar neighbours is still complemented by new discoveries, mainly of very low-mass, faint dwarfs, close to or within the substellar domain. These discoveries contribute to a better understanding of the field population; its origin in terms of Galactic dynamics and (sub)stellar formation and evolution. Also, the nearest stars and brown dwarfs at any given age allow the most precise direct characterization, including the search for planetary companions. We aim to further assess the substellar census on the Galactic plane. We projected the 136 stars and 26 brown dwarfs known at <6.5 pc on the Galactic plane and evaluated their distributions. Stars present a uniform- and brown dwarfs a non-uniform distribution, with 21 objects behind the Sun and only five ahead relative to the direction of rotation of the Galaxy. This substellar configuration has a probability of 0.098$^{+10.878}_{-0.098}$% relative to uniformity. The helio- and geocentric nature of the distribution suggests it might result in pa...

  1. Nonuniform Oxidation on the Surface of Fuel Element in HTR

    Directory of Open Access Journals (Sweden)

    Peng Liu

    2016-01-01

    Full Text Available The graphite oxidation of fuel element has obtained high attention in air ingress accident analysis of high temperature gas-cooled reactor (HTR. The shape function, defined as the relationship between the maximum and the average of the oxidation, is an important factor to estimate the consequence of the accident. There are no detailed studies on the shape function currently except two experiments several decades ago. With the development of computer technology, CFD method is used in the numerical experiment about graphite oxidation in pebble bed of HTR in this paper. Structured packed beds are used in the calculation instead of random packed beds. The result shows the nonuniform distribution of oxidation on the sphere surface and the shape function in the condition of air ingress accident. Furthermore, the sensitive factors of shape function, such as temperature and Re number, are discussed in detail and the relationship between the shape function and sensitive factors is explained. According to the results in this paper, the shape function ranges from 1.05 to 4.7 under the condition of temperature varying from 600°C to 1200°C and Re varying from 16 to 1600.

  2. Nanomagnetic logic with non-uniform states of clocking

    Science.gov (United States)

    Puliafito, Vito; Giordano, Anna; Azzerboni, Bruno; Finocchio, Giovanni

    2016-04-01

    Nanomagnetic logic transmits information along a path of nanomagnets. The basic mechanism to drive such a transmission, known as clocking, can be achieved by exploiting the spin-Hall effect (SHE), as recently observed in experiments on Ta/CoFeB/MgO multilayers (Bhowmik et al 2014 Nat. Nano 9 59). This paper shows the fundamental mechanism of the spin-Hall driven clocking by using a full micromagnetic framework and considering two different devices, Ta/CoFeB/MgO and Pt/CoFeB/MgO. The former is used for a direct comparison of the numerical results with the experiments while the latter permits the effect of the Dzyaloshinskii-Moriya interaction (DMI) in the clocking mechanism to be predicted. Results show that the clocking state is non-uniform and it is characterized by the presence of domains separated by Bloch (Néel) domain walls depending on the absence (presence) of the DMI. Our findings point out that for the design of nanomagnetic logic a full micromagnetic approach is necessary.

  3. Buckling of un-stiffened cylindrical shell under non-uniform axial conpressive stress

    Institute of Scientific and Technical Information of China (English)

    宋昌永

    2002-01-01

    This paper provides a review of recent research advances and trends in the area of stability of un-stiffened circular cylindrical shells subjected to general non-uniform axial compressive stresses. Only the more important and interesting aspects of the research, judged from a personal viewpoint, are discussed. They can be crudely classified into four categories: (1) shells subjected to non-uniform loads; (2) shells on discrete supports; (3) shells with intended cutouts/holes; and (4) shells with non-uniform settlements.

  4. On Basic Parameters and Radiation Theory of Non-Uniform Channel DMOS

    Institute of Scientific and Technical Information of China (English)

    LI Ze- hong

    2005-01-01

    @@ Researching the non-uniform channel DMOS is the basic knowledge of the new generation high voltage power MOS devices and the important domain of the IC, smart power ICs. This dissertation investigates the basic parameters and the radiation theory of non-uniform channel DMOS. The threshold voltage model of micron and deep sub-micron non-uniform channel DMOS, the radiation threshold voltage model,the radiation mobility model and the transient response model of single ion radiation are internationally proposed for the first time.

  5. Buckling analysis of stringer-stiffened laminated cylindrical shells with nonuniform eccentricity

    Energy Technology Data Exchange (ETDEWEB)

    Sadeghifar, M. [Islamic Azad University, Department of Mechanical Engineering, Nowshahr Branch, Nowshahr (Iran, Islamic Republic of); Bagheri, M. [Sattari Air University, Faculty of Aerospace Engineering, Tehran (Iran, Islamic Republic of); Jafari, A.A. [K.N. Toosi University of Technology, Faculty of Mechanical Engineering, Tehran (Iran, Islamic Republic of)

    2011-07-15

    In this study, the influence of nonuniformity of eccentricity of stringers on the general axial buckling load of stiffened laminated cylindrical shells with simply supported end conditions is investigated. The critical loads are calculated using Love's First-order Shear Deformation Theory and solved using the Rayleigh-Ritz procedure. The effects of the shell length-to-radius ratio, shell thickness-to-radius ratio, number of stringers, and stringers depth-to-width ratio on the buckling load of nonuniformly eccentric shells, are examined. The research demonstrates that an appropriate nonuniform distribution of eccentricity of stringers leads the buckling load to increase significantly. (orig.)

  6. Decentralized PD Control for Non-uniform Motion of a Hamiltonian Hybrid System

    Institute of Scientific and Technical Information of China (English)

    Mingcong Deng; Hongnian Yu; Akira Inoue

    2008-01-01

    In this paper, a decentralized proportional-derivative (PD) controller design for non-uniform motion of a Hamiltonian hybrid system is considered. A Hamiltonian hybrid system with the capability of producing a non-uniform motion is developed. The structural properties of the system are investigated by means of the theory of Hamiltonian systems. A relationship between the parameters of the system and the parameters of the proposed decentralized PD controller is shown to ensure local stability and tracking performance. Simulation results are included to show the obtained non-uniform motion.

  7. A Method to Reconstruct Nth-Order Periodically Nonuniform Sampled Signals

    Institute of Scientific and Technical Information of China (English)

    ZHANG Yao

    2004-01-01

    It is well known that nonuniform sampling is usually needed in special signals processing.In this paper, a general method to reconstruct Nth-order periodically nonuniform sampled signals is presented which is also developed to digital domain, and the designs of the digital filters and the synthesis system are given. This paper extends the studies of Kohlenberg, whose work concentrate on the periodically nonuniform sampling of second order, as well as the studies of A.J. Coulson, J.L.Brown,whose work deal with the problems of two-band signals' Nth-order sampling and reconstruction.

  8. Effects of non-uniform core flow on peak cladding temperature: MOXY/SCORE sensitivity calculations

    Energy Technology Data Exchange (ETDEWEB)

    Chang, S.C.

    1979-08-15

    The MOXY/SCORE computer program is used to evaluate the potential effect on peak cladding temperature of selective cooling that may result from a nonuniform mass flux at the core boundaries during the blowdown phase of the LOFT L2-4 test. The results of this study indicate that the effect of the flow nonuniformity at the core boundaries will be neutralized by a strong radial flow redistribution in the neighborhood of core boundaries. The implication is that the flow nonuniformity at the core boundaries has no significant effect on the thermal-hydraulic behavior and cladding temperature at the hot plane.

  9. The magnetostriction in a superconductor-magnet system under non-uniform magnetic field

    Science.gov (United States)

    Li, Xueyi; Jiang, Lang; Wu, Hao; Gao, Zhiwen

    2017-03-01

    This paper describes a numerical model to examine the magnetostriction of bulk high-temperature superconductor (HTS) under non-uniform magnetic field in conjunction with finite element analysis. Through this model, the magnetostriction of homogeneous and nonhomogeneous HTS can be implemented under non-uniform magnetic field. Further, the effects of critical current density, applied field frequency and amplitude are also considered. The computational study can provide a fundamental mechanistic understanding the effects of non-uniform magnetic field on magnetostriction of HTS.

  10. A dynamic programming approach for the alignment of signal peaks in multiple gas chromatography-mass spectrometry experiments

    Directory of Open Access Journals (Sweden)

    McConville Malcolm J

    2007-10-01

    Full Text Available Abstract Background Gas chromatography-mass spectrometry (GC-MS is a robust platform for the profiling of certain classes of small molecules in biological samples. When multiple samples are profiled, including replicates of the same sample and/or different sample states, one needs to account for retention time drifts between experiments. This can be achieved either by the alignment of chromatographic profiles prior to peak detection, or by matching signal peaks after they have been extracted from chromatogram data matrices. Automated retention time correction is particularly important in non-targeted profiling studies. Results A new approach for matching signal peaks based on dynamic programming is presented. The proposed approach relies on both peak retention times and mass spectra. The alignment of more than two peak lists involves three steps: (1 all possible pairs of peak lists are aligned, and similarity of each pair of peak lists is estimated; (2 the guide tree is built based on the similarity between the peak lists; (3 peak lists are progressively aligned starting with the two most similar peak lists, following the guide tree until all peak lists are exhausted. When two or more experiments are performed on different sample states and each consisting of multiple replicates, peak lists within each set of replicate experiments are aligned first (within-state alignment, and subsequently the resulting alignments are aligned themselves (between-state alignment. When more than two sets of replicate experiments are present, the between-state alignment also employs the guide tree. We demonstrate the usefulness of this approach on GC-MS metabolic profiling experiments acquired on wild-type and mutant Leishmania mexicana parasites. Conclusion We propose a progressive method to match signal peaks across multiple GC-MS experiments based on dynamic programming. A sensitive peak similarity function is proposed to balance peak retention time and peak

  11. Fr-TM-align: a new protein structural alignment method based on fragment alignments and the TM-score

    Directory of Open Access Journals (Sweden)

    Skolnick Jeffrey

    2008-12-01

    Full Text Available Abstract Background Protein tertiary structure comparisons are employed in various fields of contemporary structural biology. Most structure comparison methods involve generation of an initial seed alignment, which is extended and/or refined to provide the best structural superposition between a pair of protein structures as assessed by a structure comparison metric. One such metric, the TM-score, was recently introduced to provide a combined structure quality measure of the coordinate root mean square deviation between a pair of structures and coverage. Using the TM-score, the TM-align structure alignment algorithm was developed that was often found to have better accuracy and coverage than the most commonly used structural alignment programs; however, there were a number of situations when this was not true. Results To further improve structure alignment quality, the Fr-TM-align algorithm has been developed where aligned fragment pairs are used to generate the initial seed alignments that are then refined using dynamic programming to maximize the TM-score. For the assessment of the structural alignment quality from Fr-TM-align in comparison to other programs such as CE and TM-align, we examined various alignment quality assessment scores such as PSI and TM-score. The assessment showed that the structural alignment quality from Fr-TM-align is better in comparison to both CE and TM-align. On average, the structural alignments generated using Fr-TM-align have a higher TM-score (~9% and coverage (~7% in comparison to those generated by TM-align. Fr-TM-align uses an exhaustive procedure to generate initial seed alignments. Hence, the algorithm is computationally more expensive than TM-align. Conclusion Fr-TM-align, a new algorithm that employs fragment alignment and assembly provides better structural alignments in comparison to TM-align. The source code and executables of Fr-TM-align are freely downloadable at: http://cssb.biology.gatech.edu/skolnick/files/FrTMalign/.

  12. Regulation of Replication Recovery and Genome Integrity

    DEFF Research Database (Denmark)

    Colding, Camilla Skettrup

    facilitate replication recovery after MMS-induced replication stress. Our data reveal that control of Mrc1 turnover through the interplay between posttranslational modifications and INQ localization adds another layer of regulation to the replication checkpoint. We also add replication recovery to the list...... is mediated by Mrc1, which ensures Mec1 presence at the stalled replication fork thus facilitating Rad53 phosphorylation. When replication can be resumed safely, the replication checkpoint is deactivated and replication forks restart. One mechanism for checkpoint deactivation is the ubiquitin......-targeted proteasomal degradation of Mrc1. In this study, we describe a novel nuclear structure, the intranuclear quality control compartment (INQ), which regulates protein turnover and is important for recovery after replication stress. We find that upon methyl methanesulfonate (MMS)-induced replication stress, INQ...

  13. XUV ionization of aligned molecules

    Energy Technology Data Exchange (ETDEWEB)

    Kelkensberg, F.; Siu, W.; Gademann, G. [FOM Institute AMOLF, Science Park 104, NL-1098 XG Amsterdam (Netherlands); Rouzee, A.; Vrakking, M. J. J. [FOM Institute AMOLF, Science Park 104, NL-1098 XG Amsterdam (Netherlands); Max-Born-Institut, Max-Born Strasse 2A, D-12489 Berlin (Germany); Johnsson, P. [FOM Institute AMOLF, Science Park 104, NL-1098 XG Amsterdam (Netherlands); Department of Physics, Lund University, Post Office Box 118, SE-221 00 Lund (Sweden); Lucchini, M. [Department of Physics, Politecnico di Milano, Istituto di Fotonica e Nanotecnologie CNR-IFN, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Lucchese, R. R. [Department of Chemistry, Texas A and M University, College Station, Texas 77843-3255 (United States)

    2011-11-15

    New extreme-ultraviolet (XUV) light sources such as high-order-harmonic generation (HHG) and free-electron lasers (FELs), combined with laser-induced alignment techniques, enable novel methods for making molecular movies based on measuring molecular frame photoelectron angular distributions. Experiments are presented where CO{sub 2} molecules were impulsively aligned using a near-infrared laser and ionized using femtosecond XUV pulses obtained by HHG. Measured electron angular distributions reveal contributions from four orbitals and the onset of the influence of the molecular structure.

  14. The alignment-distribution graph

    Science.gov (United States)

    Chatterjee, Siddhartha; Gilbert, John R.; Schreiber, Robert

    1993-01-01

    Implementing a data-parallel language such as Fortran 90 on a distributed-memory parallel computer requires distributing aggregate data objects (such as arrays) among the memory modules attached to the processors. The mapping of objects to the machine determines the amount of residual communication needed to bring operands of parallel operations into alignment with each other. We present a program representation called the alignment distribution graph that makes these communication requirements explicit. We describe the details of the representation, show how to model communication cost in this framework, and outline several algorithms for determining object mappings that approximately minimize residual communication.

  15. Position list word aligned hybrid

    DEFF Research Database (Denmark)

    Deliege, Francois; Pedersen, Torben Bach

    2010-01-01

    Compressed bitmap indexes are increasingly used for efficiently querying very large and complex databases. The Word Aligned Hybrid (WAH) bitmap compression scheme is commonly recognized as the most efficient compression scheme in terms of CPU efficiency. However, WAH compressed bitmaps use a lot...... of storage space. This paper presents the Position List Word Aligned Hybrid (PLWAH) compression scheme that improves significantly over WAH compression by better utilizing the available bits and new CPU instructions. For typical bit distributions, PLWAH compressed bitmaps are often half the size of WAH...

  16. Hyperthermia stimulates HIV-1 replication.

    Directory of Open Access Journals (Sweden)

    Ferdinand Roesch

    Full Text Available HIV-infected individuals may experience fever episodes. Fever is an elevation of the body temperature accompanied by inflammation. It is usually beneficial for the host through enhancement of immunological defenses. In cultures, transient non-physiological heat shock (42-45°C and Heat Shock Proteins (HSPs modulate HIV-1 replication, through poorly defined mechanisms. The effect of physiological hyperthermia (38-40°C on HIV-1 infection has not been extensively investigated. Here, we show that culturing primary CD4+ T lymphocytes and cell lines at a fever-like temperature (39.5°C increased the efficiency of HIV-1 replication by 2 to 7 fold. Hyperthermia did not facilitate viral entry nor reverse transcription, but increased Tat transactivation of the LTR viral promoter. Hyperthermia also boosted HIV-1 reactivation in a model of latently-infected cells. By imaging HIV-1 transcription, we further show that Hsp90 co-localized with actively transcribing provirus, and this phenomenon was enhanced at 39.5°C. The Hsp90 inhibitor 17-AAG abrogated the increase of HIV-1 replication in hyperthermic cells. Altogether, our results indicate that fever may directly stimulate HIV-1 replication, in a process involving Hsp90 and facilitation of Tat-mediated LTR activity.

  17. Hyperthermia stimulates HIV-1 replication.

    Science.gov (United States)

    Roesch, Ferdinand; Meziane, Oussama; Kula, Anna; Nisole, Sébastien; Porrot, Françoise; Anderson, Ian; Mammano, Fabrizio; Fassati, Ariberto; Marcello, Alessandro; Benkirane, Monsef; Schwartz, Olivier

    2012-01-01

    HIV-infected individuals may experience fever episodes. Fever is an elevation of the body temperature accompanied by inflammation. It is usually beneficial for the host through enhancement of immunological defenses. In cultures, transient non-physiological heat shock (42-45°C) and Heat Shock Proteins (HSPs) modulate HIV-1 replication, through poorly defined mechanisms. The effect of physiological hyperthermia (38-40°C) on HIV-1 infection has not been extensively investigated. Here, we show that culturing primary CD4+ T lymphocytes and cell lines at a fever-like temperature (39.5°C) increased the efficiency of HIV-1 replication by 2 to 7 fold. Hyperthermia did not facilitate viral entry nor reverse transcription, but increased Tat transactivation of the LTR viral promoter. Hyperthermia also boosted HIV-1 reactivation in a model of latently-infected cells. By imaging HIV-1 transcription, we further show that Hsp90 co-localized with actively transcribing provirus, and this phenomenon was enhanced at 39.5°C. The Hsp90 inhibitor 17-AAG abrogated the increase of HIV-1 replication in hyperthermic cells. Altogether, our results indicate that fever may directly stimulate HIV-1 replication, in a process involving Hsp90 and facilitation of Tat-mediated LTR activity.

  18. Cellular Responses to Replication Problems

    NARCIS (Netherlands)

    M. Budzowska (Magdalena)

    2008-01-01

    textabstractDuring every S-phase cells need to duplicate their genomes so that both daughter cells inherit complete copies of genetic information. It is a tremendous task, given the large sizes of mammalian genomes and the required precision of DNA replication. A major threat to the accuracy and eff

  19. Covert Reinforcement: A Partial Replication.

    Science.gov (United States)

    Ripstra, Constance C.; And Others

    A partial replication of an investigation of the effect of covert reinforcement on a perceptual estimation task is described. The study was extended to include an extinction phase. There were five treatment groups: covert reinforcement, neutral scene reinforcement, noncontingent covert reinforcement, and two control groups. Each subject estimated…

  20. Crinivirus replication and host interactions

    Directory of Open Access Journals (Sweden)

    Zsofia A Kiss

    2013-05-01

    Full Text Available Criniviruses comprise one of the genera within the family Closteroviridae. Members in this family are restricted to the phloem and rely on whitefly vectors of the genera Bemisia and/or Trialeurodes for plant-to-plant transmission. All criniviruses have bipartite, positive-sense ssRNA genomes, although there is an unconfirmed report of one having a tripartite genome. Lettuce infectious yellows virus (LIYV is the type species of the genus, the best studied so far of the criniviruses and the first for which a reverse genetics system was available. LIYV RNA 1 encodes for proteins predicted to be involved in replication, and alone is competent for replication in protoplasts. Replication results in accumulation of cytoplasmic vesiculated membranous structures which are characteristic of most studied members of the Closteroviridae. These membranous structures, often referred to as BYV-type vesicles, are likely sites of RNA replication. LIYV RNA 2 is replicated in trans when co-infecting cells with RNA 1, but is temporally delayed relative to RNA1. Efficient RNA 2 replication also is dependent on the RNA 1-encoded RNA binding protein, P34. No LIYV RNA 2-encoded proteins have been shown to affect RNA replication, but at least four, CP, CPm, Hsp70h, and p59 are virion structural components and CPm is a determinant of whitefly transmissibility. Roles of other LIYV RNA 2-encoded proteins are largely as yet unknown, but P26 is a non-virion protein that accumulates in cells as characteristic plasmalemma deposits which in plants are localized within phloem parenchyma and companion cells over plasmodesmata connections to sieve elements. The two remaining crinivirus-conserved RNA 2-encoded proteins are P5 and P9. P5 is 39 amino acid protein and is encoded at the 5’ end of RNA 2 as ORF1 and is part of the hallmark closterovirus gene array. The orthologous gene in BYV has been shown to play a role in cell-to-cell movement and indicated to be localized to the

  1. Aligned natural inflation with modulations

    Energy Technology Data Exchange (ETDEWEB)

    Choi, Kiwoon, E-mail: kchoi@ibs.re.kr [Center for Theoretical Physics of the Universe, Institute for Basic Science (IBS), Daejeon, 34051 (Korea, Republic of); Kim, Hyungjin, E-mail: hjkim06@kaist.ac.kr [Center for Theoretical Physics of the Universe, Institute for Basic Science (IBS), Daejeon, 34051 (Korea, Republic of); Department of Physics, KAIST, Daejeon, 305-701 (Korea, Republic of)

    2016-08-10

    The weak gravity conjecture applied for the aligned natural inflation indicates that generically there can be a modulation of the inflaton potential, with a period determined by sub-Planckian axion scale. We study the oscillations in the primordial power spectrum induced by such modulation, and discuss the resulting observational constraints on the model.

  2. Aligned natural inflation with modulations

    Directory of Open Access Journals (Sweden)

    Kiwoon Choi

    2016-08-01

    Full Text Available The weak gravity conjecture applied for the aligned natural inflation indicates that generically there can be a modulation of the inflaton potential, with a period determined by sub-Planckian axion scale. We study the oscillations in the primordial power spectrum induced by such modulation, and discuss the resulting observational constraints on the model.

  3. Aligning Assessments for COSMA Accreditation

    Science.gov (United States)

    Laird, Curt; Johnson, Dennis A.; Alderman, Heather

    2015-01-01

    Many higher education sport management programs are currently in the process of seeking accreditation from the Commission on Sport Management Accreditation (COSMA). This article provides a best-practice method for aligning student learning outcomes with a sport management program's mission and goals. Formative and summative assessment procedures…

  4. The Rigors of Aligning Performance

    Science.gov (United States)

    2015-06-01

    organization must consider and work closely with its many stakeholders so as to guarantee satisfaction ; this idea is especially important as there is no...define success. Methodology includes a literature review, employee and customer surveys and a Strength, Weaknesses, Opportunities, Threats...bearing in mind customer perceptions. Recommendations include employee training centered on goal alignment, which is vital to highlight the

  5. A Synthesis Instance Pruning Approach Based on Virtual Non-uniform Replacements

    Institute of Scientific and Technical Information of China (English)

    ZHANG Wei; LING Zhenhua; HU Guoping; WANG Renhua

    2008-01-01

    The employment of non-uniform processes assists greatly in the corpus-based text-to-speech (TTS) system to synthesize natural speech.However,tailoring a TTS voice font,or pruning redundant syn-thesis instances,usually results in loss of non-uniform synthesis instances.In order to solve this problem,we propose the concept of virtual non-uniform instances.According to this concept and the synthesis fre-quency of each instance,the algorithm named StaRp-VPA is constructed to make up for the loss of non-uniform instances.In experimental testing,the naturalness scored by the mean opinion score (MOS) re-mains almost unchanged when less than 50% instances are pruned,and the MOS is only slightly degraded for reduction rates above 50%.The test results show that the algorithm StaRp-VPA is effective.

  6. A SECOND ORDER DIFFERENCE SCHEME WITH NONUNIFORM MESHES FOR NONLINEAR PARABOLIC SYSTEM

    Institute of Scientific and Technical Information of China (English)

    WAN Zhengsu; CHEN Guangnan

    2003-01-01

    In this paper, a difference scheme with nonuniform meshes is established for the initial-boundary problem of the nonlinear parabolic system. It is proved that the difference scheme is second order convergent in spacestep and timestep.

  7. Impact of non-uniform surface magnetic fields on stellar winds

    CERN Document Server

    Holzwarth, V R

    2005-01-01

    Observations of active stars reveal highly non-uniform surface distributions of magnetic flux. Theoretical models considering magnetised stellar winds however often presume uniform surface magnetic fields, characterised by a single magnetic field strength. The present work investigates the impact of non-uniform surface magnetic field distributions on the stellar mass and angular momentum loss rates. The approach of Weber & Davis (1967) is extended to non-equatorial latitudes to quantify the impact of latitude-dependent magnetic field distributions over a large range of stellar rotation rates and thermal wind properties. The analytically prescribed field patterns are dominated by magnetic flux concentrations at intermediate and high latitudes. The global stellar mass loss rates are found to be rather insensitive to non-uniformities of the surface magnetic field. Depending on the non-uniformity of the field distribution, the angular momentum loss rates deviate in contrast at all rotation rates between -60% ...

  8. Factorization method for difference equations of hypergeometric type on nonuniform lattices

    Energy Technology Data Exchange (ETDEWEB)

    Alvarez-Nodarse, R. [Departamento de Analisis Matematico, Universidad de Sevilla, Sevilla (Spain); Instituto Carlos I de Fisica Teorica y Computacional, Universidad de Granada, Granada (Spain); Costas-Santos, R.S. [Departamento de Analisis Matematico, Universidad de Sevilla, Sevilla (Spain)

    2001-07-13

    We study the factorization of the hypergeometric-type difference equation of Nikiforov and Uvarov on nonuniform lattices. An explicit form of the raising and lowering operators is derived and some relevant examples are given. (author)

  9. Excitation of kinetic geodesic acoustic modes by drift waves in nonuniform plasmas

    Energy Technology Data Exchange (ETDEWEB)

    Qiu, Z. [Inst. Fusion Theory and Simulation, Zhejiang Univ., Hangzhou 310027 (China); Chen, L. [Inst. Fusion Theory and Simulation, Zhejiang Univ., Hangzhou 310027 (China); Dept. Physics and Astronomy, Univ. of California, Irvine, California 92697-4575 (United States); Zonca, F. [Inst. Fusion Theory and Simulation, Zhejiang Univ., Hangzhou 310027 (China); Associazione Euratom-ENEA sulla Fusione, C.P. 65 - I-00044 - Frascati (Italy)

    2014-02-15

    Effects of system nonuniformities and kinetic dispersiveness on the spontaneous excitation of Geodesic Acoustic Mode (GAM) by Drift Wave (DW) turbulence are investigated based on nonlinear gyrokinetic theory. The coupled nonlinear equations describing parametric decay of DW into GAM and DW lower sideband are derived and then solved both analytically and numerically to investigate the effects on the parametric decay process due to system nonuniformities, such as nonuniform diamagnetic frequency, finite radial envelope of DW pump, and kinetic dispersiveness. It is found that the parametric decay process is a convective instability for typical tokamak parameters when finite group velocities of DW and GAM associated with kinetic dispersiveness and finite radial envelope are taken into account. When, however, nonuniformity of diamagnetic frequency is taken into account, the parametric decay process becomes, time asymptotically, a quasi-exponentially growing absolute instability.

  10. The magnetostriction in a superconductor-magnet system under non-uniform magnetic field

    Energy Technology Data Exchange (ETDEWEB)

    Li, Xueyi; Jiang, Lang; Wu, Hao [Key Laboratory of Mechanics on Disaster and Environment in Western China attached to the Ministry of Education of China, Lanzhou University, Lanzhou, Gansu 730000 (China); Gao, Zhiwen, E-mail: gaozhw@lzu.edu.cn [Department of Mechanics and Engineering Science, College of Civil Engineering and Mechanics, Lanzhou University, Lanzhou, Gansu 730000 (China)

    2017-03-15

    Highlights: • We studied firstly magnetostriction in HTS under non-uniform magnetic field. • The superconductors may be homogeneous and nonhomogeneous. • The magnetostrictions response of the HTS is sensitive to the critical current density and amplitude of the applied magnetic field. • The magnetostriction of nonhomogeneous HTS is larger than that of homogeneous HTS. - Abstract: This paper describes a numerical model to examine the magnetostriction of bulk high-temperature superconductor (HTS) under non-uniform magnetic field in conjunction with finite element analysis. Through this model, the magnetostriction of homogeneous and nonhomogeneous HTS can be implemented under non-uniform magnetic field. Further, the effects of critical current density, applied field frequency and amplitude are also considered. The computational study can provide a fundamental mechanistic understanding the effects of non-uniform magnetic field on magnetostriction of HTS.

  11. Nonlinear Response of High Arch Dams to Nonuniform Seismic Excitation Considering Joint Effects

    Directory of Open Access Journals (Sweden)

    Masoomeh Akbari

    2013-01-01

    Full Text Available Nonuniform excitation due to spatially varying ground motions on nonlinear responses of concrete arch dams is investigated. A high arch dam was selected as numerical example, reservoir was modelled as incompressible material, foundation was assumed as mass-less medium, and all contraction and peripheral joints were modelled considering the ability of opening/closing. This study used Monte-Carlo simulation approach for generating spatially nonuniform ground motion. In this approach, random seismic characteristics due to incoherence and wave passage effects were investigated and finally their effects on structural response were compared with uniform excitation at design base level earthquake. Based on the results, nonuniform input leads to some differences than uniform input. Moreover using nonuniform excitation increase, stresses on dam body.

  12. Replication-Uncoupled Histone Deposition during Adenovirus DNA Replication

    OpenAIRE

    Komatsu, Tetsuro; Nagata, Kyosuke

    2012-01-01

    In infected cells, the chromatin structure of the adenovirus genome DNA plays critical roles in its genome functions. Previously, we reported that in early phases of infection, incoming viral DNA is associated with both viral core protein VII and cellular histones. Here we show that in late phases of infection, newly synthesized viral DNA is also associated with histones. We also found that the knockdown of CAF-1, a histone chaperone that functions in the replication-coupled deposition of his...

  13. Nonuniform blood flow in the canine left ventricle.

    Science.gov (United States)

    Flynn, A E; Coggins, D L; Austin, R E; Muehrcke, D D; Aldea, G S; Goto, M; Doucette, J W; Hoffman, J I

    1990-11-01

    In order to investigate the relationship between coronary perfusion pressure and blood flow distribution in the left ventricle (LV), we measured myocardial blood flow in small regions using radioactive microspheres in six anesthetized, open-chest dogs. Mean coronary perfusion pressure (CPP) was controlled with a femoral artery to left main coronary artery shunt which included a pressurized, servo-controlled blood reservoir. In each dog, we measured flow in 192 regions of the LV free wall (mean weight per region = 206 +/- 38 mg) at different perfusion pressures. At CPP = 80 mm Hg, blood flow to individual regions varied fourfold (0.30 to 1.18 ml/min/g; relative dispersion (RD) = 21.8 +/- 2.3%). At CPP = 50 mm Hg, flow varied over sevenfold (0.08 to 0.60 ml/min/g; RD = 42.8 +/- 10%; P less than 0.01 vs 80 mm Hg). This relationship between flow variability and CPP was present within individual LV layers as well between layers and is much higher than the error associated with the microsphere technique. We conclude that blood flow to small regions of the LV is markedly nonuniform. This heterogeneity becomes more profound at lower CPP. These findings suggest that (1) global measurements of coronary flow must be interpreted with caution, and (2) even in hearts with normal coronary arteries some regions of the LV are more susceptible to ischemia than others. In addition, these findings may help explain the patchy nature of myocardial damage that occurs following periods of low coronary pressure or inadequate myocardial protection during cardiopulmonary bypass.

  14. Inhomogeneity Dislocation Interaction of Piezoelectric Materials Under Remote Non-uniform Shear & Electric Field

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    The complex potentials method is used to develop a solution for a screw dislocation interacting with an elliptical piezoelectric inhomogeneity in piezoelectric materials under remote non-uniform antiplane shear and non-uniform inplane electric field. The theoretical analysis result is formulated via the conformal mapping and Laurent series expansion in the transformed plane by using complex variable method. The general expression of the complex variables is dirived explicitly in both the elliptical inhomogeneity and the surrounding matrix

  15. Thermal entanglement in a mixed-spin Heisenberg XXZ model under a nonuniform external magnetic field

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    The thermal entanglement in (1/2,1) mixed-spin Heisenberg XXZ model is investigated under an external nonuniform magnetic field. In the uniform magnetic field system,the critical magnetic field Bc and critical temperature Tc are increased by increasing the anisotropic parameter k. The degree of magnetic field b plays an important role in improving the critical temperature and enlarging the region of entan-glement in the nonuniform magnetic field system.

  16. Entanglement in Anisotropic Heisenberg Model with Non-Uniform External Fields

    Institute of Scientific and Technical Information of China (English)

    WANG Yuan-Feng; CAO Jun-Peng; WANG Yu-Peng

    2005-01-01

    @@ We study entanglement properties of the three-qubit anisotropic Heisenberg model with both uniform and nonuniform external magnetic fields. Analytic expressions for the measures of entanglement at the ground state are obtained. We show that the pairwise entanglement and global entanglement of the system at the ground state clearly depend on the strength and configuration of external fields. The entanglement between some pairs can be enhanced by non-uniform external fields.

  17. Resonant-state expansion of light propagation in non-uniform waveguides

    OpenAIRE

    Lobanov, S. V.; Zoriniants, G.; Langbein, W.; Muljarov, E. A.

    2016-01-01

    A new rigorous approach for precise and efficient calculation of light propagation along non-uniform waveguides is presented. Resonant states of a uniform waveguide, which satisfy outgoing-wave boundary conditions, form a natural basis for expansion of the local electromagnetic field. Using such an expansion at fixed frequency, we convert the light propagation along a non-uniform waveguide into an ordinary second-order matrix differential equation for the expansion coefficients along the wave...

  18. Parallel Programming Methodologies for Non-Uniform Structured Problems in Materials Science

    Science.gov (United States)

    1993-10-01

    COVERED 1 10/93 _ Interim 12/01/92 - 09/30/93 4. TITLE AND SUBTITLE 5. FUNDING NUMBERS Parallel Programming Methodologies for Non-Uniform Structured...Dear Dr. van Tilborg, Enclosed you will find the annual report for " Parallel Programming Methodolo- gies for Non-Uniform Structured Problems in...Quincy Street Arlington, VA 22217-5660 Dear Dr. van Tilborg, Enclosed you will find the annual report for " Parallel Programming Methodolo- gies for Non

  19. The Timoshenko-Reissner generalized model of a plate highly nonuniform in thickness

    Science.gov (United States)

    Morozov, N. F.; Tovstik, P. E.; Tovstik, T. P.

    2016-08-01

    A thin plate fabricated of material that is transversally isotropic and nonuniform in thickness is considered. The model of the monolayer transversally homogeneous isotropic plate, which is approximately equivalent to a thickness-nonuniform plate in the deflection and in the lowest frequencies of free vibrations, is constructed. The range of applicability of the model constructed is very wide. The main result of this study is a formula for calculating the transverse-shear rigidity of an equivalent transversally isotropic plate.

  20. Epidemics of Sirs Model with Nonuniform Transmission on Scale-Free Networks

    Science.gov (United States)

    Xia, C. Y.; Sun, S. W.; Liu, Z. X.; Chen, Z. Q.; Yuan, Z. Z.

    We investigate the effect of nonuniform transmission on the critical threshold of susceptible-infected-recovered-susceptible (SIRS) epidemic model on scale-free networks. Based on the mean-field theory, it is observed that the epidemic threshold is not only correlated with the topology of underlying networks, but also with the disease transmission mechanism (e.g., nonuniform transmission). The current findings will significantly help us to further understand the real epidemics taking place on social and technological networks.

  1. Influence of Non-Uniform Magnetic Field on Quantum Teleportation in Heisenberg XY Model

    Institute of Scientific and Technical Information of China (English)

    SHAO Bin; YANG Tie-jian; ZHAO Yue-hong; ZOU Jian

    2007-01-01

    By considering the intrinsic decoherence, the validity of quantum teleportation of a two-qubit 1D Heisenberg XY chain in a non-uniform external magnetic field is studied. The fidelity as the measurement of a possible quantum teleportation is calculated and the effects of the non-uniform magnetic field and the intrinsic decoherence are discussed. It is found that anti-parallel magnetic field is more favorable for teleportation and the fidelity is suppressed by the intrinsic decoherence.

  2. Progressive multiple sequence alignments from triplets

    Directory of Open Access Journals (Sweden)

    Stadler Peter F

    2007-07-01

    Full Text Available Abstract Background The quality of progressive sequence alignments strongly depends on the accuracy of the individual pairwise alignment steps since gaps that are introduced at one step cannot be removed at later aggregation steps. Adjacent insertions and deletions necessarily appear in arbitrary order in pairwise alignments and hence form an unavoidable source of errors. Research Here we present a modified variant of progressive sequence alignments that addresses both issues. Instead of pairwise alignments we use exact dynamic programming to align sequence or profile triples. This avoids a large fractions of the ambiguities arising in pairwise alignments. In the subsequent aggregation steps we follow the logic of the Neighbor-Net algorithm, which constructs a phylogenetic network by step-wisely replacing triples by pairs instead of combining pairs to singletons. To this end the three-way alignments are subdivided into two partial alignments, at which stage all-gap columns are naturally removed. This alleviates the "once a gap, always a gap" problem of progressive alignment procedures. Conclusion The three-way Neighbor-Net based alignment program aln3nn is shown to compare favorably on both protein sequences and nucleic acids sequences to other progressive alignment tools. In the latter case one easily can include scoring terms that consider secondary structure features. Overall, the quality of resulting alignments in general exceeds that of clustalw or other multiple alignments tools even though our software does not included heuristics for context dependent (mismatch scores.

  3. REPLICATION TOOL AND METHOD OF PROVIDING A REPLICATION TOOL

    DEFF Research Database (Denmark)

    2016-01-01

    structured master surface (3a, 3b, 3c, 3d) having a lateral master pattern and a vertical master profile. The microscale structured master surface (3a, 3b, 3c, 3d) has been provided by localized pulsed laser treatment to generate microscale phase explosions. A method for producing a part with microscale......The invention relates to a replication tool (1, 1a, 1b) for producing a part (4) with a microscale textured replica surface (5a, 5b, 5c, 5d). The replication tool (1, 1a, 1b) comprises a tool surface (2a, 2b) defining a general shape of the item. The tool surface (2a, 2b) comprises a microscale...... energy directors on flange portions thereof uses the replication tool (1, 1a, 1b) to form an item (4) with a general shape as defined by the tool surface (2a, 2b). The formed item (4) comprises a microscale textured replica surface (5a, 5b, 5c, 5d) with a lateral arrangement of polydisperse microscale...

  4. Locally adaptive regression filter-based infrared focal plane array non-uniformity correction

    Science.gov (United States)

    Li, Jia; Qin, Hanlin; Yan, Xiang; Huang, He; Zhao, Yingjuan; Zhou, Huixin

    2015-10-01

    Due to the limitations of the manufacturing technology, the response rates to the same infrared radiation intensity in each infrared detector unit are not identical. As a result, the non-uniformity of infrared focal plane array, also known as fixed pattern noise (FPN), is generated. To solve this problem, correcting the non-uniformity in infrared image is a promising approach, and many non-uniformity correction (NUC) methods have been proposed. However, they have some defects such as slow convergence, ghosting and scene degradation. To overcome these defects, a novel non-uniformity correction method based on locally adaptive regression filter is proposed. First, locally adaptive regression method is used to separate the infrared image into base layer containing main scene information and the detail layer containing detailed scene with FPN. Then, the detail layer sequence is filtered by non-linear temporal filter to obtain the non-uniformity. Finally, the high quality infrared image is obtained by subtracting non-uniformity component from original image. The experimental results show that the proposed method can significantly eliminate the ghosting and the scene degradation. The results of correction are superior to the THPF-NUC and NN-NUC in the aspects of subjective visual and objective evaluation index.

  5. Uniform versus Nonuniform Axial Power Distribution in Rod Bundle CHF Experiments

    Directory of Open Access Journals (Sweden)

    Baowen Yang

    2014-01-01

    Full Text Available Rod bundle experiments with axially uniform and nonuniform heat fluxes are examined to explore the potential limitations of using uniform rod bundle CHF data for CHF correlation development of light water reactors with nonuniform axial power distribution (APD. The case of upstream burnout is presented as an example of unique phenomena associated with nonuniform rod bundle CHF experiments. It is a result from combined effect of axial nonuniform power shape and different interchannel mixing mechanisms. In addition, several key parameters are investigated with respect to their potential impacts on the thermal-hydraulic behaviors between rod bundles with uniform and nonuniform APDs. This type of misrepresentation cannot be amended or compensated through the use of correction factors due to the lack of critical information in the uniform rod bundle CHF testing as well as the fundamental difference in the underlining driving mechanisms. Other potential issues involved with the use of uniform rod bundle CHF data for nonuniform APD system applications also present strong evidence concerning the limitations and inadequacy of using uniform rod bundle CHF data for the correlation, prediction, and design limit calculation for safety analysis.

  6. Experimental and theoretical studies of the effects of nonuniformities in equilibrium MHD generators

    Energy Technology Data Exchange (ETDEWEB)

    Rosenbaum, M.; Shamma, S.E.; Louis, J.F.

    1980-01-01

    An experimental study of the effects of thermal and velocity nonuniformities is performed in an equilibrium plasma for a range of Hall parameters. An electrodeless MHD disk generator with radial flow is chosen as the ideal geometry for these experiments. By introducing equally spaced cold blades in the flow, it is possible to create well defined two-dimensional wake nonuniformities with strong variations of the plasma properties in the direction normal to the magnetic field and the flow. This type of nonuniformity is predicted to provide the strongest reduction of Hall coefficient and effective conductivity for high values of Hall parameter. This degradation is controlled by both the level of nonuniformities and the value of the ideal Hall parameter. The former is dependent upon the number of blades (root mean square deviation of the conductivity), and the latter is dependent upon the values of the magnetic field intensities. The results provide basic quantitative information about the effects of conductivity and velocity nonuniformities on the performance of equilibrium MHD generators over a wide range of Hall coefficients, between 2 and 7. Reduction formulae are established between the effective and ideal Hall parameters for different levels of nonuniformities intensities. Theoretical predictions are derived from a detailed two-dimensional electrodynamic analysis and a simplified engineering model based on a generalization of Rosa's layer model. These experiments validate the analytical studies and support the use of the theoretical layer models in describing the effect of boundary layers on the performance of linear generators.

  7. Nonuniform grid implicit spatial finite difference method for acoustic wave modeling in tilted transversely isotropic media

    KAUST Repository

    Chu, Chunlei

    2012-01-01

    Discrete earth models are commonly represented by uniform structured grids. In order to ensure accurate numerical description of all wave components propagating through these uniform grids, the grid size must be determined by the slowest velocity of the entire model. Consequently, high velocity areas are always oversampled, which inevitably increases the computational cost. A practical solution to this problem is to use nonuniform grids. We propose a nonuniform grid implicit spatial finite difference method which utilizes nonuniform grids to obtain high efficiency and relies on implicit operators to achieve high accuracy. We present a simple way of deriving implicit finite difference operators of arbitrary stencil widths on general nonuniform grids for the first and second derivatives and, as a demonstration example, apply these operators to the pseudo-acoustic wave equation in tilted transversely isotropic (TTI) media. We propose an efficient gridding algorithm that can be used to convert uniformly sampled models onto vertically nonuniform grids. We use a 2D TTI salt model to demonstrate its effectiveness and show that the nonuniform grid implicit spatial finite difference method can produce highly accurate seismic modeling results with enhanced efficiency, compared to uniform grid explicit finite difference implementations. © 2011 Elsevier B.V.

  8. Aligned Layers of Silver Nano-Fibers

    Directory of Open Access Journals (Sweden)

    Andrii B. Golovin

    2012-02-01

    Full Text Available We describe a new dichroic polarizers made by ordering silver nano-fibers to aligned layers. The aligned layers consist of nano-fibers and self-assembled molecular aggregates of lyotropic liquid crystals. Unidirectional alignment of the layers is achieved by means of mechanical shearing. Aligned layers of silver nano-fibers are partially transparent to a linearly polarized electromagnetic radiation. The unidirectional alignment and density of the silver nano-fibers determine degree of polarization of transmitted light. The aligned layers of silver nano-fibers might be used in optics, microwave applications, and organic electronics.

  9. Replicator dynamics in value chains

    DEFF Research Database (Denmark)

    Cantner, Uwe; Savin, Ivan; Vannuccini, Simone

    2016-01-01

    The pure model of replicator dynamics though providing important insights in the evolution of markets has not found much of empirical support. This paper extends the model to the case of firms vertically integrated in value chains. We show that i) by taking value chains into account, the replicator...... dynamics may revert its effect. In these regressive developments of market selection, firms with low fitness expand because of being integrated with highly fit partners, and the other way around; ii) allowing partner's switching within a value chain illustrates that periods of instability in the early...... stage of industry life-cycle may be the result of an 'optimization' of partners within a value chain providing a novel and simple explanation to the evidence discussed by Mazzucato (1998); iii) there are distinct differences in the contribution to market selection between the layers of a value chain...

  10. ClustalXeed: a GUI-based grid computation version for high performance and terabyte size multiple sequence alignment

    Directory of Open Access Journals (Sweden)

    Kim Taeho

    2010-09-01

    Full Text Available Abstract Background There is an increasing demand to assemble and align large-scale biological sequence data sets. The commonly used multiple sequence alignment programs are still limited in their ability to handle very large amounts of sequences because the system lacks a scalable high-performance computing (HPC environment with a greatly extended data storage capacity. Results We designed ClustalXeed, a software system for multiple sequence alignment with incremental improvements over previous versions of the ClustalX and ClustalW-MPI software. The primary advantage of ClustalXeed over other multiple sequence alignment software is its ability to align a large family of protein or nucleic acid sequences. To solve the conventional memory-dependency problem, ClustalXeed uses both physical random access memory (RAM and a distributed file-allocation system for distance matrix construction and pair-align computation. The computation efficiency of disk-storage system was markedly improved by implementing an efficient load-balancing algorithm, called "idle node-seeking task algorithm" (INSTA. The new editing option and the graphical user interface (GUI provide ready access to a parallel-computing environment for users who seek fast and easy alignment of large DNA and protein sequence sets. Conclusions ClustalXeed can now compute a large volume of biological sequence data sets, which were not tractable in any other parallel or single MSA program. The main developments include: 1 the ability to tackle larger sequence alignment problems than possible with previous systems through markedly improved storage-handling capabilities. 2 Implementing an efficient task load-balancing algorithm, INSTA, which improves overall processing times for multiple sequence alignment with input sequences of non-uniform length. 3 Support for both single PC and distributed cluster systems.

  11. Therapeutic targeting of replicative immortality

    OpenAIRE

    Yaswen, Paul; MacKenzie, Karen L.; Keith, W. Nicol; Hentosh, Patricia; Rodier, Francis; Zhu, Jiyue; Firestone, Gary L.; Matheu, Ander; Carnero, Amancio; Bilsland, Alan; Sundin, Tabetha; Honoki, Kanya; Fujii, Hiromasa; Georgakilas, Alexandros G.; Amedei, Amedeo

    2015-01-01

    One of the hallmarks of malignant cell populations is the ability to undergo continuous proliferation. This property allows clonal lineages to acquire sequential aberrations that can fuel increasingly autonomous growth, invasiveness, and therapeutic resistance. Innate cellular mechanisms have evolved to regulate replicative potential as a hedge against malignant progression. When activated in the absence of normal terminal differentiation cues, these mechanisms can result in a state of persis...

  12. Alphavirus polymerase and RNA replication.

    Science.gov (United States)

    Pietilä, Maija K; Hellström, Kirsi; Ahola, Tero

    2017-01-16

    Alphaviruses are typically arthropod-borne, and many are important pathogens such as chikungunya virus. Alphaviruses encode four nonstructural proteins (nsP1-4), initially produced as a polyprotein P1234. nsP4 is the core RNA-dependent RNA polymerase but all four nsPs are required for RNA synthesis. The early replication complex (RC) formed by the polyprotein P123 and nsP4 synthesizes minus RNA strands, and the late RC composed of fully processed nsP1-nsP4 is responsible for the production of genomic and subgenomic plus strands. Different parts of nsP4 recognize the promoters for minus and plus strands but the binding also requires the other nsPs. The alphavirus polymerase has been purified and is capable of de novo RNA synthesis only in the presence of the other nsPs. The purified nsP4 also has terminal adenylyltransferase activity, which may generate the poly(A) tail at the 3' end of the genome. Membrane association of the nsPs is vital for replication, and alphaviruses induce membrane invaginations called spherules, which form a microenvironment for RNA synthesis by concentrating replication components and protecting double-stranded RNA intermediates. The RCs isolated as crude membrane preparations are active in RNA synthesis in vitro, but high-resolution structure of the RC has not been achieved, and thus the arrangement of viral and possible host components remains unknown. For some alphaviruses, Ras-GTPase-activating protein (Src-homology 3 (SH3) domain)-binding proteins (G3BPs) and amphiphysins have been shown to be essential for RNA replication and are present in the RCs. Host factors offer an additional target for antivirals, as only few alphavirus polymerase inhibitors have been described.

  13. Dynamic replication of Web contents

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    The phenomenal growth of the World Wide Web has brought huge increase in the traffic to the popular web sites.Long delays and denial of service experienced by the end-users,especially during the peak hours,continues to be the common problem while accessing popular sites.Replicating some of the objects at multiple sites in a distributed web-server environment is one of the possible solutions to improve the response time/Iatency. The decision of what and where to replicate requires solving a constraint optimization problem,which is NP-complete in general.In this paper, we consider the problem of placing copies of objects in a distributed web server system to minimize the cost of serving read and write requests when the web servers have Iimited storage capacity.We formulate the problem as a 0-1 optimization problem and present a polynomial time greedy algorithm with backtracking to dynamically replicate objects at the appropriate sites to minimize a cost function.To reduce the solution search space,we present necessary condi tions for a site to have a replica of an object jn order to minimize the cost function We present simulation resuIts for a variety of problems to illustrate the accuracy and efficiency of the proposed algorithms and compare them with those of some well-known algorithms.The simulation resuIts demonstrate the superiority of the proposed algorithms.

  14. On the resonance effects due to ground wires in transmission lines with non-uniform soil conductivity and non-uniform tower resistances

    Energy Technology Data Exchange (ETDEWEB)

    Faria, J.A. B. (Centro de Electrotecnia da Univ. Tecnica de Lisboa, Dept. of Electrical Engineering, Inst. Superior Tecnico, 1096 Lisboa Codex (PT))

    1992-01-01

    High frequency resonance effects due to shield wires grounding may affect carrier transmission performance at the vicinity of certain critical frequencies. In this paper the authors investigate if non-uniformities in soil conductivity and in tower footing resistances along the power line may lead to the suppression of such resonance effects. The simulation results the authors have obtained point towards a negative conclusion.

  15. Shuttle onboard IMU alignment methods

    Science.gov (United States)

    Henderson, D. M.

    1976-01-01

    The current approach to the shuttle IMU alignment is based solely on the Apollo Deterministic Method. This method is simple, fast, reliable and provides an accurate estimate for the present cluster to mean of 1,950 transformation matrix. If four or more star sightings are available, the application of least squares analysis can be utilized. The least squares method offers the next level of sophistication to the IMU alignment solution. The least squares method studied shows that a more accurate estimate for the misalignment angles is computed, and the IMU drift rates are a free by-product of the analysis. Core storage requirements are considerably more; estimated 20 to 30 times the core required for the Apollo Deterministic Method. The least squares method offers an intermediate solution utilizing as much data that is available without a complete statistical analysis as in Kalman filtering.

  16. Aligning seminars with Bologna requirements

    DEFF Research Database (Denmark)

    Lueg, Klarissa; Lueg, Rainer; Lauridsen, Ole

    2016-01-01

    Changes in public policy, such as the Bologna Process, require students to be equipped with multifunctional competencies to master relevant tasks in unfamiliar situations. Achieving this goal might imply a change in many curricula toward deeper learning. As a didactical means to achieve deep...... learning results, the authors suggest reciprocal peer tutoring (RPT); as a conceptual framework the authors suggest the SOLO (Structure of Observed Learning Outcomes) taxonomy and constructive alignment as suggested by Biggs and Tang. Our study presents results from the introduction of RPT in a large...... course. The authors find that RPT produces satisfying learning outcomes, active students, and ideal constructive alignments of the seminar content with the exam, the intended learning outcomes, and the requirements of the Bologna Process. Our data, which comprise surveys and evaluations from both faculty...

  17. Prism Window for Optical Alignment

    Science.gov (United States)

    Tang, Hong

    2008-01-01

    A prism window has been devised for use, with an autocollimator, in aligning optical components that are (1) required to be oriented parallel to each other and/or at a specified angle of incidence with respect to a common optical path and (2) mounted at different positions along the common optical path. The prism window can also be used to align a single optical component at a specified angle of incidence. Prism windows could be generally useful for orienting optical components in manufacture of optical instruments. "Prism window" denotes an application-specific unit comprising two beam-splitter windows that are bonded together at an angle chosen to obtain the specified angle of incidence.

  18. Aligned mesoporous architectures and devices.

    Energy Technology Data Exchange (ETDEWEB)

    Brinker, C. Jeffrey; Lu, Yunfeng (University of California Los Angeles, Los Angeles, CA)

    2011-03-01

    This is the final report for the Presidential Early Career Award for Science and Engineering - PECASE (LDRD projects 93369 and 118841) awarded to Professor Yunfeng Lu (Tulane University and University of California-Los Angeles). During the last decade, mesoporous materials with tunable periodic pores have been synthesized using surfactant liquid crystalline as templates, opening a new avenue for a wide spectrum of applications. However, the applications are somewhat limited by the unfavorabe pore orientation of these materials. Although substantial effort has been devoted to align the pore channels, fabrication of mesoporous materials with perpendicular pore channels remains challenging. This project focused on fabrication of mesoporous materials with perpendicularly aligned pore channels. We demonstrated structures for use in water purification, separation, sensors, templated synthesis, microelectronics, optics, controlled release, and highly selective catalysts.

  19. Dynamics of Non-Uniformity Loads of Afc Drives

    Science.gov (United States)

    Dolipski, Marian; Remiorz, Eryk; Sobota, Piotr

    2014-03-01

    The length of armoured face conveyors currently used in hard coal mines most often ranges between 200 m and 300 m. The machines are equipped with a main and auxiliary drive. Asynchronous motors mounted in conveyor drives feature the capacity of several hundreds of kilowatts. The non-uniform distribution of loads onto individual drives is observed in practice. The numerical value of loads distribution onto the individual armoured face conveyor drives is represented by a drive load distribution factor. It is defined as a ratio between the load of an electric motor installed in a given drive and the total conveyor load. The article presents a physical armoured face conveyor model intended for examining dynamic phenomena influencing the load non-uniformity of drives. Motion in this physical model is described with the system of (4 · j + 5) non-linear ordinary differential quotations of the second order. A mathematical model is obtained by adding functions describing the interwork of sprocket drums with chains and functions approximating the mechanical characteristics of asynchronous motors powered by means of frequency inverters. A large number of computer simulations was performed using this model enabling to study the impact on the load non-uniformity of drives of such parameters as motor slip, motor supply voltage drop, variations in supply voltage frequency, differences in the gear ratio of transmissions and differentiation in the pitch of scraper chain links along the chain contour. Długość przenośników zgrzebłowych ścianowych stosowanych obecnie w kopalniach węgla kamiennego najczęściej mieści się w przedziale od 200 m do 300 m. Maszyny te wyposażone są zawsze w napęd główny i pomocniczy, przy czym pierwszy z nich wyniesiony jest do chodnika podścianowego. Silniki napędowe o mocy kilkuset kilowatów napędzają bęben łańcuchowy przez sprzęgło i przekładnię zębatą. Z kolei bębny łańcuchowe poruszają łańcuch zgrzebłowy, kt

  20. The Cluster Substructure - Alignment Connection

    OpenAIRE

    Plionis, Manolis

    2001-01-01

    Using the APM cluster data we investigate whether the dynamical status of clusters is related to the large-scale structure of the Universe. We find that cluster substructure is strongly correlated with the tendency of clusters to be aligned with their nearest neighbour and in general with the nearby clusters that belong to the same supercluster. Furthermore, dynamically young clusters are more clustered than the overall cluster population. These are strong indications that cluster develop in ...

  1. Alignment in double capture processes

    Energy Technology Data Exchange (ETDEWEB)

    Moretto-Capelle, P.; Benhenni, M.; Bordenave-Montesquieu, A.; Benoit-Cattin, P.; Gleizes, A. (IRSAMC, URA CNRS 770, Univ. Paul Sabatier, 118 rte de Narbonne, 31062 Toulouse Cedex (France))

    1993-06-05

    The electron spectra emitted when a double capture occurs in N[sup 7+]+He and Ne[sup 8+]+He systems at 10 qkeV collisional energy, allow us to determine the angular distributions of the 3[ell]3[ell] [prime] lines through a special spectra fitting procedure which includes interferences between neighbouring states. It is found that the doubly excited states populated in double capture processes are generally aligned.

  2. GASSST: global alignment short sequence search tool

    National Research Council Canada - National Science Library

    Rizk, Guillaume; Lavenier, Dominique

    2010-01-01

    .... Our goal with our new aligner GASSST (Global Alignment Short Sequence Search Tool) is thus 2-fold-achieving high performance with no restrictions on the number of indels with a design that is still effective on long reads...

  3. Grain alignment in starless cores

    Energy Technology Data Exchange (ETDEWEB)

    Jones, T. J.; Bagley, M. [Minnesota Institute for Astrophysics, University of Minnesota, Minneapolis, MN 55455 (United States); Krejny, M. [Cree Inc., 4600 Silicon Dr., Durham, NC (United States); Andersson, B.-G. [SOFIA Science Center, USRA, Moffett Field, CA (United States); Bastien, P., E-mail: tjj@astro.umn.edu [Centre de recherche en astrophysique du Québec and Départment de Physique, Université de Montréal, Montréal (Canada)

    2015-01-01

    We present near-IR polarimetry data of background stars shining through a selection of starless cores taken in the K band, probing visual extinctions up to A{sub V}∼48. We find that P{sub K}/τ{sub K} continues to decline with increasing A{sub V} with a power law slope of roughly −0.5. Examination of published submillimeter (submm) polarimetry of starless cores suggests that by A{sub V}≳20 the slope for P versus τ becomes ∼−1, indicating no grain alignment at greater optical depths. Combining these two data sets, we find good evidence that, in the absence of a central illuminating source, the dust grains in dense molecular cloud cores with no internal radiation source cease to become aligned with the local magnetic field at optical depths greater than A{sub V}∼20. A simple model relating the alignment efficiency to the optical depth into the cloud reproduces the observations well.

  4. Evaluating replicability of laboratory experiments in economics.

    Science.gov (United States)

    Camerer, Colin F; Dreber, Anna; Forsell, Eskil; Ho, Teck-Hua; Huber, Jürgen; Johannesson, Magnus; Kirchler, Michael; Almenberg, Johan; Altmejd, Adam; Chan, Taizan; Heikensten, Emma; Holzmeister, Felix; Imai, Taisuke; Isaksson, Siri; Nave, Gideon; Pfeiffer, Thomas; Razen, Michael; Wu, Hang

    2016-03-25

    The replicability of some scientific findings has recently been called into question. To contribute data about replicability in economics, we replicated 18 studies published in the American Economic Review and the Quarterly Journal of Economics between 2011 and 2014. All of these replications followed predefined analysis plans that were made publicly available beforehand, and they all have a statistical power of at least 90% to detect the original effect size at the 5% significance level. We found a significant effect in the same direction as in the original study for 11 replications (61%); on average, the replicated effect size is 66% of the original. The replicability rate varies between 67% and 78% for four additional replicability indicators, including a prediction market measure of peer beliefs.

  5. Cactus: Algorithms for genome multiple sequence alignment

    OpenAIRE

    Paten, Benedict; Earl, Dent; Nguyen, Ngan; Diekhans, Mark; Zerbino, Daniel; Haussler, David

    2011-01-01

    Much attention has been given to the problem of creating reliable multiple sequence alignments in a model incorporating substitutions, insertions, and deletions. Far less attention has been paid to the problem of optimizing alignments in the presence of more general rearrangement and copy number variation. Using Cactus graphs, recently introduced for representing sequence alignments, we describe two complementary algorithms for creating genomic alignments. We have implemented these algorithms...

  6. Adenovirus sequences required for replication in vivo.

    OpenAIRE

    Wang, K.; Pearson, G D

    1985-01-01

    We have studied the in vivo replication properties of plasmids carrying deletion mutations within cloned adenovirus terminal sequences. Deletion mapping located the adenovirus DNA replication origin entirely within the first 67 bp of the adenovirus inverted terminal repeat. This region could be further subdivided into two functional domains: a minimal replication origin and an adjacent auxillary region which boosted the efficiency of replication by more than 100-fold. The minimal origin occup...

  7. Outer region scaling using the freestream velocity for nonuniform open channel flow over gravel

    Science.gov (United States)

    Stewart, Robert L.; Fox, James F.

    2017-06-01

    The theoretical basis for outer region scaling using the freestream velocity for nonuniform open channel flows over gravel is derived and tested for the first time. Owing to the gradual expansion of the flow within the nonuniform case presented, it is hypothesized that the flow can be defined as an equilibrium turbulent boundary layer using the asymptotic invariance principle. The hypothesis is supported using similarity analysis to derive a solution, followed by further testing with experimental datasets. For the latter, 38 newly collected experimental velocity profiles across three nonuniform flows over gravel in a hydraulic flume are tested as are 43 velocity profiles previously published in seven peer-reviewed journal papers that focused on fluid mechanics of nonuniform open channel over gravel. The findings support the nonuniform flows as equilibrium defined by the asymptotic invariance principle, which is reflective of the consistency of the turbulent structure's form and function within the expanding flow. However, roughness impacts the flow structure when comparing across the published experimental datasets. As a secondary objective, we show how previously published mixed scales can be used to assist with freestream velocity scaling of the velocity deficit and thus empirically account for the roughness effects that extend into the outer region of the flow. One broader finding of this study is providing the theoretical context to relax the use of the elusive friction velocity when scaling nonuniform flows in gravel bed rivers; and instead to apply the freestream velocity. A second broader finding highlighted by our results is that scaling of nonuniform flow in gravel bed rivers is still not fully resolved theoretically since mixed scaling relies to some degree on empiricism. As researchers resolve the form and function of macroturbulence in the outer region, we hope to see the closing of this research gap.

  8. An Overview of Multiple Sequence Alignment Systems

    CERN Document Server

    Saeed, Fahad

    2009-01-01

    An overview of current multiple alignment systems to date are described.The useful algorithms, the procedures adopted and their limitations are presented.We also present the quality of the alignments obtained and in which cases(kind of alignments, kind of sequences etc) the particular systems are useful.

  9. Physician-Hospital Alignment in Orthopedic Surgery.

    Science.gov (United States)

    Bushnell, Brandon D

    2015-09-01

    The concept of "alignment" between physicians and hospitals is a popular buzzword in the age of health care reform. Despite their often tumultuous histories, physicians and hospitals find themselves under increasing pressures to work together toward common goals. However, effective alignment is more than just simple cooperation between parties. The process of achieving alignment does not have simple, universal steps. Alignment will differ based on individual situational factors and the type of specialty involved. Ultimately, however, there are principles that underlie the concept of alignment and should be a part of any physician-hospital alignment efforts. In orthopedic surgery, alignment involves the clinical, administrative, financial, and even personal aspects of a surgeon's practice. It must be based on the principles of financial interest, clinical authority, administrative participation, transparency, focus on the patient, and mutual necessity. Alignment can take on various forms as well, with popular models consisting of shared governance and comanagement, gainsharing, bundled payments, accountable care organizations, and other methods. As regulatory and financial pressures continue to motivate physicians and hospitals to develop alignment relationships, new and innovative methods of alignment will also appear. Existing models will mature and evolve, with individual variability based on local factors. However, certain trends seem to be appearing as time progresses and alignment relationships deepen, including regional and national collaboration, population management, and changes in the legal system. This article explores the history, principles, and specific methods of physician-hospital alignment and its critical importance for the future of health care delivery.

  10. Vertically aligned nanostructure scanning probe microscope tips

    Science.gov (United States)

    Guillorn, Michael A.; Ilic, Bojan; Melechko, Anatoli V.; Merkulov, Vladimir I.; Lowndes, Douglas H.; Simpson, Michael L.

    2006-12-19

    Methods and apparatus are described for cantilever structures that include a vertically aligned nanostructure, especially vertically aligned carbon nanofiber scanning probe microscope tips. An apparatus includes a cantilever structure including a substrate including a cantilever body, that optionally includes a doped layer, and a vertically aligned nanostructure coupled to the cantilever body.

  11. Hardware Acceleration of Bioinformatics Sequence Alignment Applications

    NARCIS (Netherlands)

    Hasan, L.

    2011-01-01

    Biological sequence alignment is an important and challenging task in bioinformatics. Alignment may be defined as an arrangement of two or more DNA or protein sequences to highlight the regions of their similarity. Sequence alignment is used to infer the evolutionary relationship between a set of pr

  12. Alignment of lower-limb prostheses.

    Science.gov (United States)

    Zahedi, M S; Spence, W D; Solomonidis, S E; Paul, J P

    1986-04-01

    Alignment of a prosthesis is defined as the position of the socket relative to the other prosthetic components of the limb. During dynamic alignment the prosthetist, using subjective judgment and feedback from the patient, aims to achieve the most suitable limb geometry for best function and comfort. Until recently it was generally believed that a patient could only be satisfied with a unique "optimum alignment." The purpose of this systematic study of lower-limb alignment parameters was to gain an understanding of the factors that make a limb configuration or optimum alignment, acceptable to the patient, and to obtain a measure of the variation of this alignment that would be acceptable to the amputee. In this paper, the acceptable range of alignments for 10 below- and 10 above-knee amputees are established. Three prosthetists were involved in the majority of the 183 below-knee and 100 above-knee fittings, although several other prosthetists were also involved. The effects of each different prosthetist on the established range of alignment for each patient are reported to be significant. It is now established that an amputee can tolerate several alignments ranging in some parameters by as much as 148 mm in shifts and 17 degrees in tilts. This paper describes the method of defining and measuring the alignment of lower-limb prostheses. It presents quantitatively established values for bench alignment position and the range of adjustment required for incorporation into the design of new alignment units.

  13. Aligning Projection Images from Binary Volumes

    NARCIS (Netherlands)

    Bleichrodt, F.; Beenhouwer, J. de; Sijbers, J.; Batenburg, K.J.

    2014-01-01

    In tomography, slight differences between the geometry of the scanner hardware and the geometric model used in the reconstruction lead to alignment artifacts. To exploit high-resolution detectors used in many applications of tomography, alignment of the projection data is essential. Markerless align

  14. A cross-species alignment tool (CAT)

    DEFF Research Database (Denmark)

    Li, Heng; Guan, Liang; Liu, Tao;

    2007-01-01

    sensitive methods which are usually applied in aligning inter-species sequences. RESULTS: Here we present a new algorithm called CAT (for Cross-species Alignment Tool). It is designed to align mRNA sequences to mammalian-sized genomes. CAT is implemented using C scripts and is freely available on the web...

  15. Inferring comprehensible business/ICT alignment rules

    NARCIS (Netherlands)

    Cumps, B.; Martens, D.; De Backer, M.; Haesen, R.; Viaene, S.; Dedene, G.; Baesens, B.; Snoeck, M.

    2009-01-01

    We inferred business rules for business/ICT alignment by applying a novel rule induction algorithm on a data set containing rich alignment information polled from 641 organisations in 7 European countries. The alignment rule set was created using AntMiner+, a rule induction technique with a reputati

  16. Shift dynamics of capillary self-alignment

    NARCIS (Netherlands)

    Arutinov, G.; Mastrangeli, M.; Smits, E.C.P.; Heck, G.V.; Schoo, H.F.M.; Toonder, J.J.M. den; Dietzel, A.H.

    2014-01-01

    This paper describes the dynamics of capillary self-alignment of components with initial shift offsets from matching receptor sites. The analysis of the full uniaxial self-alignment dynamics of foil-based mesoscopic dies from pre-alignment to final settling evidenced three distinct, sequential regim

  17. Strategic Alignment and New Product Development

    DEFF Research Database (Denmark)

    Acur, Nuran; Kandemir, Destan; Boer, Harry

    2012-01-01

    Strategic alignment is widely accepted as a prerequisite for a firm’s success, but insight into the role of alignment in, and its impact on, the new product evelopment (NPD) process and its performance is less well developed. Most publications on this topic either focus on one form of alignment o...

  18. Replication Origin Specification Gets a Push.

    Science.gov (United States)

    Plosky, Brian S

    2015-12-03

    During the gap between G1 and S phases when replication origins are licensed and fired, it is possible that DNA translocases could disrupt pre-replicative complexes (pre-RCs). In this issue of Molecular Cell, Gros et al. (2015) find that pre-RCs can be pushed along DNA and retain the ability to support replication.

  19. Exploiting replicative stress to treat cancer

    DEFF Research Database (Denmark)

    Dobbelstein, Matthias; Sørensen, Claus Storgaard

    2015-01-01

    DNA replication in cancer cells is accompanied by stalling and collapse of the replication fork and signalling in response to DNA damage and/or premature mitosis; these processes are collectively known as 'replicative stress'. Progress is being made to increase our understanding of the mechanisms...

  20. Aligning molecules with intense nonresonant laser fields

    DEFF Research Database (Denmark)

    Larsen, J.J.; Safvan, C.P.; Sakai, H.

    1999-01-01

    Molecules in a seeded supersonic beam are aligned by the interaction between an intense nonresonant linearly polarized laser field and the molecular polarizability. We demonstrate the general applicability of the scheme by aligning I2, ICl, CS2, CH3I, and C6H5I molecules. The alignment is probed...... by mass selective two dimensional imaging of the photofragment ions produced by femtosecond laser pulses. Calculations on the degree of alignment of I2 are in good agreement with the experiments. We discuss some future applications of laser aligned molecules....

  1. Subsonic Mechanical Alignment of Irregular Grains

    CERN Document Server

    Lazarian, Alex

    2007-01-01

    We show that grains can be efficiently aligned by interacting with a subsonic gaseous flow. The alignment arises from grains having irregularities that scatter atoms with different efficiency in the right and left directions. The grains tend to align with long axes perpendicular to magnetic field, which corresponds to Davis-Greenstein predictions, but does not involve magnetic field. For rather conservative factors characterizing the grain helicity and scattering efficiency of impinging atoms, the alignment of helical grains is much more efficient than the Gold-type alignment processes.

  2. The emergence of nonuniform spatiotemporal fractionation schemes within the standard BED model

    Energy Technology Data Exchange (ETDEWEB)

    Unkelbach, Jan, E-mail: junkelbach@mgh.harvard.edu; Papp, Dávid [Department of Radiation Oncology, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts 02114 (United States)

    2015-05-15

    Purpose: Nonuniform spatiotemporal radiotherapy fractionation schemes, i.e., delivering distinct dose distributions in different fractions can potentially improve the therapeutic ratio. This is possible if the dose distributions are designed such that similar doses are delivered to normal tissues (exploit the fractionation effect) while hypofractionating subregions of the tumor. In this paper, the authors develop methodology for treatment planning with nonuniform fractions and demonstrate this concept in the context of intensity-modulated proton therapy (IMPT). Methods: Treatment planning is performed by simultaneously optimizing (possibly distinct) IMPT dose distributions for multiple fractions. This is achieved using objective and constraint functions evaluated for the cumulative biologically equivalent dose (BED) delivered at the end of treatment. BED based treatment planning formulations lead to nonconvex optimization problems, such that local gradient based algorithms require adequate starting positions to find good local optima. To that end, the authors develop a combinatorial algorithm to initialize the pencil beam intensities. Results: The concept of nonuniform spatiotemporal fractionation schemes is demonstrated for a spinal metastasis patient treated in two fractions using stereotactic body radiation therapy. The patient is treated with posterior oblique beams with the kidneys being located in the entrance region of the beam. It is shown that a nonuniform fractionation scheme that hypofractionates the central part of the tumor allows for a skin and kidney BED reduction of approximately 10%–20%. Conclusions: Nonuniform spatiotemporal fractionation schemes represent a novel approach to exploit fractionation effects that deserves further exploration for selected disease sites.

  3. An improved retina-like nonuniformity correction for infrared focal-plane array

    Science.gov (United States)

    Yu, Hui; Zhang, Zhi-jie; Wang, Chen-sheng

    2015-11-01

    The non-uniform response in infrared focal plane array (IRFPA) detectors produces corrupted images with nonuniformity noise. This paper mainly proposes an improved adaptive nonuniformity correction (NUC) method based on the retina-like neural network approach. The main purpose of NUC method is to obtain reliable estimations of gain and offset parameters. In this paper the two correction parameters are updated with two different learning rates respectively for the purpose of updating these two parameters synchronously. And then more accurate estimations of the two correction parameters can be obtained. Again, in order to reduce the ghost artifacts normally introduced by the strong edge effectively, the proposed algorithm employs the non-local means (NLM) method to estimate the desired target value of each detector. The proposed NUC method has been tested by applying it to the IR sequence of frames with simulated nonuniformity noise and real nonuniformity noise, respectively. The performance comparisons are implemented with the well-established scene-based NUC techniques. And the experimental results show the efficiency of the proposed method.

  4. Enhanced Efficiencies for High-Concentration, Multijunction PV Systems by Optimizing Grid Spacing under Nonuniform Illumination

    Directory of Open Access Journals (Sweden)

    Pratibha Sharma

    2014-01-01

    Full Text Available The design of a triple junction solar cell’s front contact grid can significantly affect cell conversion efficiency under high concentration. We consider one aspect of grid design, choosing a linear grid within a distributed resistance cell model to optimize finger spacings at concentrations between 500 and 2500 suns under uniform and nonuniform illumination. Optimization for maximum efficiency under Gaussian irradiance profiles is done by SPICE analysis. Relative to the optimized uniform illumination designs, we find enhancements of 0.5% to 2% in absolute efficiencies for uniform spacing. Efficiency enhancement with nonuniform spacing under nonuniform illumination is also evaluated. Our model suggests that, at lower concentrations (<1000 suns, the penalty for using uniformly spaced fingers instead of nonuniformly spaced fingers is <0.1%. However, at a concentration of 2500 suns the penalty increases to 0.3%. Thus, relative to a uniform irradiance optimization, an absolute efficiency increase of 2.3% can be attained for an optimized nonuniform spacing given the Gaussian irradiance profile under consideration.

  5. Space cutter compensation method for five-axis nonuniform rational basis spline machining

    Directory of Open Access Journals (Sweden)

    Yanyu Ding

    2015-07-01

    Full Text Available In view of the good machining performance of traditional three-axis nonuniform rational basis spline interpolation and the space cutter compensation issue in multi-axis machining, this article presents a triple nonuniform rational basis spline five-axis interpolation method, which uses three nonuniform rational basis spline curves to describe cutter center location, cutter axis vector, and cutter contact point trajectory, respectively. The relative position of the cutter and workpiece is calculated under the workpiece coordinate system, and the cutter machining trajectory can be described precisely and smoothly using this method. The three nonuniform rational basis spline curves are transformed into a 12-dimentional Bézier curve to carry out discretization during the discrete process. With the cutter contact point trajectory as the precision control condition, the discretization is fast. As for different cutters and corners, the complete description method of space cutter compensation vector is presented in this article. Finally, the five-axis nonuniform rational basis spline machining method is further verified in a two-turntable five-axis machine.

  6. Effects of Nonuniform Incident Illumination on the Thermal Performance of a Concentrating Triple Junction Solar Cell

    Directory of Open Access Journals (Sweden)

    Fahad Al-Amri

    2014-01-01

    Full Text Available A numerical heat transfer model was developed to investigate the temperature of a triple junction solar cell and the thermal characteristics of the airflow in a channel behind the solar cell assembly using nonuniform incident illumination. The effects of nonuniformity parameters, emissivity of the two channel walls, and Reynolds number were studied. The maximum solar cell temperature sharply increased in the presence of nonuniform light profiles, causing a drastic reduction in overall efficiency. This resulted in two possible solutions for solar cells to operate in optimum efficiency level: (i adding new receiver plate with higher surface area or (ii using forced cooling techniques to reduce the solar cell temperature. Thus, surface radiation exchanges inside the duct and Re significantly reduced the maximum solar cell temperature, but a conventional plain channel cooling system was inefficient for cooling the solar cell at medium concentrations when the system was subjected to a nonuniform light distribution. Nonuniformity of the incident light and surface radiation in the duct had negligible effects on the collected thermal energy.

  7. Replication of micro and nano surface geometries

    DEFF Research Database (Denmark)

    Hansen, Hans Nørgaard; Hocken, R.J.; Tosello, Guido

    2011-01-01

    : manufacture of net-shape micro/nano surfaces, tooling (i.e. master making), and surface quality control (metrology, inspection). Replication processes and methods as well as the metrology of surfaces to determine the degree of replication are presented and classified. Examples from various application areas...... are given including replication for surface texture measurements, surface roughness standards, manufacture of micro and nano structured functional surfaces, replicated surfaces for optical applications (e.g. optical gratings), and process chains based on combinations of repeated surface replication steps....

  8. Replication of prions in differentiated muscle cells.

    Science.gov (United States)

    Herbst, Allen; Aiken, Judd M; McKenzie, Debbie

    2014-01-01

    We have demonstrated that prions accumulate to high levels in non-proliferative C2C12 myotubes. C2C12 cells replicate as myoblasts but can be differentiated into myotubes. Earlier studies indicated that C2C12 myoblasts are not competent for prion replication. (1) We confirmed that observation and demonstrated, for the first time, that while replicative myoblasts do not accumulate PrP(Sc), differentiated post-mitotic myotube cultures replicate prions robustly. Here we extend our observations and describe the implication and utility of this system for replicating prions.

  9. Simple, Fast and Effective Correction for Irradiance Spatial Nonuniformity in Measurement of IVs of Large Area Cells at NREL

    Energy Technology Data Exchange (ETDEWEB)

    Moriarty, Tom

    2016-11-21

    The NREL cell measurement lab measures the IV parameters of cells of multiple sizes and configurations. A large contributing factor to errors and uncertainty in Jsc, Imax, Pmax and efficiency can be the irradiance spatial nonuniformity. Correcting for this nonuniformity through its precise and frequent measurement can be very time consuming. This paper explains a simple, fast and effective method based on bicubic interpolation for determining and correcting for spatial nonuniformity and verification of the method's efficacy.

  10. RevTrans: multiple alignment of coding DNA from aligned amino acid sequences

    DEFF Research Database (Denmark)

    Wernersson, Rasmus; Pedersen, Anders Gorm

    2003-01-01

    The simple fact that proteins are built from 20 amino acids while DNA only contains four different bases, means that the 'signal-to-noise ratio' in protein sequence alignments is much better than in alignments of DNA. Besides this information-theoretical advantage, protein alignments also benefit...... proteins. It is therefore preferable to align coding DNA at the amino acid level and it is for this purpose we have constructed the program RevTrans. RevTrans constructs a multiple DNA alignment by: (i) translating the DNA; (ii) aligning the resulting peptide sequences; and (iii) building a multiple DNA...... alignment by 'reverse translation' of the aligned protein sequences. In the resulting DNA alignment, gaps occur in groups of three corresponding to entire codons, and analogous codon positions are therefore always lined up. These features are useful when constructing multiple DNA alignments for phylogenetic...

  11. Galaxy alignments: Theory, modelling and simulations

    CERN Document Server

    Kiessling, Alina; Joachimi, Benjamin; Kirk, Donnacha; Kitching, Thomas D; Leonard, Adrienne; Mandelbaum, Rachel; Schäfer, Björn Malte; Sifón, Cristóbal; Brown, Michael L; Rassat, Anais

    2015-01-01

    The shapes of galaxies are not randomly oriented on the sky. During the galaxy formation and evolution process, environment has a strong influence, as tidal gravitational fields in large-scale structure tend to align the shapes and angular momenta of nearby galaxies. Additionally, events such as galaxy mergers affect the relative alignments of galaxies throughout their history. These "intrinsic galaxy alignments" are known to exist, but are still poorly understood. This review will offer a pedagogical introduction to the current theories that describe intrinsic galaxy alignments, including the apparent difference in intrinsic alignment between early- and late-type galaxies and the latest efforts to model them analytically. It will then describe the ongoing efforts to simulate intrinsic alignments using both $N$-body and hydrodynamic simulations. Due to the relative youth of this field, there is still much to be done to understand intrinsic galaxy alignments and this review summarises the current state of the ...

  12. FOGSAA: Fast Optimal Global Sequence Alignment Algorithm

    Science.gov (United States)

    Chakraborty, Angana; Bandyopadhyay, Sanghamitra

    2013-04-01

    In this article we propose a Fast Optimal Global Sequence Alignment Algorithm, FOGSAA, which aligns a pair of nucleotide/protein sequences faster than any optimal global alignment method including the widely used Needleman-Wunsch (NW) algorithm. FOGSAA is applicable for all types of sequences, with any scoring scheme, and with or without affine gap penalty. Compared to NW, FOGSAA achieves a time gain of (70-90)% for highly similar nucleotide sequences (> 80% similarity), and (54-70)% for sequences having (30-80)% similarity. For other sequences, it terminates with an approximate score. For protein sequences, the average time gain is between (25-40)%. Compared to three heuristic global alignment methods, the quality of alignment is improved by about 23%-53%. FOGSAA is, in general, suitable for aligning any two sequences defined over a finite alphabet set, where the quality of the global alignment is of supreme importance.

  13. Alignment method for solar collector arrays

    Science.gov (United States)

    Driver, Jr., Richard B

    2012-10-23

    The present invention is directed to an improved method for establishing camera fixture location for aligning mirrors on a solar collector array (SCA) comprising multiple mirror modules. The method aligns the mirrors on a module by comparing the location of the receiver image in photographs with the predicted theoretical receiver image location. To accurately align an entire SCA, a common reference is used for all of the individual module images within the SCA. The improved method can use relative pixel location information in digital photographs along with alignment fixture inclinometer data to calculate relative locations of the fixture between modules. The absolute locations are determined by minimizing alignment asymmetry for the SCA. The method inherently aligns all of the mirrors in an SCA to the receiver, even with receiver position and module-to-module alignment errors.

  14. Aligning Sequences by Minimum Description Length

    Directory of Open Access Journals (Sweden)

    John S. Conery

    2008-01-01

    Full Text Available This paper presents a new information theoretic framework for aligning sequences in bioinformatics. A transmitter compresses a set of sequences by constructing a regular expression that describes the regions of similarity in the sequences. To retrieve the original set of sequences, a receiver generates all strings that match the expression. An alignment algorithm uses minimum description length to encode and explore alternative expressions; the expression with the shortest encoding provides the best overall alignment. When two substrings contain letters that are similar according to a substitution matrix, a code length function based on conditional probabilities defined by the matrix will encode the substrings with fewer bits. In one experiment, alignments produced with this new method were found to be comparable to alignments from CLUSTALW. A second experiment measured the accuracy of the new method on pairwise alignments of sequences from the BAliBASE alignment benchmark.

  15. DNA replication stress: causes, resolution and disease.

    Science.gov (United States)

    Mazouzi, Abdelghani; Velimezi, Georgia; Loizou, Joanna I

    2014-11-15

    DNA replication is a fundamental process of the cell that ensures accurate duplication of the genetic information and subsequent transfer to daughter cells. Various pertubations, originating from endogenous or exogenous sources, can interfere with proper progression and completion of the replication process, thus threatening genome integrity. Coordinated regulation of replication and the DNA damage response is therefore fundamental to counteract these challenges and ensure accurate synthesis of the genetic material under conditions of replication stress. In this review, we summarize the main sources of replication stress and the DNA damage signaling pathways that are activated in order to preserve genome integrity during DNA replication. We also discuss the association of replication stress and DNA damage in human disease and future perspectives in the field. Copyright © 2014 The Authors. Published by Elsevier Inc. All rights reserved.

  16. Replication Stress: A Lifetime of Epigenetic Change

    Directory of Open Access Journals (Sweden)

    Simran Khurana

    2015-09-01

    Full Text Available DNA replication is essential for cell division. Challenges to the progression of DNA polymerase can result in replication stress, promoting the stalling and ultimately collapse of replication forks. The latter involves the formation of DNA double-strand breaks (DSBs and has been linked to both genome instability and irreversible cell cycle arrest (senescence. Recent technological advances have elucidated many of the factors that contribute to the sensing and repair of stalled or broken replication forks. In addition to bona fide repair factors, these efforts highlight a range of chromatin-associated changes at and near sites of replication stress, suggesting defects in epigenome maintenance as a potential outcome of aberrant DNA replication. Here, we will summarize recent insight into replication stress-induced chromatin-reorganization and will speculate on possible adverse effects for gene expression, nuclear integrity and, ultimately, cell function.

  17. Pupil Alignment Measuring Technique and Alignment Reference for Instruments or Optical Systems

    Science.gov (United States)

    Hagopian, John G.

    2010-01-01

    A technique was created to measure the pupil alignment of instruments in situ by measuring calibrated pupil alignment references (PARs) in instruments. The PAR can also be measured using an alignment telescope or an imaging system. PAR allows the verification of the science instrument (SI) pupil alignment at the integrated science instrument module (ISIM) level of assembly at ambient and cryogenic operating temperature. This will allow verification of the ISIM+SI alignment, and provide feedback to realign the SI if necessary.

  18. MEANS FOR DETERMINING CENTRIFUGE ALIGNMENT

    Science.gov (United States)

    Smith, W.Q.

    1958-08-26

    An apparatus is presented for remotely determining the alignment of a centrifuge. The centrifage shaft is provided with a shoulder, upon which two followers ride, one for detecting radial movements, and one upon the shoulder face for determining the axial motion. The followers are attached to separate liquid filled bellows, and a tube connects each bellows to its respective indicating gage at a remote location. Vibrations produced by misalignment of the centrifuge shaft are transmitted to the bellows, and tbence through the tubing to the indicator gage. This apparatus is particularly useful for operation in a hot cell where the materials handled are dangerous to the operating personnel.

  19. Aligned interactions in cosmic rays

    Energy Technology Data Exchange (ETDEWEB)

    Kempa, J., E-mail: kempa@pw.plock.pl [Warsaw University of Technology Branch Plock (Poland)

    2015-12-15

    The first clean Centauro was found in cosmic rays years many ago at Mt Chacaltaya experiment. Since that time, many people have tried to find this type of interaction, both in cosmic rays and at accelerators. But no one has found a clean cases of this type of interaction.It happened finally in the last exposure of emulsion at Mt Chacaltaya where the second clean Centauro has been found. The experimental data for both the Centauros and STRANA will be presented and discussed in this paper. We also present our comments to the intriguing question of the existence of a type of nuclear interactions at high energy with alignment.

  20. Increased dermal collagen bundle alignment in systemic sclerosis is associated with a cell migration signature and role of Arhgdib in directed fibroblast migration on aligned ECMs.

    Science.gov (United States)

    Cao, Lizhi; Lafyatis, Robert; Burkly, Linda C

    2017-01-01

    Systemic sclerosis (SSc) is a devastating disease affecting the skin and internal organs. Dermal fibrosis manifests early and Modified Rodnan Skin Scores (MRSS) correlate with disease progression. Transcriptomics of SSc skin biopsies suggest the role of the in vivo microenvironment in maintaining the pathological myofibroblasts. Therefore, defining the structural changes in dermal collagen in SSc patients could inform our understanding of fibrosis pathogenesis. Here, we report a method for quantitative whole-slide image analysis of dermal collagen from SSc patients, and our findings of more aligned dermal collagen bundles in diffuse cutaneous SSc (dcSSc) patients. Using the bleomycin-induced mouse model of SSc, we identified a distinct high dermal collagen bundle alignment gene signature, characterized by a concerted upregulation in cell migration, adhesion, and guidance pathways, and downregulation of spindle, replication, and cytokinesis pathways. Furthermore, increased bundle alignment induced a cell migration gene signature in fibroblasts in vitro, and these cells demonstrated increased directed migration on aligned ECM fibers that is dependent on expression of Arhgdib (Rho GDP-dissociation inhibitor 2). Our results indicate that increased cell migration is a cellular response to the increased collagen bundle alignment featured in fibrotic skin. Moreover, many of the cell migration genes identified in our study are shared with human SSc skin and may be new targets for therapeutic intervention.

  1. A curvature filter and PDE based non-uniformity correction algorithm

    Science.gov (United States)

    Cheng, Kuanhong; Zhou, Huixin; Qin, Hanlin; Zhao, Dong; Qian, Kun; Rong, Shenghui; Yin, Shimin

    2016-10-01

    In this paper, a curvature filter and PDE based non-uniformity correction algorithm is proposed, the key point of this algorithm is the way to estimate FPN. We use anisotropic diffusion to smooth noise and Gaussian curvature filter to extract the details of original image. Then combine these two parts together by guided image filter and subtract the result from original image to get the crude approximation of FPN. After that, a Temporal Low Pass Filter (TLPF) is utilized to filter out random noise and get the accurate FPN. Finally, subtract the FPN from original image to achieve non-uniformity correction. The performance of this algorithm is tested with two infrared image sequences, and the experimental results show that the proposed method achieves a better non-uniformity correction performance.

  2. Investigation and modeling of the avalanche effect in MOSFETs with non-uniform finger spacing

    Institute of Scientific and Technical Information of China (English)

    Liu Jun; Sun Lingling; Marissa Condon

    2011-01-01

    This paper investigates the effect of a non-uniform gate-finger spacing layout structure on the avalanche breakdown performance of RF CMOS technology.Compared with a standard multi-finger device with uniform gate-finger spacing,a device with non-uniform gate-finger spacing represents an improvement of 8.5% for the drain-source breakdown voltage(BVds)and of 20% for the thermally-related drain conductance.A novel compact model is proposed to accurately predict the variation of BVds with the total area of devices,which is dependent on the different finger spacing sizes.The model is verified and validated by the excellent match between the measured and simulated avalanche breakdown characteristics for a set of uniform and non-uniform gate-finger spacing arranged nMOSFETs.

  3. On natural frequencies of non-uniform beams modulated by finite periodic cells

    Science.gov (United States)

    Xu, Yanlong; Zhou, Xiaoling; Wang, Wei; Wang, Longqi; Peng, Fujun; Li, Bin

    2016-09-01

    It is well known that an infinite periodic beam can support flexural wave band gaps. However, in real applications, the number of the periodic cells is always limited. If a uniform beam is replaced by a non-uniform beam with finite periodicity, the vibration changes are vital by mysterious. This paper employs the transfer matrix method (TMM) to study the natural frequencies of the non-uniform beams with modulation by finite periodic cells. The effects of the amounts, cross section ratios, and arrangement forms of the periodic cells on the natural frequencies are explored. The relationship between the natural frequencies of the non-uniform beams with finite periodicity and the band gap boundaries of the corresponding infinite periodic beam is also investigated. Numerical results and conclusions obtained here are favorable for designing beams with good vibration control ability.

  4. Computer Simulation of Nonuniform MTLs via Implicit Wendroff and State-Variable Methods

    Directory of Open Access Journals (Sweden)

    L. Brancik

    2011-04-01

    Full Text Available The paper deals with techniques for a computer simulation of nonuniform multiconductor transmission lines (MTLs based on the implicit Wendroff and the statevariable methods. The techniques fall into a class of finitedifference time-domain (FDTD methods useful to solve various electromagnetic systems. Their basic variants are extended and modified to enable solving both voltage and current distributions along nonuniform MTL’s wires and their sensitivities with respect to lumped and distributed parameters. An experimental error analysis is performed based on the Thomson cable whose analytical solutions are known, and some examples of simulation of both uniform and nonuniform MTLs are presented. Based on the Matlab language programme, CPU times are analyzed to compare efficiency of the methods. Some results for nonlinear MTLs simulation are presented as well.

  5. Application of nonlocal criteria for destruction in problems with a nonuniform stress field

    Science.gov (United States)

    Chevrychkina, A. A.; Gruzdkov, A. A.; Petrov, Yu. V.

    2017-08-01

    The dependence of the critical load on the degree of nonuniformity of the stress field is considered on the example of polymethylmethacrylate beams and plates with a round hole or a sharp notch. It is proposed to use nonlocal criteria for brittle fracture to describe the behavior of a nonuniformly stressed material. Among the criteria considered, the structural criterion is the most universal, because, in this case, the distance parameter d is least dependent on the test configuration. The distance parameters in problems with a regular concentrator are of the same order of magnitude, as in problems with a singular stress concentrator. A further modification of the criterion that takes into account the properties of the fracture process will probably make it possible to obtain a unique value for the length parameter for any degree of nonuniformity of the stress field.

  6. Basic types of nonuniformities and their manifestation in the galvanomagnetic properties of especially pure silicon

    Energy Technology Data Exchange (ETDEWEB)

    Ostroborodova, V.V.

    1987-12-01

    A method is proposed for analyzing the type of nonuniformities in a single-crystalline pure material based on the changes in the asymmetry resistances, determined from the magnitudes of the external potentials on the Hall contacts, in a magnetic field. By comparing their magnetic-field dependences with the analogous dependences of the Hall constant and of the resistivity, measured with different polarities of the voltage applied to the sample, it is shown that the asymmetry resistances are the parameters which are most sensitive to nonuniformity. It was found that nonuniformities of the compensation type, i.e., space-charge regions in which the minority carriers make an appreciable contribution to the Hall constant, are systematically manifested in crystals of especially pure high-resistance silicon. The effective Hall factors were calculated under the conditions of Hall bipolarity of the impurity conductivity and the results are compared with the experimental data.

  7. SHEAR STRESS FOR INITIATION OF MOTION OF NON-UNIFORM SEDIMENT MIXTURES

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Experiments on initiation of motion of different fractions of non-uniform sediment mixtures are reported. Four sediment mixes and reference transport method to define the threshold of bed particle movement are used in this analysis. Factors controlling the initiation of motion are analyzed. It is found that relative size of different grains with respect to a median size greatly affects the initiation of movement. The incipient motion of non-uniform sediment is very much dependent on the absolute size for coarser fractions.Considering the factors controlling the initiation of motion the experimental data sets along with the other available data yield a new relationship for the calculation of critical shear stress of non-uniform sediments. A set of equations have found that all the data points fall into a single line for the finer and for coarser fractions.

  8. Velocity field of streams in nonuniform constant magnetic fields. Part 1: numerical calculations

    Energy Technology Data Exchange (ETDEWEB)

    Gel' fgat, Yu.M.; Peterson, D.Ye.; Shcherbinin, E.V.

    1978-01-01

    Steady flow of a conducting fluid through a rectangular pipe in nonuniform magnetic fields of various configurations is analyzed and the results are found to depend on whether the magnetic field is assumed to have only a transverse or also a longitudinal component. Velocity and potential profiles are calculated numerically for each case, according to grids with various step sizes, also for an asymmetrically nonuniform and for a periodically nonuniform magnetic field. The feasibility of establishing practically any desired flow pattern by tailoring the magnetic field has thus been established, but the success of this procedure depends largely on the choice of the computation scheme and on the accuracy of computations, as well as on the assumptions made concerning the distribution of the magnetic field. 9 references, 6 figures.

  9. Vibration of nonuniform carbon nanotube with attached mass via nonlocal Timoshenko beam theory

    Energy Technology Data Exchange (ETDEWEB)

    Tang, Hai Li; Shen, Zhi Bin; Li, Dao Kui [National University of Defense Technology, Changsha (China)

    2014-09-15

    This paper studies the vibrational behavior of nonuniform single-walled carbon nanotube (SWCNT) carrying a nanoparticle. A nonuniform cantilever beam with a concentrated mass at the free end is analyzed according to the nonlocal Timoshenko beam theory. A governing equation of a nonuniform SWCNT with attached mass is established. The transfer function method incorporating with the perturbation method is utilized to obtain the resonant frequencies of a vibrating nonlocal cantilever-mass system. The effects of the nonlocal parameter, taper ratio and attached mass on the natural frequencies and frequency shifts are discussed. Obtained results indicate that the sensitivity of the frequency shifts on the attached mass increases when the length-to-diameter ratio decreases. Tapered SWCNT possesses higher fundamental frequencies if the taper ratio becomes larger.

  10. Velocity-aligned Doppler spectroscopy

    Energy Technology Data Exchange (ETDEWEB)

    Xu, Z.; Koplitz, B.; Wittig, C.

    1989-03-01

    The technique of velocity-aligned Doppler spectrosocopy (VADS) is presented and discussed. For photolysis/probe experiments with pulsed initiation, VADS can yield Doppler profiles for nascent photofragments that allow detailed center-of-mass (c.m.) kinetic energy distributions to be extracted. When compared with traditional forms of Doppler spectroscopy, the improvement in kinetic energy resolution is dramatic. Changes in the measured profiles are a consequence of spatial discrimination (i.e., focused and overlapping photolysis and probe beams) and delayed observation. These factors result in the selective detection of species whose velocities are aligned with the wave vector of the probe radiation k/sub pr/, thus revealing the speed distribution along k/sub pr/ rather than the distribution of nascent velocity components projected upon this direction. Mathematical details of the procedure used to model VADS are given, and experimental illustrations for HI, H/sub 2/S, and NH/sub 3/ photodissociation are presented. In these examples, pulsed photodissociation produces H atoms that are detected by sequential two-photon, two-frequency ionization via Lyman-..cap alpha.. with a pulsed laser (121.6+364.7 nm), and measuring the Lyman-..cap alpha.. Doppler profile as a function of probe delay reveals both internal and c.m. kinetic energy distributions for the photofragments. Strengths and weaknesses of VADS as a tool for investigating photofragmentation phenomena are also discussed.

  11. Simulations of beam emittance growth from the collectiverelaxation of space-charge nonuniformities

    Energy Technology Data Exchange (ETDEWEB)

    Lund, Steven M.; Grote, David P.; Davidson, Ronald C.

    2004-05-01

    Beams injected into a linear focusing channel typically have some degree of space-charge nonuniformity. For unbunched beams with high space-charge intensity propagating in linear focusing channels, Debye screening of self-field interactions tends to make the transverse density profile flat. An injected particle distribution with a large systematic charge nonuniformity will generally be far from an equilibrium of the focusing channel and the initial condition will launch a broad spectrum of collective modes. These modes can phase-mix and experience nonlinear interactions which result in an effective relaxation to a more thermal-equilibrium-like distribution characterized by a uniform density profile. This relaxation transfers self-field energy from the initial space-charge nonuniformity to the local particle temperature, thereby increasing beam phase space area (emittance growth). Here they employ two-dimensional electrostatic particle in cell (PIC) simulations to investigate the effects of initial transverse space-charge nonuniformities on the equality of beams with high space-charge intensity propagating in a continuous focusing channel. Results are compared to theoretical bounds of emittance growth developed in previous studies. Consistent with earlier theory, it is found that a high degree of initial distribution nonuniformity can be tolerated with only modest emittance growth and that beam control can be maintained. The simulations also provide information on the rate of relaxation and characteristic levels of fluctuations in the relaxed states. This research suggests that a surprising degree of initial space-charge nonuniformity can be tolerated in practical intense beam experiments.

  12. Research of improved sparse grid non-uniformity correction technologies for infrared resistor array

    Science.gov (United States)

    Du, Hui-jie; Zhao, Hong-ming; Gao, Yang; Yu, Hong; Zhang, Yi

    2015-10-01

    Infrared resistor arrays perform a vital role in the hardware in the loop testing of infrared seekers. Infrared resistor arrays composed of large numbers of suspended resistor elements are commonly used to produce dynamic two-dimensional images of infrared radiation. Due to inconsistencies in the fabrication process of the resistor arrays, the temperature each resistor elements reaches for a given input voltage is variable and this leads to more significant radiance differences, these differences result in spatially-distributed radiance non-uniformity. Therefore, in order to obtain an available infrared image, non-uniformity correction (NUC) is necessary. In this paper, the non-uniformity characters of the infrared resistor arrays are analyzed base on measured data and then an improved sparse grid method for engineering are discussed and analyzed. First of all, the NUC camera has a strong influence on the effectiveness of the infrared resistor arrays NUC procedure. According to the actual fact and the laboratory condition, we presented an alternative method for collecting resistor arrays intended to reduce the influence causing by the NUC camera. Secondly, based on the measured non-uniformity data, we obtain the response characteristics of the infrared resistor arrays. In each gray level, we take two points or several points correction algorithm to calculate the gain data and the offset data, and then the linear look-up table is established. Finally, through MATLAB we develop the correction software, and we can obtain the driving output conveniently. The result shows that the image quality has a remarkable improvement after non-uniformity correction, the non-uniformity correction flow and algorithm preferably satisfies the requirement of the high confidence infrared imaging simulation.

  13. In-situ calibration of nonuniformity in infrared staring and modulated systems

    Science.gov (United States)

    Black, Wiley T.

    Infrared cameras can directly measure the apparent temperature of objects, providing thermal imaging. However, the raw output from most infrared cameras suffers from a strong, often limiting noise source called nonuniformity. Manufacturing imperfections in infrared focal planes lead to high pixel-to-pixel sensitivity to electronic bias, focal plane temperature, and other effects. The resulting imagery can only provide useful thermal imaging after a nonuniformity calibration has been performed. Traditionally, these calibrations are performed by momentarily blocking the field of view with a at temperature plate or blackbody cavity. However because the pattern is a coupling of manufactured sensitivities with operational variations, periodic recalibration is required, sometimes on the order of tens of seconds. A class of computational methods called Scene-Based Nonuniformity Correction (SBNUC) has been researched for over 20 years where the nonuniformity calibration is estimated in digital processing by analysis of the video stream in the presence of camera motion. The most sophisticated SBNUC methods can completely and robustly eliminate the high-spatial frequency component of nonuniformity with only an initial reference calibration or potentially no physical calibration. I will demonstrate a novel algorithm that advances these SBNUC techniques to support all spatial frequencies of nonuniformity correction. Long-wave infrared microgrid polarimeters are a class of camera that incorporate a microscale per-pixel wire-grid polarizer directly affixed to each pixel of the focal plane. These cameras have the capability of simultaneously measuring thermal imagery and polarization in a robust integrated package with no moving parts. I will describe the necessary adaptations of my SBNUC method to operate on this class of sensor as well as demonstrate SBNUC performance in LWIR polarimetry video collected on the UA mall.

  14. Effects of nonuniform Mach-number entrance on scramjet nozzle flowfield and performance

    Science.gov (United States)

    Zhang, Pu; Xu, Jinglei; Quan, Zhibin; Mo, Jianwei

    2016-12-01

    Considering the non-uniformities of nozzle entrance influenced by the upstream, the effects of nonuniform Mach-number coupled with shock and expansion-wave on the flowfield and performances of single expansion ramp nozzle (SERN) are numerically studied using Reynolds-Averaged Navier-Stokes equations. The adopted Reynolds-averaged Navier-Stokes methodology is validated by comparing the numerical results with the cold experimental data, and the average method used in this paper is discussed. Uniform and nonuniform facility nozzles are designed to generate different Mach-number profile for the inlet of SERN, which is direct-connected with different facility nozzle, and the whole flowfield is simulated. Because of the coupling of shock and expansion-wave, flow direction of nonuniform SERN entrance is distorted. Compared with Mach contour of uniform case, the line is more curved for coupling shock-wave entrance (SWE) case, and flatter for the coupling expansion-wave entrance (EWE) case. Wall pressure distribution of SWE case appears rising region, whereas decreases like stairs of EWE case. The numerical results reveal that the coupled shock and expansion-wave play significant roles on nozzle performances. Compared with the SERN performances of uniform entrance case at the same work conditions, the thrust of nonuniform entrance cases reduces by 3-6%, pitch moment decreases by 2.5-7%. The negative lift presents an incremental trend with EWE while the situation is the opposite with SWE. These results confirm that considering the entrance flow parameter nonuniformities of a scramjet nozzle coupled with shock or expansion-wave from the upstream is necessary.

  15. Image nonlinearity and non-uniformity corrections using Papoulis - Gerchberg algorithm in gamma imaging systems

    Science.gov (United States)

    Shemer, A.; Schwarz, A.; Gur, E.; Cohen, E.; Zalevsky, Z.

    2015-04-01

    In this paper, the authors describe a novel technique for image nonlinearity and non-uniformity corrections in imaging systems based on gamma detectors. The limitation of the gamma detector prevents the producing of high quality images due to the radionuclide distribution. This problem causes nonlinearity and non-uniformity distortions in the obtained image. Many techniques have been developed to correct or compensate for these image artifacts using complex calibration processes. The presented method is based on the Papoulis - Gerchberg(PG) iterative algorithm and is obtained without need of detector calibration, tuning process or using any special test phantom.

  16. Modeling of pancake frying with non-uniform heating source applied to domestic cookers

    DEFF Research Database (Denmark)

    Sanz-Serrano, F.; Sagues, C.; Feyissa, Aberham Hailu

    2016-01-01

    . In this work we propose a model of contact frying of pancakes in domestic cookers, particularly in induction hobs and radiant cookers, in which the heating of the cooking vessels can be non-uniform. This non-uniformity is unavoidable in practice, but it can be reduced by optimizing the design of the cooker......The design of domestic cooking stoves is usually optimized by performing time-consuming cooking experiments, often using frying of pancakes as a standard. Simulation of cooking processes may reduce the number of experiments used in the development of the cooking stoves, saving time and resources...

  17. Fluxon dynamics in long Josephson junctions in the presence of a temperature gradient or spatial nonuniformity

    DEFF Research Database (Denmark)

    Krasnov, V.M.; Oboznov, V.A.; Pedersen, Niels Falsig

    1997-01-01

    for the Josephson vortex motion. ZCFFS's were observed at certain magnetic fields when the critical current in one direction but not the other becomes zero. Possible applications of nonuniform Josephson junctions in flux flow oscillators and as a superconducting diode are discussed....... self-energy (from the cold to the hot end of the junction). A phenomenon, the ''zero crossing flux flow step'' (ZCFFS) with a nonzero voltage at a zero applied current, was observed in nonuniform long Josephson junctions. The phenomenon is due to the existence of a preferential direction...

  18. Distribution of Cathode Spots in Vacuum Arc Under Nonuniform Axial Magnetic Fields

    Institute of Scientific and Technical Information of China (English)

    SHI Zong-qian; JIA Shen-li; WANG Li-jun; LI Xing-wen; WANG Zheng

    2007-01-01

    Recent results on the distribution of vacuum arc cathode spots (CSs) in nonuniform axial magnetic field (AMF) are presented.Based on previous studies,we deem that two contrary influences of AMF,inward effect and outward effect,are attributed to CSs distribution.With this notion,we have analyzed the controlling effectiveness of nonuniform AMF on CSs distribution. Experiments were conducted in a detachable vacuum chamber with iron-style AMF electrodes.Images of vacuum arc column and the distribution of CSs were photographed with a high-speed charge coupled device (CCD) camera. Experimental results agreed well with the theoretical analysis.

  19. Electromechanical characterization of non-uniform charged ionic polymer-metal composites (IPMC) devices

    Energy Technology Data Exchange (ETDEWEB)

    Lopes, B; Branco, P J C [Institute Superior Tecnico, DEEC - Energia, Lisboa 1096-001 (Portugal)], E-mail: pbranco@ist.utl.pt

    2008-08-15

    Research on electromechanical characterization of non-uniformly charged IPMCs is quasi-absent. This has limited their use to only those devices where the IPMC is completely covered with electrode surfaces (uniformly charged). In this paper, we develop a theoretical study for electromechanical characterization of non-uniformly charged IPMCs. A continuum model taking into account the gravitational forces, important for large IPMCs, is presented. Based on this approach, FEM analysis of IPMC devices using Comsol Multiphysics is introduced in a very simple way. Three devices have been studied, comparing the analytical model results with those ones obtained from a FEM analysis.

  20. A new adaptive nonuniformity correction algorithm for infrared line scanner based on neural networks

    Institute of Scientific and Technical Information of China (English)

    Jing Sui; Liquan Dong; Weiqi Jin; Yayuan Zhang

    2007-01-01

    The striping pattern nonuniformity of the infrared line scanner (IRLS) severely limits the system performance. An adaptive nonuniformity correction (NUC) algorithm for IRLS using neural network is proposed.It uses a one-dimensional median filter to generate ideal output of network and can complete NUC by a single frame with a high correction level. Applications to both simulated and real infrared images show that the algorithm can obtain a satisfactory result with low complexity, no need of scene diversity or global motion between consecutive frames. It has the potential to realize real-time hardware-based applications.

  1. Lossy Source Compression of Non-Uniform Binary Sources Using GQ-LDGM Codes

    CERN Document Server

    Cappellari, Lorenzo

    2010-01-01

    In this paper, we study the use of GF(q)-quantized LDGM codes for binary source coding. By employing quantization, it is possible to obtain binary codewords with a non-uniform distribution. The obtained statistics is hence suitable for optimal, direct quantization of non-uniform Bernoulli sources. We employ a message-passing algorithm combined with a decimation procedure in order to perform compression. The experimental results based on GF(q)-LDGM codes with regular degree distributions yield performances quite close to the theoretical rate-distortion bounds.

  2. Symmetry breaking in noncommutative finite temperature λphi4 theory with a nonuniform ground state

    Science.gov (United States)

    Hernández, J. M.; Ramírez, C.; Sánchez, M.

    2014-05-01

    We consider the CJT effective action at finite temperature for a noncommutative real scalar field theory, with noncommutativity among space and time variables. We study the solutions of a stripe type nonuniform background, which depends on space and time. The analysis in the first approximation shows that such solutions appear in the planar limit, but also under normal anisotropic noncommutativity. Further we show that the transition from the uniform ordered phase to the non uniform one is first order and that the critical temperature depends on the nonuniformity of the ground state.

  3. Compression gain of spin wave signals in a magnonic YIG waveguide with thermal non-uniformity

    Science.gov (United States)

    Kolokoltsev, O.; Gómez-Arista, Ivan; Qureshi, N.; Acevedo, A.; Ordóñez-Romero, César L.; Grishin, A.

    2015-03-01

    We report on the observation of the compression gain of the signals carried by surface spin waves (MSSWs) in yittrium iron garnet films as a result of non-uniform optical heating of the spin wave medium. Efficient gain takes place if a frequency downshift of the spin wave spectrum induced by the heating is compensated by the corresponding non-uniformity of the bias magnetic field. It is proposed that the effect can be understood in part as an interaction between spin waves and a thermally induced potential well in the sample.

  4. Self-replication of DNA rings

    Science.gov (United States)

    Kim, Junghoon; Lee, Junwye; Hamada, Shogo; Murata, Satoshi; Ha Park, Sung

    2015-06-01

    Biology provides numerous examples of self-replicating machines, but artificially engineering such complex systems remains a formidable challenge. In particular, although simple artificial self-replicating systems including wooden blocks, magnetic systems, modular robots and synthetic molecular systems have been devised, such kinematic self-replicators are rare compared with examples of theoretical cellular self-replication. One of the principal reasons for this is the amount of complexity that arises when you try to incorporate self-replication into a physical medium. In this regard, DNA is a prime candidate material for constructing self-replicating systems due to its ability to self-assemble through molecular recognition. Here, we show that DNA T-motifs, which self-assemble into ring structures, can be designed to self-replicate through toehold-mediated strand displacement reactions. The inherent design of these rings allows the population dynamics of the systems to be controlled. We also analyse the replication scheme within a universal framework of self-replication and derive a quantitative metric of the self-replicability of the rings.

  5. Galaxy alignment on large and small scales

    Science.gov (United States)

    Kang, X.; Lin, W. P.; Dong, X.; Wang, Y. O.; Dutton, A.; Macciò, A.

    2016-10-01

    Galaxies are not randomly distributed across the universe but showing different kinds of alignment on different scales. On small scales satellite galaxies have a tendency to distribute along the major axis of the central galaxy, with dependence on galaxy properties that both red satellites and centrals have stronger alignment than their blue counterparts. On large scales, it is found that the major axes of Luminous Red Galaxies (LRGs) have correlation up to 30Mpc/h. Using hydro-dynamical simulation with star formation, we investigate the origin of galaxy alignment on different scales. It is found that most red satellite galaxies stay in the inner region of dark matter halo inside which the shape of central galaxy is well aligned with the dark matter distribution. Red centrals have stronger alignment than blue ones as they live in massive haloes and the central galaxy-halo alignment increases with halo mass. On large scales, the alignment of LRGs is also from the galaxy-halo shape correlation, but with some extent of mis-alignment. The massive haloes have stronger alignment than haloes in filament which connect massive haloes. This is contrary to the naive expectation that cosmic filament is the cause of halo alignment.

  6. Multiple sequence alignment accuracy and phylogenetic inference.

    Science.gov (United States)

    Ogden, T Heath; Rosenberg, Michael S

    2006-04-01

    Phylogenies are often thought to be more dependent upon the specifics of the sequence alignment rather than on the method of reconstruction. Simulation of sequences containing insertion and deletion events was performed in order to determine the role that alignment accuracy plays during phylogenetic inference. Data sets were simulated for pectinate, balanced, and random tree shapes under different conditions (ultrametric equal branch length, ultrametric random branch length, nonultrametric random branch length). Comparisons between hypothesized alignments and true alignments enabled determination of two measures of alignment accuracy, that of the total data set and that of individual branches. In general, our results indicate that as alignment error increases, topological accuracy decreases. This trend was much more pronounced for data sets derived from more pectinate topologies. In contrast, for balanced, ultrametric, equal branch length tree shapes, alignment inaccuracy had little average effect on tree reconstruction. These conclusions are based on average trends of many analyses under different conditions, and any one specific analysis, independent of the alignment accuracy, may recover very accurate or inaccurate topologies. Maximum likelihood and Bayesian, in general, outperformed neighbor joining and maximum parsimony in terms of tree reconstruction accuracy. Results also indicated that as the length of the branch and of the neighboring branches increase, alignment accuracy decreases, and the length of the neighboring branches is the major factor in topological accuracy. Thus, multiple-sequence alignment can be an important factor in downstream effects on topological reconstruction.

  7. Quantifying the contributions of base selectivity, proofreading and mismatch repair to nuclear DNA replication in Saccharomyces cerevisiae.

    Science.gov (United States)

    St Charles, Jordan A; Liberti, Sascha E; Williams, Jessica S; Lujan, Scott A; Kunkel, Thomas A

    2015-07-01

    Mismatches generated during eukaryotic nuclear DNA replication are removed by two evolutionarily conserved error correction mechanisms acting in series, proofreading and mismatch repair (MMR). Defects in both processes are associated with increased susceptibility to cancer. To better understand these processes, we have quantified base selectivity, proofreading and MMR during nuclear DNA replication in Saccharomyces cerevisiae. In the absence of proofreading and MMR, the primary leading and lagging strand replicases, polymerase ɛ and polymerase δ respectively, synthesize DNA in vivo with somewhat different error rates and specificity, and with apparent base selectivity that is more than 100 times higher than measured in vitro. Moreover, leading and lagging strand replication fidelity rely on a different balance between proofreading and MMR. On average, proofreading contributes more to replication fidelity than does MMR, but their relative contributions vary from nearly all proofreading of some mismatches to mostly MMR of other mismatches. Thus accurate replication of the two DNA strands results from a non-uniform and variable balance between error prevention, proofreading and MMR.

  8. DNA Replication via Entanglement Swapping

    CERN Document Server

    Pusuluk, Onur

    2010-01-01

    Quantum effects are mainly used for the determination of molecular shapes in molecular biology, but quantum information theory may be a more useful tool to understand the physics of life. Molecular biology assumes that function is explained by structure, the complementary geometries of molecules and weak intermolecular hydrogen bonds. However, both this assumption and its converse are possible if organic molecules and quantum circuits/protocols are considered as hardware and software of living systems that are co-optimized during evolution. In this paper, we try to model DNA replication as a multiparticle entanglement swapping with a reliable qubit representation of nucleotides. In the model, molecular recognition of a nucleotide triggers an intrabase entanglement corresponding to a superposition state of different tautomer forms. Then, base pairing occurs by swapping intrabase entanglements with interbase entanglements.

  9. Therapeutic targeting of replicative immortality.

    Science.gov (United States)

    Yaswen, Paul; MacKenzie, Karen L; Keith, W Nicol; Hentosh, Patricia; Rodier, Francis; Zhu, Jiyue; Firestone, Gary L; Matheu, Ander; Carnero, Amancio; Bilsland, Alan; Sundin, Tabetha; Honoki, Kanya; Fujii, Hiromasa; Georgakilas, Alexandros G; Amedei, Amedeo; Amin, Amr; Helferich, Bill; Boosani, Chandra S; Guha, Gunjan; Ciriolo, Maria Rosa; Chen, Sophie; Mohammed, Sulma I; Azmi, Asfar S; Bhakta, Dipita; Halicka, Dorota; Niccolai, Elena; Aquilano, Katia; Ashraf, S Salman; Nowsheen, Somaira; Yang, Xujuan

    2015-12-01

    One of the hallmarks of malignant cell populations is the ability to undergo continuous proliferation. This property allows clonal lineages to acquire sequential aberrations that can fuel increasingly autonomous growth, invasiveness, and therapeutic resistance. Innate cellular mechanisms have evolved to regulate replicative potential as a hedge against malignant progression. When activated in the absence of normal terminal differentiation cues, these mechanisms can result in a state of persistent cytostasis. This state, termed "senescence," can be triggered by intrinsic cellular processes such as telomere dysfunction and oncogene expression, and by exogenous factors such as DNA damaging agents or oxidative environments. Despite differences in upstream signaling, senescence often involves convergent interdependent activation of tumor suppressors p53 and p16/pRB, but can be induced, albeit with reduced sensitivity, when these suppressors are compromised. Doses of conventional genotoxic drugs required to achieve cancer cell senescence are often much lower than doses required to achieve outright cell death. Additional therapies, such as those targeting cyclin dependent kinases or components of the PI3K signaling pathway, may induce senescence specifically in cancer cells by circumventing defects in tumor suppressor pathways or exploiting cancer cells' heightened requirements for telomerase. Such treatments sufficient to induce cancer cell senescence could provide increased patient survival with fewer and less severe side effects than conventional cytotoxic regimens. This positive aspect is countered by important caveats regarding senescence reversibility, genomic instability, and paracrine effects that may increase heterogeneity and adaptive resistance of surviving cancer cells. Nevertheless, agents that effectively disrupt replicative immortality will likely be valuable components of new combinatorial approaches to cancer therapy. Copyright © 2015 The Authors

  10. The construction, alignment, and installation of the VIRUS spectrograph

    Science.gov (United States)

    Tuttle, Sarah E.; Hill, Gary J.; Lee, Hanshin; Vattiat, Brian; Noyola, Eva; Drory, Niv; Cornell, Mark; Peterson, Trent; Chonis, Taylor; Allen, Richard; Dalton, Gavin; DePoy, Darren; Edmonston, Doug; Fabricius, Maximillian; Haynes, Dionne; Kelz, Andreas; Landriau, Martin; Lesser, Michael; Leach, Bob; Marshall, Jennifer; Murphy, Jeremy; Perry, David; Prochaska, Travis; Ramsey, Jason; Savage, Richard

    2014-07-01

    VIRUS is the massively replicated fiber-fed spectrograph being built for the Hobby-Eberly Telescope to support HETDEX (the Hobby-Eberly Telescope Dark Energy Experiment). The instrument consists of 156 identical channels, fed by 34,944 fibers contained in 78 integral field units, deployed in the 22 arcminute field of the upgraded HET. VIRUS covers 350-550nm at R ≍ 700 and is built to target Lyman α emitters at 1.9 VIRUS spectrographs, including their alignment and plans for characterization. We briefly discuss plans for installation on the telescope. The spectrographs are being installed on the HET in several stages, and the instrument is due for completion by the end of 2014.

  11. Nonuniform flow in soft glasses of colloidal rods

    Science.gov (United States)

    Dhont, J. K. G.; Kang, K.; Kriegs, H.; Danko, O.; Marakis, J.; Vlassopoulos, D.

    2017-04-01

    Despite our reasonably advanced understanding of the dynamics and flow of glasses made of spherical colloids, the role of shape, i.e., the respective behavior of glasses formed by rodlike, particles is virtually unexplored. Recently, long, thin and highly charged rods (fd-virus particles) were found to vitrify in aqueous suspensions at low ionic strength [Phys. Rev. Lett. 110, 015901 (2013), 10.1103/PhysRevLett.110.015901]. The glass transition of these long-ranged repulsive rods occurs at a concentration far above the isotropic-nematic coexistence region and is characterized by the unique arrest of both the dynamics of domains that constitute the chiral-nematic orientational texture, as well as individual rods inside the domains. Hence, two relevant length scales exist: the domain size of a few hundreds of microns, and the rod-cage size of a few microns, inside the domains. We show that the unique dual dynamic arrest and the existing of two widely separated length scales imparts an unprecedented, highly heterogeneous flow behavior with three distinct signatures. Beyond a weak stress plateau at very small shear rates that characterizes the glass, the kinetic arrest of the domain dynamics gives rise to internal fracture, as a result of domain-domain interactions, as well as wall partial slip. It is shown that, on increasing the shear rate, the fractured plug flow changes to a shear-banded flow profile due to the stress response of the kinetically arrested aligned rods within the domains. Shear-gradient banding occurs due to the strong thinning of the uniform chiral-nematic phase within the domains, i.e., complying with the classic shear-banding scenario, giving rise to a stress plateau in the flow curve. Finally, a linear (uniform) velocity profile is found at the highest shear rates. Vorticity banding is also observed at intermediate and high shear rates. These results point to the crucial role of particle shape in tailoring the flow properties of dense colloidal

  12. Regulation of Unperturbed DNA Replication by Ubiquitylation

    Directory of Open Access Journals (Sweden)

    Sara Priego Moreno

    2015-06-01

    Full Text Available Posttranslational modification of proteins by means of attachment of a small globular protein ubiquitin (i.e., ubiquitylation represents one of the most abundant and versatile mechanisms of protein regulation employed by eukaryotic cells. Ubiquitylation influences almost every cellular process and its key role in coordination of the DNA damage response is well established. In this review we focus, however, on the ways ubiquitylation controls the process of unperturbed DNA replication. We summarise the accumulated knowledge showing the leading role of ubiquitin driven protein degradation in setting up conditions favourable for replication origin licensing and S-phase entry. Importantly, we also present the emerging major role of ubiquitylation in coordination of the active DNA replication process: preventing re-replication, regulating the progression of DNA replication forks, chromatin re-establishment and disassembly of the replisome at the termination of replication forks.

  13. Chromosome replication and segregation in bacteria.

    Science.gov (United States)

    Reyes-Lamothe, Rodrigo; Nicolas, Emilien; Sherratt, David J

    2012-01-01

    In dividing cells, chromosome duplication once per generation must be coordinated with faithful segregation of newly replicated chromosomes and with cell growth and division. Many of the mechanistic details of bacterial replication elongation are well established. However, an understanding of the complexities of how replication initiation is controlled and coordinated with other cellular processes is emerging only slowly. In contrast to eukaryotes, in which replication and segregation are separate in time, the segregation of most newly replicated bacterial genetic loci occurs sequentially soon after replication. We compare the strategies used by chromosomes and plasmids to ensure their accurate duplication and segregation and discuss how these processes are coordinated spatially and temporally with growth and cell division. We also describe what is known about the three conserved families of ATP-binding proteins that contribute to chromosome segregation and discuss their inter-relationships in a range of disparate bacteria.

  14. Galaxy alignments: Observations and impact on cosmology

    CERN Document Server

    Kirk, Donnacha; Hoekstra, Henk; Joachimi, Benjamin; Kitching, Thomas D; Mandelbaum, Rachel; Sifón, Cristóbal; Cacciato, Marcello; Choi, Ami; Kiessling, Alina; Leonard, Adrienne; Rassat, Anais; Schäfer, Björn Malte

    2015-01-01

    Galaxy shapes are not randomly oriented, rather they are statistically aligned in a way that can depend on formation environment, history and galaxy type. Studying the alignment of galaxies can therefore deliver important information about the astrophysics of galaxy formation and evolution as well as the growth of structure in the Universe. In this review paper we summarise key measurements of intrinsic alignments, divided by galaxy type, scale and environment. We also cover the statistics and formalism necessary to understand the observations in the literature. With the emergence of weak gravitational lensing as a precision probe of cosmology, galaxy alignments took on an added importance because they can mimic cosmic shear, the effect of gravitational lensing by large-scale structure on observed galaxy shapes. This makes intrinsic alignments an important systematic effect in weak lensing studies. We quantify the impact of intrinsic alignments on cosmic shear surveys and finish by reviewing practical mitigat...

  15. Magnetic alignment and patterning of cellulose fibers

    Directory of Open Access Journals (Sweden)

    Fumiko Kimura and Tsunehisa Kimura

    2008-01-01

    Full Text Available The alignment and patterning of cellulose fibers under magnetic fields are reported. Static and rotating magnetic fields were used to align cellulose fibers with sizes ranging from millimeter to nanometer sizes. Cellulose fibers of the millimeter order, which were prepared for papermaking, and much smaller fibers with micrometer to nanometer sizes prepared by the acid hydrolysis of larger ones underwent magnetic alignment. Under a rotating field, a uniaxial alignment of fibers was achieved. The alignment was successfully fixed by the photopolymerization of a UV-curable resin precursor used as matrix. A monodomain chiral nematic film was prepared from an aqueous suspension of nanofibers. Using a field modulator inserted in a homogeneous magnetic field, simultaneous alignment and patterning were achieved

  16. Magnetic alignment and patterning of cellulose fibers

    Energy Technology Data Exchange (ETDEWEB)

    Kimura, Fumiko; Kimura, Tsunehisa [Division of Forest and Biomaterials Science, Graduate School of Agriculture, Kyoto University, Kitashirakawa, Sakyo-ku, Kyoto 606-8502 (Japan)], E-mail: tkimura@kais.kyoto-u.ac.jp

    2008-04-01

    The alignment and patterning of cellulose fibers under magnetic fields are reported. Static and rotating magnetic fields were used to align cellulose fibers with sizes ranging from millimeter to nanometer sizes. Cellulose fibers of the millimeter order, which were prepared for papermaking, and much smaller fibers with micrometer to nanometer sizes prepared by the acid hydrolysis of larger ones underwent magnetic alignment. Under a rotating field, a uniaxial alignment of fibers was achieved. The alignment was successfully fixed by the photopolymerization of a UV-curable resin precursor used as matrix. A monodomain chiral nematic film was prepared from an aqueous suspension of nanofibers. Using a field modulator inserted in a homogeneous magnetic field, simultaneous alignment and patterning were achieved.

  17. Velocity-aligned Doppler spectroscopy

    Science.gov (United States)

    Xu, Z.; Koplitz, B.; Wittig, C.

    1989-03-01

    The use of velocity-aligned Doppler spectroscopy (VADS) to measure center-of-mass kinetic-energy distributions of nascent photofragments produced in pulsed-initiation photolysis/probe experiments is described and demonstrated. In VADS, pulsed photolysis and probe laser beams counterpropagate through the ionization region of a time-of-flight mass spectrometer. The theoretical principles of VADS and the mathematical interpretation of VADS data are explained and illustrated with diagrams; the experimental setup is described; and results for the photodissociation of HI, H2S, and NH3 are presented in graphs and characterized in detail. VADS is shown to give much higher kinetic-energy resolution than conventional Doppler spectroscopy.

  18. Microwave Emission from Aligned Dust

    CERN Document Server

    Lazarian, A

    2003-01-01

    Polarized microwave emission from dust is an important foreground that may contaminate polarized CMB studies unless carefully accounted for. We discuss potential difficulties associated with this foreground, namely, the existence of different grain populations with very different emission/polarization properties and variations of the polarization yield with grain temperature. In particular, we discuss observational evidence in favor of rotational emission from tiny PAH particles with dipole moments, i.e. ``spinning dust'', and also consider magneto-dipole emission from strongly magnetized grains. We argue that in terms of polarization, the magneto-dipole emission may dominate even if its contribution to total emissivity is subdominant. Addressing polarized emission at frequencies larger than approsimately 100 GHz, we discuss the complications arising from the existence of dust components with different temperatures and possibly different alignment properties.

  19. Recursions for statistical multiple alignment.

    Science.gov (United States)

    Hein, Jotun; Jensen, Jens Ledet; Pedersen, Christian N S

    2003-12-09

    Algorithms are presented that allow the calculation of the probability of a set of sequences related by a binary tree that have evolved according to the Thorne-Kishino-Felsenstein model for a fixed set of parameters. The algorithms are based on a Markov chain generating sequences and their alignment at nodes in a tree. Depending on whether the complete realization of this Markov chain is decomposed into the first transition and the rest of the realization or the last transition and the first part of the realization, two kinds of recursions are obtained that are computationally similar but probabilistically different. The running time of the algorithms is O(Pi id=1 Li), where Li is the length of the ith observed sequences and d is the number of sequences. An alternative recursion is also formulated that uses only a Markov chain involving the inner nodes of a tree.

  20. Aligned carbon nanotubes for nanoelectronics

    Science.gov (United States)

    Choi, Won Bong; Bae, Eunju; Kang, Donghun; Chae, Soodoo; Cheong, Byung-ho; Ko, Ju-hye; Lee, Eungmin; Park, Wanjun

    2004-10-01

    We discuss the central issues to be addressed for realizing carbon nanotube (CNT) nanoelectronics. We focus on selective growth, electron energy bandgap engineering and device integration. We have introduced a nanotemplate to control the selective growth, length and diameter of CNTs. Vertically aligned CNTs are synthesized for developing a vertical CNT-field effect transistor (FET). The ohmic contact of the CNT/metal interface is formed by rapid thermal annealing. Diameter control, synthesis of Y-shaped CNTs and surface modification of CNTs open up the possibility for energy bandgap modulation. The concepts of an ultra-high density transistor based on the vertical-CNT array and a nonvolatile memory based on the top gate structure with an oxide-nitride-oxide charge trap are also presented. We suggest that the deposited memory film can be used for the quantum dot storage due to the localized electric field created by a nano scale CNT-electron channel.

  1. Semiconservative replication in the quasispecies model

    Science.gov (United States)

    Tannenbaum, Emmanuel; Deeds, Eric J.; Shakhnovich, Eugene I.

    2004-06-01

    This paper extends Eigen’s quasispecies equations to account for the semiconservative nature of DNA replication. We solve the equations in the limit of infinite sequence length for the simplest case of a static, sharply peaked fitness landscape. We show that the error catastrophe occurs when μ , the product of sequence length and per base pair mismatch probability, exceeds 2 ln [2/ ( 1+1/k ) ] , where k>1 is the first-order growth rate constant of the viable “master” sequence (with all other sequences having a first-order growth rate constant of 1 ). This is in contrast to the result of ln k for conservative replication. In particular, as k→∞ , the error catastrophe is never reached for conservative replication, while for semiconservative replication the critical μ approaches 2 ln 2 . Semiconservative replication is therefore considerably less robust than conservative replication to the effect of replication errors. We also show that the mean equilibrium fitness of a semiconservatively replicating system is given by k ( 2 e-μ/2 -1 ) below the error catastrophe, in contrast to the standard result of k e-μ for conservative replication (derived by Kimura and Maruyama in 1966). From this result it is readily shown that semiconservative replication is necessary to account for the observation that, at sufficiently high mutagen concentrations, faster replicating cells will die more quickly than more slowly replicating cells. Thus, in contrast to Eigen’s original model, the semiconservative quasispecies equations are able to provide a mathematical basis for explaining the efficacy of mutagens as chemotherapeutic agents.

  2. Multilingual alignments by monolingual string differences

    OpenAIRE

    Lardilleux, Adrien; Lepage, Yves

    2008-01-01

    International audience; We propose a method to obtain subsentential alignments from several languages simultaneously. The method handles several languages at once, and avoids the complexity explosion due to the usual pair-by-pair processing. It can be used for different units (characters, morphemes, words, chunks). An evaluation of word alignments with a trilingual machine translation corpus has been conducted. A comparison of the results with those obtained by state of the art alignment soft...

  3. Distributed Interference Alignment with Low Overhead

    CERN Document Server

    Ma, Yanjun; Chen, Rui

    2011-01-01

    Based on closed-form interference alignment (IA) solutions, a low overhead distributed interference alignment (LOIA) scheme is proposed in this paper for the $K$-user SISO interference channel, and extension to multiple antenna scenario is also considered. Compared with the iterative interference alignment (IIA) algorithm proposed by Gomadam et al., the overhead is greatly reduced. Simulation results show that the IIA algorithm is strictly suboptimal compared with our LOIA algorithm in the overhead-limited scenario.

  4. Spin alignment in superdeformed rotational bands

    Energy Technology Data Exchange (ETDEWEB)

    Stephens, F.S. (Lawrence Berkeley Lab., CA (USA). Nuclear Science Div.)

    1990-12-24

    Many superdeformed bands in different nuclei are found to have virtually identical moments of inertia and alignments that differ from each other by quantized amounts - multiples of 1/2 {Dirac h}. Pseudo spins represent the only source of quantized alignment that has been thought of to date. Additional puzzles in these bands are the absence of other larger effects on the moments of inertia, and a surprising number of alignments of 1 {Dirac h}. (orig.).

  5. COS to FGS Alignment {NUV}

    Science.gov (United States)

    Hartig, George

    2009-07-01

    DESCRIPTION: In order to determine the location of the COS reference frame with respect to the FGS reference frames, NUV MIRRORA images will be obtained of an astrometric target and field. Astrometric guide stars and targets must be employed for this activity in order to facilitate the alignment wth the FGS. Images will be obtained at the initial pointing and at positions offset in V2 and in V3. Starting with the original blind pointing, obtain MIRRORA image exposures in a 5x5 POS-TARG grid centered on initial pointing; repeat the image sequence at two bracketing focus positions in same visit. Following completion of third pattern, return to nominal focus and perform 5x5 ACQ/SEARCH target acquisition and obtain one TIME-TAG MIRRORA image and one ACCUM verification exposure. Next perform an ACQ/IMAGE target acquisition followed by an ACCUM verification exposure. Also obtain ACCUM verification exposure for each of the two alternate focus positions used previously. Using MIRRORB obtain ACCUM confirmation image at nominal focus and ACCUM images at alternate focus positions and then perform an ACQ/IMAGE and confirming image at nominal focus. Analyze imagery, uplink pointing offset as offset 11469A and adjust nominal focus via patchable constant uplinked with subsequent visit of this program; update aperture locations via modified SIAF file uplinked with subsequent SMS. Use updated focus and offset pointing as input for COS 09 {program 11469 - NUV Optics Alignment and Focus} {note the SIAF update is not a prerequisite for COS 09 to proceed, but the pointing offset and focus update are}.

  6. Regulation of chromosomal replication in Caulobacter crescentus.

    Science.gov (United States)

    Collier, Justine

    2012-03-01

    The alpha-proteobacterium Caulobacter crescentus is characterized by its asymmetric cell division, which gives rise to a replicating stalked cell and a non-replicating swarmer cell. Thus, the initiation of chromosomal replication is tightly regulated, temporally and spatially, to ensure that it is coordinated with cell differentiation and cell cycle progression. Waves of DnaA and CtrA activities control when and where the initiation of DNA replication will take place in C. crescentus cells. The conserved DnaA protein initiates chromosomal replication by directly binding to sites within the chromosomal origin (Cori), ensuring that DNA replication starts once and only once per cell cycle. The CtrA response regulator represses the initiation of DNA replication in swarmer cells and in the swarmer compartment of pre-divisional cells, probably by competing with DnaA for binding to Cori. CtrA and DnaA are controlled by multiple redundant regulatory pathways that include DNA methylation-dependent transcriptional regulation, temporally regulated proteolysis and the targeting of regulators to specific locations within the cell. Besides being critical regulators of chromosomal replication, CtrA and DnaA are also master transcriptional regulators that control the expression of many genes, thus connecting DNA replication with other events of the C. crescentus cell cycle. Copyright © 2012 Elsevier Inc. All rights reserved.

  7. Comparison of three replication strategies in complex multicellular organisms: Asexual replication, sexual replication with identical gametes, and sexual replication with distinct sperm and egg gametes

    Science.gov (United States)

    Tannenbaum, Emmanuel

    2008-01-01

    This paper studies the mutation-selection balance in three simplified replication models. The first model considers a population of organisms replicating via the production of asexual spores. The second model considers a sexually replicating population that produces identical gametes. The third model considers a sexually replicating population that produces distinct sperm and egg gametes. All models assume diploid organisms whose genomes consist of two chromosomes, each of which is taken to be functional if equal to some master sequence, and defective otherwise. In the asexual population, the asexual diploid spores develop directly into adult organisms. In the sexual populations, the haploid gametes enter a haploid pool, where they may fuse with other haploids. The resulting immature diploid organisms then proceed to develop into mature organisms. Based on an analysis of all three models, we find that, as organism size increases, a sexually replicating population can only outcompete an asexually replicating population if the adult organisms produce distinct sperm and egg gametes. A sexual replication strategy that is based on the production of large numbers of sperm cells to fertilize a small number of eggs is found to be necessary in order to maintain a sufficiently low cost for sex for the strategy to be selected for over a purely asexual strategy. We discuss the usefulness of this model in understanding the evolution and maintenance of sexual replication as the preferred replication strategy in complex, multicellular organisms.

  8. The art of editing RNA structural alignments

    DEFF Research Database (Denmark)

    Andersen, Ebbe Sloth

    2014-01-01

    Manual editing of RNA structural alignments may be considered more art than science, since it still requires an expert biologist to take multiple levels of information into account and be slightly creative when constructing high-quality alignments. Even though the task is rather tedious, it is re......Manual editing of RNA structural alignments may be considered more art than science, since it still requires an expert biologist to take multiple levels of information into account and be slightly creative when constructing high-quality alignments. Even though the task is rather tedious...

  9. The art of editing RNA structural alignments

    DEFF Research Database (Denmark)

    Andersen, Ebbe Sloth

    2014-01-01

    Manual editing of RNA structural alignments may be considered more art than science, since it still requires an expert biologist to take multiple levels of information into account and be slightly creative when constructing high-quality alignments. Even though the task is rather tedious, it is re......Manual editing of RNA structural alignments may be considered more art than science, since it still requires an expert biologist to take multiple levels of information into account and be slightly creative when constructing high-quality alignments. Even though the task is rather tedious...

  10. The alignment between spatial planning, transportation planning ...

    African Journals Online (AJOL)

    engagement processes, support, ... Carel Schoeman • The alignment between spatial planning, transportation planning and environmental ..... NDOT: Public Transport Strategy (2007) .... Community Land Reform Act 28 of 1996 (CLARA).

  11. Nova alignment and laser diagnostics systems - 1

    Energy Technology Data Exchange (ETDEWEB)

    Bliss, E.S.; Ozarski, R.G.; Myers, D.W.; Richards, J.B.; Swift, C.D.; Boyd, R.D.; Hugenberger, R.E.; Seppala, L.G.; Parker, J.; Dryden, E.H.

    1981-01-01

    The alignment and laser diagnostic systems guide laser pulses through the separate amplifier chains to the target, measure their temporal, spatial and energy characteristics, and ensure simultaneous arrival at the target to within 5 picoseconds. Alignment tasks accomplished prior to each target shot involve automatic or remote-manual adjustments of approximately 2000 stepper motors and other actuators for the full 20 beam, 3 wavelength system. The primary detectors for alignment functions are CCD cameras with both digital and standard video output. Diagnostic data handling and processing is accomplished digitally, and both the alignment and diagnostic systems are integrated into the facility-wide digital control network.

  12. The twilight zone of cis element alignments.

    Science.gov (United States)

    Sebastian, Alvaro; Contreras-Moreira, Bruno

    2013-02-01

    Sequence alignment of proteins and nucleic acids is a routine task in bioinformatics. Although the comparison of complete peptides, genes or genomes can be undertaken with a great variety of tools, the alignment of short DNA sequences and motifs entails pitfalls that have not been fully addressed yet. Here we confront the structural superposition of transcription factors with the sequence alignment of their recognized cis elements. Our goals are (i) to test TFcompare (http://floresta.eead.csic.es/tfcompare), a structural alignment method for protein-DNA complexes; (ii) to benchmark the pairwise alignment of regulatory elements; (iii) to define the confidence limits and the twilight zone of such alignments and (iv) to evaluate the relevance of these thresholds with elements obtained experimentally. We find that the structure of cis elements and protein-DNA interfaces is significantly more conserved than their sequence and measures how this correlates with alignment errors when only sequence information is considered. Our results confirm that DNA motifs in the form of matrices produce better alignments than individual sequences. Finally, we report that empirical and theoretically derived twilight thresholds are useful for estimating the natural plasticity of regulatory sequences, and hence for filtering out unreliable alignments.

  13. Some aspects of SR beamline alignment

    Energy Technology Data Exchange (ETDEWEB)

    Gaponov, Yu.A., E-mail: Yury.Gaponov@maxlab.lu.se [MAX-lab, Lund University, P.O.B. 118, SE-221 00 Lund (Sweden); Cerenius, Y. [MAX-lab, Lund University, P.O.B. 118, SE-221 00 Lund (Sweden); Nygaard, J. [Faculty of Life Sciences, University of Copenhagen, DK-1871 Frederiksberg C (Denmark); Ursby, T.; Larsson, K. [MAX-lab, Lund University, P.O.B. 118, SE-221 00 Lund (Sweden)

    2011-09-01

    Based on the Synchrotron Radiation (SR) beamline optical element-by-element alignment with analysis of the alignment results an optimized beamline alignment algorithm has been designed and developed. The alignment procedures have been designed and developed for the MAX-lab I911-4 fixed energy beamline. It has been shown that the intermediate information received during the monochromator alignment stage can be used for the correction of both monochromator and mirror without the next stages of alignment of mirror, slits, sample holder, etc. Such an optimization of the beamline alignment procedures decreases the time necessary for the alignment and becomes useful and helpful in the case of any instability of the beamline optical elements, storage ring electron orbit or the wiggler insertion device, which could result in the instability of angular and positional parameters of the SR beam. A general purpose software package for manual, semi-automatic and automatic SR beamline alignment has been designed and developed using the developed algorithm. The TANGO control system is used as the middle-ware between the stand-alone beamline control applications BLTools, BPMonitor and the beamline equipment.

  14. Effect of alignment angle on the alignment accuracy of a miniature rotation robot for microscopy imaging

    Directory of Open Access Journals (Sweden)

    Wenfeng Wan

    2017-05-01

    Full Text Available Most recently, a miniature rotation robot has been proposed to allow imaging samples from multidirection for the first time. However, one existing problem for that rotation robot is that the alignment efficiency and accuracy is affected greatly by the alignment angle. This article investigates the effect of alignment angle on the alignment accuracy. Alignment accuracy is measured by sample’s position shift during a 360° rotation. Firstly, the miniature robotic system and its alignment principle are introduced briefly. Then, the source of alignment error is analyzed and the error model is built. After that, simulation results are given and indicate that as alignment angle increases, alignment error first decreases, then becomes stable and finally increases. Reasons for the trend of alignment error are explained. Finally, experiment results are demonstrated and have a good agreement with theoretical analysis and simulation results. The results indicate that 90° should be chosen as the alignment angle to ensure both alignment accuracy and alignment speed.

  15. The effects of alignment error and alignment filtering on the sitewise detection of positive selection.

    Science.gov (United States)

    Jordan, Gregory; Goldman, Nick

    2012-04-01

    When detecting positive selection in proteins, the prevalence of errors resulting from misalignment and the ability of alignment filters to mitigate such errors are not well understood, but filters are commonly applied to try to avoid false positive results. Focusing on the sitewise detection of positive selection across a wide range of divergence levels and indel rates, we performed simulation experiments to quantify the false positives and false negatives introduced by alignment error and the ability of alignment filters to improve performance. We found that some aligners led to many false positives, whereas others resulted in very few. False negatives were a problem for all aligners, increasing with sequence divergence. Of the aligners tested, PRANK's codon-based alignments consistently performed the best and ClustalW performed the worst. Of the filters tested, GUIDANCE performed the best and Gblocks performed the worst. Although some filters showed good ability to reduce the error rates from ClustalW and MAFFT alignments, none were found to substantially improve the performance of PRANK alignments under most conditions. Our results revealed distinct trends in error rates and power levels for aligners and filters within a biologically plausible parameter space. With the best aligner, a low false positive rate was maintained even with extremely divergent indel-prone sequences. Controls using the true alignment and an optimal filtering method suggested that performance improvements could be gained by improving aligners or filters to reduce the prevalence of false negatives, especially at higher divergence levels and indel rates.

  16. Triangular Alignment (TAME). A Tensor-based Approach for Higher-order Network Alignment

    Energy Technology Data Exchange (ETDEWEB)

    Mohammadi, Shahin [Purdue Univ., West Lafayette, IN (United States); Gleich, David F. [Purdue Univ., West Lafayette, IN (United States); Kolda, Tamara G. [Sandia National Laboratories (SNL-CA), Livermore, CA (United States); Grama, Ananth [Purdue Univ., West Lafayette, IN (United States)

    2015-11-01

    Network alignment is an important tool with extensive applications in comparative interactomics. Traditional approaches aim to simultaneously maximize the number of conserved edges and the underlying similarity of aligned entities. We propose a novel formulation of the network alignment problem that extends topological similarity to higher-order structures and provide a new objective function that maximizes the number of aligned substructures. This objective function corresponds to an integer programming problem, which is NP-hard. Consequently, we approximate this objective function as a surrogate function whose maximization results in a tensor eigenvalue problem. Based on this formulation, we present an algorithm called Triangular AlignMEnt (TAME), which attempts to maximize the number of aligned triangles across networks. We focus on alignment of triangles because of their enrichment in complex networks; however, our formulation and resulting algorithms can be applied to general motifs. Using a case study on the NAPABench dataset, we show that TAME is capable of producing alignments with up to 99% accuracy in terms of aligned nodes. We further evaluate our method by aligning yeast and human interactomes. Our results indicate that TAME outperforms the state-of-art alignment methods both in terms of biological and topological quality of the alignments.

  17. Characterization of the replicon from the lactococcal theta-replicating plasmid pJW563.

    Science.gov (United States)

    Gravesen, A; Josephsen, J; von Wright, A; Vogensen, F K

    1995-09-01

    The replication region of the lactococcal plasmid pJW563 was localized to a 2.3-kb EcoRI fragment. This DNA fragment was sequenced ans a 1155-bp open reading frame, repB563, encoding a putative protein RepB563 of 385 amino acids was found. An AT-rich noncoding region, repA563, was found upstream of repB563. This segment included several direct and inverted repeats. A downstream 591-bp open reading frame, ORF X, which was not necessary for replication, was putatively translationally coupled to repB563, RepB563 supplied in trans could support replication of a plasmid containing repA563 and a truncated repB563. This observation suggests that RepB563 is a trans-acting replication protein, and repA563 the cis-acting origin of replication, repA563, repB563, and the beginning of ORF X showed high homology to similar regions in a family of lactococcal theta-replicating plasmids. The repA DNA sequences and the RepB amino acid sequences of the plasmids were aligned and the consensus sequences generated. The comparison revealed highly conserved areas among this family of plasmids. In addition, variable domains emerged, presumably having a plasmid specific function, pVS40 and pC1305 were plasmids with replication proteins showing high homology to RepB563. Despite this homology, replication from repA563 could not be supported by the pVS40 or pC1305 replication protein supplied in trans. Likewise the pJW563 protein could not support replication from the pVS40 origin. pJW563 was found to be compatible with the pVS40 and pC1305 replicons. The results indicate that pJW563 belongs to the widespread family of lactococcal theta-replicating pladmids. Despite the high homology between their replicons, the interaction between the replication origin and the protein is highly specific in many cases rendering the plasmids compatible.

  18. Effects of Axial Non-uniform Tip Clearances on Aerodynamic Performance of a Transonic Axial Compressor

    Institute of Scientific and Technical Information of China (English)

    Hongwei MA; Baihe LI

    2008-01-01

    This paper presents a numerical investigation of effects of axial non-uniform tip clearances on the aerodynamic performance of a transonic axial compressor rotor (NASA Rotor 37). The three-dimensional steady flow field within the rotor passage was simulated with the datum tip clearance of 0.356 mm at the design wheel speed of 17188.7 rpm. The simulation results are well consistent with the measurement results, which verified the numeri-cal method. Then the three-dimensional steady flow field within the rotor passage was simulated respectively with different axial non-uniform tip clearances. The calculation results showed that optimal axial non-uniform tip clearances could improve the compressor performance, while the efficiency and the pressure ratio of the com-pressor were increased. The flow mechanism is that the axial non-uniform tip clearance can weaken the tip leak-age vortex, blow down low-energy fluids in boundary layers and reduce both flow blockage and tip loss.

  19. Nonuniform Illumination Correction Algorithm for Underwater Images Using Maximum Likelihood Estimation Method

    Directory of Open Access Journals (Sweden)

    Sonali Sachin Sankpal

    2016-01-01

    Full Text Available Scattering and absorption of light is main reason for limited visibility in water. The suspended particles and dissolved chemical compounds in water are also responsible for scattering and absorption of light in water. The limited visibility in water results in degradation of underwater images. The visibility can be increased by using artificial light source in underwater imaging system. But the artificial light illuminates the scene in a nonuniform fashion. It produces bright spot at the center with the dark region at surroundings. In some cases imaging system itself creates dark region in the image by producing shadow on the objects. The problem of nonuniform illumination is neglected by the researchers in most of the image enhancement techniques of underwater images. Also very few methods are discussed showing the results on color images. This paper suggests a method for nonuniform illumination correction for underwater images. The method assumes that natural underwater images are Rayleigh distributed. This paper used maximum likelihood estimation of scale parameter to map distribution of image to Rayleigh distribution. The method is compared with traditional methods for nonuniform illumination correction using no-reference image quality metrics like average luminance, average information entropy, normalized neighborhood function, average contrast, and comprehensive assessment function.

  20. Multidimensional Local Central Limit Theorem of Some Non-uniformly Hyperbolic Systems

    Institute of Scientific and Technical Information of China (English)

    Hong Qiang XIA

    2009-01-01

    We consider Young's nonuniformly hyperbolic system (X, T, v) where v is the SRB measure corresponding to the system (X, T), and show that if the components of a Holder observable f : X → Rd are cohomologously independent, then f satisfies the multidimensional central limit theorem. Moreover if f is aperiodic, then f satisfies the local multidimensional central limit theorem.

  1. Negative refraction of ultra-cold atoms in optical lattices with nonuniform artificial gauge fields

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Ai-Xia, E-mail: zhangax@nwnu.edu.cn; Xue, Ju-Kui

    2016-07-01

    We theoretically study the reflection and refraction of ultra-cold atoms in optical lattices exposed to a nonuniform artificial magnetic field. The introduction of the nonuniform artificial magnetic field to the optical lattice for suitable designer magnetic potential barrier can lead to a series of intriguing reflection and refraction phenomena of atoms, including reflection, positive refraction, negative refraction and atomic matter wave splitting. Both the occurrence and the distribution of these reflection and refraction scenarios can be coherently controlled by the nonuniform artificial magnetic field. In particular, the regions close to the boundary of reflection demonstrate two more interesting propagation modes, i.e., a reflected branch of atoms comprising a positive or negative refracted branch of atoms with almost same atom population will be excited simultaneously at the magnetic potential barrier. The results can be a guide for the coherent control of the matter waves in optical lattices and the design of new atom optics devices. - Highlights: • Ultra-cold atoms in OL with nonuniform magnetic field are studied. • Matter wave reflection, refraction and splitting are coherently controlled. • Results provide a guide for the design of new atomic optics devices.

  2. Adaptive scene-based nonuniformity correction method for infrared-focal plane arrays

    Science.gov (United States)

    Torres, Sergio N.; Vera, Esteban M.; Reeves, Rodrigo A.; Sobarzo, Sergio K.

    2003-08-01

    The non-uniform response in infrared focal plane array (IRFPA) detectors produces corrupted images with a fixed-pattern noise. In this paper we present an enhanced adaptive scene-based non-uniformity correction (NUC) technique. The method simultaneously estimates detector's parameters and performs the non-uniformity compensation using a neural network approach. In addition, the proposed method doesn't make any assumption on the kind or amount of non-uniformity presented on the raw data. The strength and robustness of the proposed method relies in avoiding the presence of ghosting artifacts through the use of optimization techniques in the parameter estimation learning process, such as: momentum, regularization, and adaptive learning rate. The proposed method has been tested with video sequences of simulated and real infrared data taken with an InSb IRFPA, reaching high correction levels, reducing the fixed pattern noise, decreasing the ghosting, and obtaining an effective frame by frame adaptive estimation of each detector's gain and offset.

  3. A dynamic resistance nonuniformity compensation circuit for uncooled microbolometer detector arrays

    Science.gov (United States)

    Yildirim, Omer Ozgur; Akin, Tayfun

    2006-05-01

    This paper presents a new approach for compensating resistance nonuniformity of uncooled microbolometers by adjusting the bias currents of both detector and reference pixels. Contrary to conventional nonuniformity compensation circuits, this approach eliminates the need for digital-to-analog converters (DACs), which usually occupy a large area, dissipate high power, and require complicated external circuitry with high frequency data transfer to the microbolometer chip. The proposed circuit uses a feedback structure that dynamically changes the bias currents of the reference and detector pixels and does not need complicated external circuitry. A special feature of the circuit is that it provides continuous compensation for the detector and reference resistances due to temperature changes over time. The circuit is implemented in a 0.6μm 5V CMOS process and occupies an area of only 160μm × 630μm. Test results of the prototype circuit show that the circuit reduces the offset current due to resistance nonuniformity about 2.35% of its uncompensated value, i.e., an improvement of about 42.5 times is achieved, independent of the nonuniformity amount. The circuit achieves this compensation in 12μsec. Considering its simplicity and low cost, this approach is suitable for large array commercial infrared imaging systems.

  4. Stress state of thin – walled member of the structure with operation damages under nonuniform loading

    Directory of Open Access Journals (Sweden)

    В.В. Астанін

    2004-01-01

    Full Text Available  The publication is dedicated to determining of stress state in particular the stress concentration factors for thin – walled members of the structures subject to nonuniform tension. A structure member has obtained the operation damage generation by corrosion and other causes.

  5. Photocatalytic oxidation activity of titanium dioxide film enhanced by Mn non-uniform doping

    Institute of Scientific and Technical Information of China (English)

    ZHANG Kai-jian; XU Wei; LI Xin-jun; ZHENG Shao-jian; XU Gang; WANG Jian-hua

    2006-01-01

    The thin films of TiO2 doped by Mn non-uniformly were prepared by sol-gel method under process control. Each film was characterized by XPS, SEM, UV-vis spectrophotometry and electrochemistry workstation analysis.The activity of the photocatalyst was evaluated by the kinetics of photocatalytic degradation of aqueous methyl orange under the UV radiation. The results show that Mn non-uniform doping evidently enhances the photocatalytic activity of TiO2 thin film. In 80 min, the degradation rates of aqueous methyl orange are 62%, 12% and 34% for Mn non-uniformly doped film (0.7%), the uniformly doped film (0.7%) and pure titanium dioxide film, respectively. The characteristic of PN junction in the film was proved by electrochemical characterization. A mechanism for enhanced photocatalytic activity of Mn non-uniformly doped titanium dioxide film was discussed based on the effective separation of the photon-generated carrier because of the existence of the PN junction.

  6. Novel Approach for Modeling of Nonuniform Slag Layers and Air Gap in Continuous Casting Mold

    Science.gov (United States)

    Wang, Xudong; Kong, Lingwei; Yao, Man; Zhang, Xiaobing

    2017-02-01

    Various kinds of surface defects on the continuous casting slab usually originate from nonuniform heat transfer and mechanical behavior, especially during the initial solidification inside the mold. In this article, a model-coupled inverse heat transfer problem incorporating the effect of slag layers and air gap is developed to study the nonuniform distribution of liquid slag, solid slag, and air gap layers. The model considers not only the formation and evolution of slag layers and air gap but also the temperatures in the mold copper as measured by thermocouples. The simulation results from the model and the measured temperatures from experiments are shown to be in good agreement with each other. At the casting speed of 0.65 m/min, the liquid slag film disappears and transforms into solid slag entirely at about 400 mm away from meniscus, and an air gap begins to form. Until the mold exit, the maximum thickness of the solid slag layer and air gap gradually increases to 1.34 and 0.056 mm, respectively. The results illustrate that the magnitude and nonuniform distribution of the slag layers and air gap along the cross direction, correlating with heat flux between the shell and mold, eventually determine the temperature profiles of the mold hot face and slab surface. The proposed model may provide a convenient approach for analyzing nonuniform heat transfer and mechanical behaviors between the mold and slab in the real casting process.

  7. Face recognition across non-uniform motion blur, illumination, and pose.

    Science.gov (United States)

    Punnappurath, Abhijith; Rajagopalan, Ambasamudram Narayanan; Taheri, Sima; Chellappa, Rama; Seetharaman, Guna

    2015-07-01

    Existing methods for performing face recognition in the presence of blur are based on the convolution model and cannot handle non-uniform blurring situations that frequently arise from tilts and rotations in hand-held cameras. In this paper, we propose a methodology for face recognition in the presence of space-varying motion blur comprising of arbitrarily-shaped kernels. We model the blurred face as a convex combination of geometrically transformed instances of the focused gallery face, and show that the set of all images obtained by non-uniformly blurring a given image forms a convex set. We first propose a non-uniform blur-robust algorithm by making use of the assumption of a sparse camera trajectory in the camera motion space to build an energy function with l1 -norm constraint on the camera motion. The framework is then extended to handle illumination variations by exploiting the fact that the set of all images obtained from a face image by non-uniform blurring and changing the illumination forms a bi-convex set. Finally, we propose an elegant extension to also account for variations in pose.

  8. Deformation space of a non-uniform 3-dimensional real hyperbolic lattice in quaternionic hyperbolic plane

    CERN Document Server

    Kim, Inkang

    2012-01-01

    In this note, we study deformations of a non-uniform real hyperbolic lattice in quaternionic hyperbolic spaces. Specially we show that the representations of the fundamental group of the figure eight knot complement into PU(2,1) cannot be deformed in $PSp(2,1)$ out of PU(2,1) up to conjugacy.

  9. Effect of non-uniform mean flow field on acoustic propagation problems in computational aeroacoustics

    DEFF Research Database (Denmark)

    Si, Haiqing; Shen, Wen Zhong; Zhu, Wei Jun

    2013-01-01

    Acoustic propagation in the presence of a non-uniform mean flow is studied numerically by using two different acoustic propagating models, which solve linearized Euler equations (LEE) and acoustic perturbation equations (APE). As noise induced by turbulent flows often propagates from near field t...

  10. Maximum Likelihood DOA Estimation of Multiple Wideband Sources in the Presence of Nonuniform Sensor Noise

    Directory of Open Access Journals (Sweden)

    K. Yao

    2007-12-01

    Full Text Available We investigate the maximum likelihood (ML direction-of-arrival (DOA estimation of multiple wideband sources in the presence of unknown nonuniform sensor noise. New closed-form expression for the direction estimation Cramér-Rao-Bound (CRB has been derived. The performance of the conventional wideband uniform ML estimator under nonuniform noise has been studied. In order to mitigate the performance degradation caused by the nonuniformity of the noise, a new deterministic wideband nonuniform ML DOA estimator is derived and two associated processing algorithms are proposed. The first algorithm is based on an iterative procedure which stepwise concentrates the log-likelihood function with respect to the DOAs and the noise nuisance parameters, while the second is a noniterative algorithm that maximizes the derived approximately concentrated log-likelihood function. The performance of the proposed algorithms is tested through extensive computer simulations. Simulation results show the stepwise-concentrated ML algorithm (SC-ML requires only a few iterations to converge and both the SC-ML and the approximately-concentrated ML algorithm (AC-ML attain a solution close to the derived CRB at high signal-to-noise ratio.

  11. Phase Transitions in a Non-Uniformly Stressed Iron Borate Single Crystal

    Science.gov (United States)

    Dzhuraev, D. R.; Niyazov, L. N.; Sokolov, B. Yu.

    2016-05-01

    Based on the Landau thermodynamic theory, phase transformations observed in a FeBO3 single crystal subject to spatially non-uniform mechanical stresses are analyzed. It is demonstrated that the main results of theoretical consideration of structural and magnetic phase transitions in the examined crystal do not contradict with the available experimental data.

  12. Quantitative multi-pinhole small-animal SPECT : uniform versus non-uniform Chang attenuation correction

    NARCIS (Netherlands)

    Wu, C.; de Jong, J. R.; van Andel, H. A. Gratama; van der Have, F.; Vastenhouw, B.; Laverman, P.; Boerman, O. C.; Dierckx, R. A. J. O.; Beekman, F. J.

    2011-01-01

    Attenuation of photon flux on trajectories between the source and pinhole apertures affects the quantitative accuracy of reconstructed single-photon emission computed tomography (SPECT) images. We propose a Chang-based non-uniform attenuation correction (NUA-CT) for small-animal SPECT/CT with focusi

  13. Quantitative multi-pinhole small-animal SPECT: uniform versus non-uniform Chang attenuation correction

    NARCIS (Netherlands)

    Wu, C.; Jong, J.R. de; Gratama van Andel, H.A.; Have, F. van der; Vastenhouw, B.; Laverman, P.; Boerman, O.C.; Dierckx, R.A.; Beekman, F.J.

    2011-01-01

    Attenuation of photon flux on trajectories between the source and pinhole apertures affects the quantitative accuracy of reconstructed single-photon emission computed tomography (SPECT) images. We propose a Chang-based non-uniform attenuation correction (NUA-CT) for small-animal SPECT/CT with focusi

  14. Numerical analysis of blood flow in realistic arteries subjected to strong non-uniform magnetic fields

    NARCIS (Netherlands)

    Kenjeres, S.

    2008-01-01

    The paper reports on a comprehensive mathematical model for simulations of blood flow under the presence of strong non-uniform magnetic fields. The model consists of a set of Navier–Stokes equations accounting for the Lorentz and magnetisation forces, and a simplified set of Maxwell’s equations (Bio

  15. Reducing the Computational Complexity of Reconstruction in Compressed Sensing Nonuniform Sampling

    DEFF Research Database (Denmark)

    Grigoryan, Ruben; Jensen, Tobias Lindstrøm; Arildsen, Thomas

    2013-01-01

    This paper proposes a method that reduces the computational complexity of signal reconstruction in single-channel nonuniform sampling while acquiring frequency sparse multi-band signals. Generally, this compressed sensing based signal acquisition allows a decrease in the sampling rate of frequency...

  16. Non-uniform sampling in EPR--optimizing data acquisition for HYSCORE spectroscopy.

    Science.gov (United States)

    Nakka, K K; Tesiram, Y A; Brereton, I M; Mobli, M; Harmer, J R

    2014-08-21

    Non-uniform sampling combined with maximum entropy reconstruction is a powerful technique used in multi-dimensional NMR spectroscopy to reduce sample measurement time. We adapted this technique to the pulse EPR experiment hyperfine sublevel correlation (HYSCORE) and show that experimental times can be shortened by approximately an order of magnitude as compared to conventional linear sampling with negligible loss of information.

  17. Numerical analysis of blood flow in realistic arteries subjected to strong non-uniform magnetic fields

    NARCIS (Netherlands)

    Kenjeres, S.

    2008-01-01

    The paper reports on a comprehensive mathematical model for simulations of blood flow under the presence of strong non-uniform magnetic fields. The model consists of a set of Navier–Stokes equations accounting for the Lorentz and magnetisation forces, and a simplified set of Maxwell’s equations (Bio

  18. Desynchronization boost by non-uniform coordinated reset stimulation in ensembles of pulse-coupled neurons

    Directory of Open Access Journals (Sweden)

    Leonhard eLücken

    2013-05-01

    Full Text Available Several brain diseases are characterized by abnormalneuronal synchronization. Desynchronization of abnormal neural synchronyis theoretically compelling because of the complex dynamical mechanismsinvolved. We here present a novel type of coordinated reset (CR stimulation.CR means to deliver phase resetting stimuli at different neuronalsub-populations sequentially, i.e. at times equidistantly distributedin a stimulation cycle. This uniform timing pattern seems to be intuitiveand actually applies to the neural network models used for the studyof CR so far. CR resets the population to an unstable cluster statefrom where it passes through a desynchronized transient, eventuallyresynchronizing if left unperturbed. In contrast, we show that theoptimal stimulation times are nonuniform. Using the model of weaklypulse-coupled neurons with phase response curves, we provide an approachthat enables to determine optimal stimulation timing patterns thatsubstantially maximize the desynchronized transient time followingthe application of CR stimulation. This approach includes an optimizationsearch for clusters in a low-dimensional pulse coupled map. As a consequence,model-specific non-uniformly spaced cluster states cause considerablylonger desynchronization transients. Intriguingly, such a desynchronizationboost with non-uniform CR stimulation can already be achieved by onlyslight modifications of the uniform CR timing pattern. Our resultssuggest that the non-uniformness of the stimulation times can be amedically valuable parameter in the calibration procedure for CR stimulation,where the latter has successfully been used in clinical and pre-clinicalstudies for the treatment of Parkinson's disease and tinnitus.

  19. Constructing iterative non-uniform B-spline curve and surface to fit data points

    Institute of Scientific and Technical Information of China (English)

    LIN Hongwei; WANG Guojin; DONG Chenshi

    2004-01-01

    In this paper, based on the idea of profit and loss modification, we present the iterative non-uniform B-spline curve and surface to settle a key problem in computer aided geometric design and reverse engineering, that is, constructing the curve (surface)fitting (interpolating) a given ordered point set without solving a linear system. We start with a piece of initial non-uniform B-spline curve (surface) which takes the given point set as its control point set. Then by adjusting its control points gradually with iterative formula,we can get a group of non-uniform B-spline curves (surfaces) with gradually higher precision. In this paper, using modern matrix theory, we strictly prove that the limit curve (surface) of the iteration interpolates the given point set. The non-uniform B-spline curves (surfaces) generated with the iteration have many advantages, such as satisfying the NURBS standard, having explicit expression, gaining locality, and convexity preserving,etc.

  20. Comparison of photocatalytic activity of TiO2 film doped nonuniformly by Mn and Zn

    Institute of Scientific and Technical Information of China (English)

    XU Wei; LI Xin-jun; ZHENG Shao-jian; WANG Jun-gang; XU Zhong-kui

    2005-01-01

    The thin films of TiO2, doped by Mn or Zn with nonuniform distribution, were prepared by sol-gel method under process control. The actinic absorption of the catalyst thin films was evaluated by UV-vis spectrophotometry. And the activity of the photocatalyst was evaluated by photocatalytic degradation kinetics of aqueous methyl orange under UV radiation. The results show that the photocatalytic activity of the TiO2 thin film can be evidently enhanced by Mn non-uniformly doping in the bottom layer and can be decreased by Mn doping in the surface layer.The activity of TiO2 thin film can be evidently enhanced by Zn non-uniform doping in either the bottom or the surface layer. But the activity of TiO2 is less affected by uniformly Zn doping. The different mechanisms for enhanced photocatalytic activity of Mn or Zn non-uniformly doped titanium dioxide film were discussed in terms of the separation of photon-generated carrier in the TiO2 films.

  1. Pondermotive absorption of a short intense laser pulse in a non-uniform plasma

    Energy Technology Data Exchange (ETDEWEB)

    Andreev, A.A.; Platonov, K.Yu. [Inst. for Laser Physics, SC `Vavilov State Optical Inst.` 12, Birzhevaya line, St Petersburg (Russian Federation); Tanaka, K.A.

    1998-03-01

    An analytical description of the pondermotive absorption mechanism at a short high intense laser pulse interaction with a strong inhomogeneous plasma is presented. The optimal conditions for the maximum of resonance absorption of laser pulse interaction with non-uniform plasma at normal incidence are founded. (author)

  2. Modeling the effect of nonuniform sediment on the dynamics of offshore tidal sandbanks

    NARCIS (Netherlands)

    Roos, Pieter C.; Wemmenhove, Rik; Hulscher, Suzanne J. M. H.; Hoeijmakers, Harry W. M.; Kruyt, N. P.

    2007-01-01

    [1] Tidal sandbanks are large-scale bed features present in many shallow shelf seas. Here we investigate the effect of nonuniform sediment on their dynamics, with a particular aim to explain observed surficial grain size variations over tidal sandbanks from a process-based modeling perspective. To t

  3. Calculation of Spark Breakdown or Corona Starting Voltages in Nonuniform Fields

    DEFF Research Database (Denmark)

    Pedersen, A.

    1967-01-01

    The processes leading to a spark breakdown or corona discharge are discussed very briefly. A quantitative breakdown criterion for use in high-voltage design is derived by which spark breakdown or corona starting voltages in nonuniform fields can be calculated. The criterion is applied to the sphere...

  4. Analysis of the origins of content non-uniformity in high-shear wet granulation.

    Science.gov (United States)

    Oka, Sarang; Smrčka, David; Kataria, Anjali; Emady, Heather; Muzzio, Fernando; Štěpánek, František; Ramachandran, Rohit

    2017-08-07

    In this study, the origins of granule content non-uniformity in the high-shear wet granulation of a model two-component pharmaceutical blend were investigated. Using acetaminophen as the active pharmaceutical ingredient (API) and microcrystalline cellulose as the excipient, the distribution of the API across the granule size classes was measured for a range of conditions that differed in the duration of the initial dry mixing stage, the overall composition of the blend and the wet massing time. The coarse granule fractions were found to be systematically sub-potent, while the fines were enriched in the API. The extent of content non-uniformity was found to be dependent on two factors - powder segregation during dry mixing and redistribution of the API between the granule size fractions during the wet massing phase. The latter was demonstrated in an experiment where the excipient was pre-granulated, the API was added later and wet massed. The content non-uniformity in this case was comparable to that obtained when both components were present in the granulator from the beginning. With increasing wet massing time, the extent of content non-uniformity decreased, indicating that longer wet massing times might be a solution for systems with a natural tendency for component segregation. Copyright © 2017 Elsevier B.V. All rights reserved.

  5. Experiments with non-uniform sediment in case of bed-load transport

    NARCIS (Netherlands)

    Ribberink, J.S.

    1983-01-01

    An experimental study was carried out in the framework of a research project concerning the development of a mathematical model for morphological computations in rivers in case of non-uniform sediment. The study consists of a series of laboratory experiments in a straight flume under steady, uniform

  6. A discriminative model-constrained EM approach to 3D MRI brain tissue classification and intensity non-uniformity correction

    Energy Technology Data Exchange (ETDEWEB)

    Wels, Michael; Hornegger, Joachim [Pattern Recognition Lab, Department of Computer Science, Friedrich-Alexander University Erlangen-Nuremberg, Martensstr. 3, 91058 Erlangen (Germany); Zheng Yefeng; Comaniciu, Dorin [Corporate Research and Technologies, Siemens Corporate Technology, 755 College Road East, Princeton, NJ 08540 (United States); Huber, Martin, E-mail: michael.wels@informatik.uni-erlangen.de [Corporate Research and Technologies, Siemens Corporate Technology, Guenther-Scharowsky-Str. 1, 91058 Erlangen (Germany)

    2011-06-07

    We describe a fully automated method for tissue classification, which is the segmentation into cerebral gray matter (GM), cerebral white matter (WM), and cerebral spinal fluid (CSF), and intensity non-uniformity (INU) correction in brain magnetic resonance imaging (MRI) volumes. It combines supervised MRI modality-specific discriminative modeling and unsupervised statistical expectation maximization (EM) segmentation into an integrated Bayesian framework. While both the parametric observation models and the non-parametrically modeled INUs are estimated via EM during segmentation itself, a Markov random field (MRF) prior model regularizes segmentation and parameter estimation. Firstly, the regularization takes into account knowledge about spatial and appearance-related homogeneity of segments in terms of pairwise clique potentials of adjacent voxels. Secondly and more importantly, patient-specific knowledge about the global spatial distribution of brain tissue is incorporated into the segmentation process via unary clique potentials. They are based on a strong discriminative model provided by a probabilistic boosting tree (PBT) for classifying image voxels. It relies on the surrounding context and alignment-based features derived from a probabilistic anatomical atlas. The context considered is encoded by 3D Haar-like features of reduced INU sensitivity. Alignment is carried out fully automatically by means of an affine registration algorithm minimizing cross-correlation. Both types of features do not immediately use the observed intensities provided by the MRI modality but instead rely on specifically transformed features, which are less sensitive to MRI artifacts. Detailed quantitative evaluations on standard phantom scans and standard real-world data show the accuracy and robustness of the proposed method. They also demonstrate relative superiority in comparison to other state-of-the-art approaches to this kind of computational task: our method achieves average

  7. Failure of Ceramic Composites in Non-Uniform Stress Fields

    Science.gov (United States)

    Rajan, Varun P.

    Continuous-fiber ceramic matrix composites (CMCs) are of interest as hot-section components in gas turbine engines due to their refractoriness and low density relative to metallic alloys. In service, CMCs will be subjected to spatially inhomogeneous temperature and stress fields. Robust tools that enable prediction of deformation and fracture under these conditions are therefore required for component design and analysis. Such tools are presently lacking. The present work helps to address this deficiency by developing models for CMC mechanical behavior at two length scales: that of the constituents and that of the components. Problems of interest are further divided into two categories: '1-D loadings,' in which the stresses are aligned with the fiber axes, and '2-D loadings,' in which the stress state is more general. For the former class of problems, the major outstanding issue is material fracture, not deformation. A fracture criterion based on the attainment of a global load maximum is developed, which yields results for pure bending of CMCs in reasonable agreement with available experimental data. For the latter class of problems, the understanding of both the micro-scale and macro-scale behavior is relatively immature. An approach based upon analysis of a unit cell (a single fiber surrounded by a matrix jacket) is pursued. Stress fields in the constituents of the composite are estimated using analytical models, the accuracy of which is confirmed using finite element analysis. As part of a fracture mechanics analysis, these fields enable estimation of the steady-state matrix cracking stress for arbitrary in-plane loading of a unidirectional ply. While insightful at the micro-scale, unit cell models are difficult to extend to coarser scales. Instead, material deformation is typically predicted using phenomenological constitutive models. One such model for CMC laminates is investigated and found to predict material instability where none should exist. Remedies to

  8. Replicative Intermediates of Human Papillomavirus Type 11 in Laryngeal Papillomas: Site of Replication Initiation and Direction of Replication

    Science.gov (United States)

    Auborn, K. J.; Little, R. D.; Platt, T. H. K.; Vaccariello, M. A.; Schildkraut, C. L.

    1994-07-01

    We have examined the structures of replication intermediates from the human papillomavirus type 11 genome in DNA extracted from papilloma lesions (laryngeal papillomas). The sites of replication initiation and termination utilized in vivo were mapped by using neutral/neutral and neutral/alkaline two-dimensional agarose gel electrophoresis methods. Initiation of replication was detected in or very close to the upstream regulatory region (URR; the noncoding, regulatory sequences upstream of the open reading frames in the papillomavirus genome). We also show that replication forks proceed bidirectionally from the origin and converge 180circ opposite the URR. These results demonstrate the feasibility of analysis of replication of viral genomes directly from infected tissue.

  9. Bayesian coestimation of phylogeny and sequence alignment

    Directory of Open Access Journals (Sweden)

    Jensen Jens

    2005-04-01

    Full Text Available Abstract Background Two central problems in computational biology are the determination of the alignment and phylogeny of a set of biological sequences. The traditional approach to this problem is to first build a multiple alignment of these sequences, followed by a phylogenetic reconstruction step based on this multiple alignment. However, alignment and phylogenetic inference are fundamentally interdependent, and ignoring this fact leads to biased and overconfident estimations. Whether the main interest be in sequence alignment or phylogeny, a major goal of computational biology is the co-estimation of both. Results We developed a fully Bayesian Markov chain Monte Carlo method for coestimating phylogeny and sequence alignment, under the Thorne-Kishino-Felsenstein model of substitution and single nucleotide insertion-deletion (indel events. In our earlier work, we introduced a novel and efficient algorithm, termed the "indel peeling algorithm", which includes indels as phylogenetically informative evolutionary events, and resembles Felsenstein's peeling algorithm for substitutions on a phylogenetic tree. For a fixed alignment, our extension analytically integrates out both substitution and indel events within a proper statistical model, without the need for data augmentation at internal tree nodes, allowing for efficient sampling of tree topologies and edge lengths. To additionally sample multiple alignments, we here introduce an efficient partial Metropolized independence sampler for alignments, and combine these two algorithms into a fully Bayesian co-estimation procedure for the alignment and phylogeny problem. Our approach results in estimates for the posterior distribution of evolutionary rate parameters, for the maximum a-posteriori (MAP phylogenetic tree, and for the posterior decoding alignment. Estimates for the evolutionary tree and multiple alignment are augmented with confidence estimates for each node height and alignment column

  10. AlignHUSH: Alignment of HMMs using structure and hydrophobicity information

    OpenAIRE

    Krishnadev Oruganty; Srinivasan Narayanaswamy

    2011-01-01

    Abstract Background Sensitive remote homology detection and accurate alignments especially in the midnight zone of sequence similarity are needed for better function annotation and structural modeling of proteins. An algorithm, AlignHUSH for HMM-HMM alignment has been developed which is capable of recognizing distantly related domain families The method uses structural information, in the form of predicted secondary structure probabilities, and hydrophobicity of amino acids to align HMMs of t...

  11. Regionally Aligned Divisions: Enabling Cultural and Linguistic Competency in Regionally Aligned Forces

    Science.gov (United States)

    2016-05-26

    Regionally Aligned Divisions: Enabling Cultural & Linguistic Competency in... Regionally Aligned Forces A Monograph By MAJ Mikola J. King United States Army School of Advanced Military Studies United States Army Command...From - To) 01-05-2016 SAMS Monograph nJN 2015 - MAY 2016 4. TITLE AND SUBTITLE Sa. CONTRACT NUMBER Regionally Aligned Divisions: Enabling Cultural

  12. Protein sequence alignment analysis by local covariation: coevolution statistics detect benchmark alignment errors.

    Directory of Open Access Journals (Sweden)

    Russell J Dickson

    Full Text Available The use of sequence alignments to understand protein families is ubiquitous in molecular biology. High quality alignments are difficult to build and protein alignment remains one of the largest open problems in computational biology. Misalignments can lead to inferential errors about protein structure, folding, function, phylogeny, and residue importance. Identifying alignment errors is difficult because alignments are built and validated on the same primary criteria: sequence conservation. Local covariation identifies systematic misalignments and is independent of conservation. We demonstrate an alignment curation tool, LoCo, that integrates local covariation scores with the Jalview alignment editor. Using LoCo, we illustrate how local covariation is capable of identifying alignment errors due to the reduction of positional independence in the region of misalignment. We highlight three alignments from the benchmark database, BAliBASE 3, that contain regions of high local covariation, and investigate the causes to illustrate these types of scenarios. Two alignments contain sequential and structural shifts that cause elevated local covariation. Realignment of these misaligned segments reduces local covariation; these alternative alignments are supported with structural evidence. We also show that local covariation identifies active site residues in a validated alignment of paralogous structures. Loco is available at https://sourceforge.net/projects/locoprotein/files/.

  13. RevTrans: multiple alignment of coding DNA from aligned amino acid sequences

    DEFF Research Database (Denmark)

    Wernersson, Rasmus; Pedersen, Anders Gorm

    2003-01-01

    The simple fact that proteins are built from 20 amino acids while DNA only contains four different bases, means that the 'signal-to-noise ratio' in protein sequence alignments is much better than in alignments of DNA. Besides this information-theoretical advantage, protein alignments also benefit...

  14. Surface micro topography replication in injection moulding

    DEFF Research Database (Denmark)

    Arlø, Uffe Rolf

    of the mechanisms controlling topography replication. Surface micro topography replication in injection moulding depends on the main elements of  Process conditions  Plastic material  Mould topography In this work, the process conditions is the main factor considered, but the impact of plastic material...

  15. Replication and Robustness in Developmental Research

    Science.gov (United States)

    Duncan, Greg J.; Engel, Mimi; Claessens, Amy; Dowsett, Chantelle J.

    2014-01-01

    Replications and robustness checks are key elements of the scientific method and a staple in many disciplines. However, leading journals in developmental psychology rarely include explicit replications of prior research conducted by different investigators, and few require authors to establish in their articles or online appendices that their key…

  16. Completion of DNA replication in Escherichia coli.

    Science.gov (United States)

    Wendel, Brian M; Courcelle, Charmain T; Courcelle, Justin

    2014-11-18

    The mechanism by which cells recognize and complete replicated regions at their precise doubling point must be remarkably efficient, occurring thousands of times per cell division along the chromosomes of humans. However, this process remains poorly understood. Here we show that, in Escherichia coli, the completion of replication involves an enzymatic system that effectively counts pairs and limits cellular replication to its doubling point by allowing converging replication forks to transiently continue through the doubling point before the excess, over-replicated regions are incised, resected, and joined. Completion requires RecBCD and involves several proteins associated with repairing double-strand breaks including, ExoI, SbcDC, and RecG. However, unlike double-strand break repair, completion occurs independently of homologous recombination and RecA. In some bacterial viruses, the completion mechanism is specifically targeted for inactivation to allow over-replication to occur during lytic replication. The results suggest that a primary cause of genomic instabilities in many double-strand-break-repair mutants arises from an impaired ability to complete replication, independent from DNA damage.

  17. Replication and Robustness in Developmental Research

    Science.gov (United States)

    Duncan, Greg J.; Engel, Mimi; Claessens, Amy; Dowsett, Chantelle J.

    2014-01-01

    Replications and robustness checks are key elements of the scientific method and a staple in many disciplines. However, leading journals in developmental psychology rarely include explicit replications of prior research conducted by different investigators, and few require authors to establish in their articles or online appendices that their key…

  18. Using Replication Projects in Teaching Research Methods

    Science.gov (United States)

    Standing, Lionel G.; Grenier, Manuel; Lane, Erica A.; Roberts, Meigan S.; Sykes, Sarah J.

    2014-01-01

    It is suggested that replication projects may be valuable in teaching research methods, and also address the current need in psychology for more independent verification of published studies. Their use in an undergraduate methods course is described, involving student teams who performed direct replications of four well-known experiments, yielding…

  19. How frog embryos replicate their DNA reliably

    Science.gov (United States)

    Bechhoefer, John; Marshall, Brandon

    2007-03-01

    Frog embryos contain three billion base pairs of DNA. In early embryos (cycles 2-12), DNA replication is extremely rapid, about 20 min., and the entire cell cycle lasts only 25 min., meaning that mitosis (cell division) takes place in about 5 min. In this stripped-down cell cycle, there are no efficient checkpoints to prevent the cell from dividing before its DNA has finished replication - a disastrous scenario. Even worse, the many origins of replication are laid down stochastically and are also initiated stochastically throughout the replication process. Despite the very tight time constraints and despite the randomness introduced by origin stochasticity, replication is extremely reliable, with cell division failing no more than once in 10,000 tries. We discuss a recent model of DNA replication that is drawn from condensed-matter theories of 1d nucleation and growth. Using our model, we discuss different strategies of replication: should one initiate all origins as early as possible, or is it better to hold back and initiate some later on? Using concepts from extreme-value statistics, we derive the distribution of replication times given a particular scenario for the initiation of origins. We show that the experimentally observed initiation strategy for frog embryos meets the reliability constraint and is close to the one that requires the fewest resources of a cell.

  20. Mammalian RAD52 Functions in Break-Induced Replication Repair of Collapsed DNA Replication Forks

    DEFF Research Database (Denmark)

    Sotiriou, Sotirios K; Kamileri, Irene; Lugli, Natalia

    2016-01-01

    Human cancers are characterized by the presence of oncogene-induced DNA replication stress (DRS), making them dependent on repair pathways such as break-induced replication (BIR) for damaged DNA replication forks. To better understand BIR, we performed a targeted siRNA screen for genes whose depl...