WorldWideScience

Sample records for pseudo random sequence

  1. PRIMITIVE MATRICES AND GENERATORS OF PSEUDO RANDOM SEQUENCES OF GALOIS

    Directory of Open Access Journals (Sweden)

    A. Beletsky

    2014-04-01

    Full Text Available In theory and practice of information cryptographic protection one of the key problems is the forming a binary pseudo-random sequences (PRS with a maximum length with acceptable statistical characteristics. PRS generators are usually implemented by linear shift register (LSR of maximum period with linear feedback [1]. In this paper we extend the concept of LSR, assuming that each of its rank (memory cell can be in one of the following condition. Let’s call such registers “generalized linear shift register.” The research goal is to develop algorithms for constructing Galois and Fibonacci generalized matrix of n-order over the field , which uniquely determined both the structure of corresponding generalized of n-order LSR maximal period, and formed on their basis Galois PRS generators of maximum length. Thus the article presents the questions of formation the primitive generalized Fibonacci and Galois arbitrary order matrix over the prime field . The synthesis of matrices is based on the use of irreducible polynomials of degree and primitive elements of the extended field generated by polynomial. The constructing methods of Galois and Fibonacci conjugated primitive matrices are suggested. The using possibilities of such matrices in solving the problem of constructing generalized generators of Galois pseudo-random sequences are discussed.

  2. Cryptographic pseudo-random sequences from the chaotic Hénon ...

    Indian Academy of Sciences (India)

    Pseudo-random number sequences are useful in many applications including Monte-Carlo simulation, spread spectrum ... a pseudo-random binary sequence from the two-dimensional chaotic Hénon map is explored. ... is the Hénon map, a two-dimensional discrete-time nonlinear dynamical system represented by the state ...

  3. Design of Long Period Pseudo-Random Sequences from the Addition of m -Sequences over 𝔽 p

    Directory of Open Access Journals (Sweden)

    Ren Jian

    2004-01-01

    Full Text Available Pseudo-random sequence with good correlation property and large linear span is widely used in code division multiple access (CDMA communication systems and cryptology for reliable and secure information transmission. In this paper, sequences with long period, large complexity, balance statistics, and low cross-correlation property are constructed from the addition of m -sequences with pairwise-prime linear spans (AMPLS. Using m -sequences as building blocks, the proposed method proved to be an efficient and flexible approach to construct long period pseudo-random sequences with desirable properties from short period sequences. Applying the proposed method to 𝔽 2 , a signal set ( ( 2 n − 1 ( 2 m − 1 , ( 2 n + 1 ( 2 m + 1 , ( 2 ( n + 1 / 2 + 1 ( 2 ( m + 1 / 2 + 1 is constructed.

  4. Cardiorespiratory Kinetics Determined by Pseudo-Random Binary Sequences - Comparisons between Walking and Cycling.

    Science.gov (United States)

    Koschate, J; Drescher, U; Thieschäfer, L; Heine, O; Baum, K; Hoffmann, U

    2016-12-01

    This study aims to compare cardiorespiratory kinetics as a response to a standardised work rate protocol with pseudo-random binary sequences between cycling and walking in young healthy subjects. Muscular and pulmonary oxygen uptake (V̇O2) kinetics as well as heart rate kinetics were expected to be similar for walking and cycling. Cardiac data and V̇O2 of 23 healthy young subjects were measured in response to pseudo-random binary sequences. Kinetics were assessed applying time series analysis. Higher maxima of cross-correlation functions between work rate and the respective parameter indicate faster kinetics responses. Muscular V̇O2 kinetics were estimated from heart rate and pulmonary V̇O2 using a circulatory model. Muscular (walking vs. cycling [mean±SD in arbitrary units]: 0.40±0.08 vs. 0.41±0.08) and pulmonary V̇O2 kinetics (0.35±0.06 vs. 0.35±0.06) were not different, although the time courses of the cross-correlation functions of pulmonary V̇O2 showed unexpected biphasic responses. Heart rate kinetics (0.50±0.14 vs. 0.40±0.14; P=0.017) was faster for walking. Regarding the biphasic cross-correlation functions of pulmonary V̇O2 during walking, the assessment of muscular V̇O2 kinetics via pseudo-random binary sequences requires a circulatory model to account for cardio-dynamic distortions. Faster heart rate kinetics for walking should be considered by comparing results from cycle and treadmill ergometry. © Georg Thieme Verlag KG Stuttgart · New York.

  5. Pseudo-random-bit-sequence phase modulation for reduced errors in a fiber optic gyroscope.

    Science.gov (United States)

    Chamoun, Jacob; Digonnet, Michel J F

    2016-12-15

    Low noise and drift in a laser-driven fiber optic gyroscope (FOG) are demonstrated by interrogating the sensor with a low-coherence laser. The laser coherence was reduced by broadening its optical spectrum using an external electro-optic phase modulator driven by either a sinusoidal or a pseudo-random bit sequence (PRBS) waveform. The noise reduction measured in a FOG driven by a modulated laser agrees with the calculations based on the broadened laser spectrum. Using PRBS modulation, the linewidth of a laser was broadened from 10 MHz to more than 10 GHz, leading to a measured FOG noise of only 0.00073  deg/√h and a drift of 0.023  deg/h. To the best of our knowledge, these are the lowest noise and drift reported in a laser-driven FOG, and this noise is below the requirement for the inertial navigation of aircraft.

  6. Interference Suppression Performance of Automotive UWB Radars Using Pseudo Random Sequences

    Directory of Open Access Journals (Sweden)

    I. Pasya

    2015-12-01

    Full Text Available Ultra wideband (UWB automotive radars have attracted attention from the viewpoint of reducing traffic accidents. The performance of automotive radars may be degraded by interference from nearby radars using the same frequency. In this study, a scenario where two cars pass each other on a road was considered. Considering the utilization of cross-polarization, the desired-to-undesired signal power ratio (DUR was found to vary approximately from -10 to 30 dB. Different pseudo random sequences were employed for spectrum spreading the different radar signals to mitigate the interference effects. This paper evaluates the interference suppression provided by maximum length sequence (MLS and Gold sequence (GS through numerical simulations of the radar’s performance in terms of probability of false alarm and probability of detection. It was found that MLS and GS yielded nearly the same performance when the DUR is -10 dB (worst case; for example when fixing the probability of false alarm to 0.0001, the probabilities of detection were 0.964 and 0.946 respectively. The GS are more advantageous than MLS due to larger number of different sequences having the same length in GS than in MLS.

  7. Least squares deconvolution for leak detection with a pseudo random binary sequence excitation

    Science.gov (United States)

    Nguyen, Si Tran Nguyen; Gong, Jinzhe; Lambert, Martin F.; Zecchin, Aaron C.; Simpson, Angus R.

    2018-01-01

    Leak detection and localisation is critical for water distribution system pipelines. This paper examines the use of the time-domain impulse response function (IRF) for leak detection and localisation in a pressurised water pipeline with a pseudo random binary sequence (PRBS) signal excitation. Compared to the conventional step wave generated using a single fast operation of a valve closure, a PRBS signal offers advantageous correlation properties, in that the signal has very low autocorrelation for lags different from zero and low cross correlation with other signals including noise and other interference. These properties result in a significant improvement in the IRF signal to noise ratio (SNR), leading to more accurate leak localisation. In this paper, the estimation of the system IRF is formulated as an optimisation problem in which the l2 norm of the IRF is minimised to suppress the impact of noise and interference sources. Both numerical and experimental data are used to verify the proposed technique. The resultant estimated IRF provides not only accurate leak location estimation, but also good sensitivity to small leak sizes due to the improved SNR.

  8. Quasi-Coherent Noise Jamming to LFM Radar Based on Pseudo-random Sequence Phase-modulation

    Directory of Open Access Journals (Sweden)

    N. Tai

    2015-12-01

    Full Text Available A novel quasi-coherent noise jamming method is proposed against linear frequency modulation (LFM signal and pulse compression radar. Based on the structure of digital radio frequency memory (DRFM, the jamming signal is acquired by the pseudo-random sequence phase-modulation of sampled radar signal. The characteristic of jamming signal in time domain and frequency domain is analyzed in detail. Results of ambiguity function indicate that the blanket jamming effect along the range direction will be formed when jamming signal passes through the matched filter. By flexible controlling the parameters of interrupted-sampling pulse and pseudo-random sequence, different covering distances and jamming effects will be achieved. When the jamming power is equivalent, this jamming obtains higher process gain compared with non-coherent jamming. The jamming signal enhances the detection threshold and the real target avoids being detected. Simulation results and circuit engineering implementation validate that the jamming signal covers real target effectively.

  9. Cryptographic pseudo-random sequences from the chaotic Hénon ...

    Indian Academy of Sciences (India)

    dimensional discrete-time Hénon map is proposed. Properties of the proposed sequences pertaining to linear complexity, linear complexity profile, correlation and auto-correlation are investigated. All these properties of the sequences suggest a ...

  10. Analysis of heart rate and oxygen uptake kinetics studied by two different pseudo-random binary sequence work rate amplitudes.

    Science.gov (United States)

    Drescher, U; Koschate, J; Schiffer, T; Schneider, S; Hoffmann, U

    2017-06-01

    The aim of the study was to compare the kinetics responses of heart rate (HR), pulmonary (V˙O2pulm) and predicted muscular (V˙O2musc) oxygen uptake between two different pseudo-random binary sequence (PRBS) work rate (WR) amplitudes both below anaerobic threshold. Eight healthy individuals performed two PRBS WR protocols implying changes between 30W and 80W and between 30W and 110W. HR and V˙O2pulm were measured beat-to-beat and breath-by-breath, respectively. V˙O2musc was estimated applying the approach of Hoffmann et al. (Eur J Appl Physiol 113: 1745-1754, 2013) considering a circulatory model for venous return and cross-correlation functions (CCF) for the kinetics analysis. HR and V˙O2musc kinetics seem to be independent of WR intensity (p>0.05). V˙O2pulm kinetics show prominent differences in the lag of the CCF maximum (39±9s; 31±4s; pkinetics remain unchanged. Copyright © 2017 Elsevier B.V. All rights reserved.

  11. Pseudo-periodic partitions of biological sequences.

    Science.gov (United States)

    Li, Lugang; Jin, Renchao; Kok, Poh-Lin; Wan, Honghui

    2004-02-12

    Algorithm development for finding typical patterns in sequences, especially multiple pseudo-repeats (pseudo-periodic regions), is at the core of many problems arising in biological sequence and structure analysis. In fact, one of the most significant features of biological sequences is their high quasi-repetitiveness. Variation in the quasi-repetitiveness of genomic and proteomic texts demonstrates the presence and density of different biologically important information. It is very important to develop sensitive automatic computational methods for the identification of pseudo-periodic regions of sequences through which we can infer, describe and understand biological properties, and seek precise molecular details of biological structures, dynamics, interactions and evolution. We develop a novel, powerful computational tool for partitioning a sequence to pseudo-periodic regions. The pseudo-periodic partition is defined as a partition, which intuitively has the minimal bias to some perfect-periodic partition of the sequence based on the evolutionary distance. We devise a quadratic time and space algorithm for detecting a pseudo-periodic partition for a given sequence, which actually corresponds to the shortest path in the main diagonal of the directed (acyclic) weighted graph constructed by the Smith-Waterman self-alignment of the sequence. We use several typical examples to demonstrate the utilization of our algorithm and software system in detecting functional or structural domains and regions of proteins. A big advantage of our software program is that there is a parameter, the granularity factor, associated with it and we can freely choose a biological sequence family as a training set to determine the best parameter. In general, we choose all repeats (including many pseudo-repeats) in the SWISS-PROT amino acid sequence database as a typical training set. We show that the granularity factor is 0.52 and the average agreement accuracy of pseudo-periodic partitions

  12. Pseudo random signal processing theory and application

    CERN Document Server

    Zepernick, Hans-Jurgen

    2013-01-01

    In recent years, pseudo random signal processing has proven to be a critical enabler of modern communication, information, security and measurement systems. The signal's pseudo random, noise-like properties make it vitally important as a tool for protecting against interference, alleviating multipath propagation and allowing the potential of sharing bandwidth with other users. Taking a practical approach to the topic, this text provides a comprehensive and systematic guide to understanding and using pseudo random signals. Covering theoretical principles, design methodologies and applications

  13. Cryptography, statistics and pseudo-randomness (Part 1)

    NARCIS (Netherlands)

    Brands, S.; Gill, R.D.

    1995-01-01

    In the classical approach to pseudo-random number generators, a generator is considered to perform well if its output sequences pass a battery of statistical tests that has become standard. In recent years, it has turned out that this approach is not satisfactory. Many generators have turned out to

  14. Pseudo-Hermitian random matrix theory

    Science.gov (United States)

    Srivastava, S. C. L.; Jain, S. R.

    2013-02-01

    Complex extension of quantum mechanics and the discovery of pseudo-unitarily invariant random matrix theory has set the stage for a number of applications of these concepts in physics. We briefly review the basic ideas and present applications to problems in statistical mechanics where new results have become possible. We have found it important to mention the precise directions where advances could be made if further results become available.

  15. Pseudo-Hermitian random matrix theory

    OpenAIRE

    Srivastava, Shashi C. L.; Jain, S. R.

    2013-01-01

    Complex extension of quantum mechanics and the discovery of pseudo-unitarily invariant random matrix theory has set the stage for a number of applications of these concepts in physics. We briefly review the basic ideas and present applications to problems in statistical mechanics where new results have become possible. We have found it important to mention the precise directions where advances could be made if further results become available.

  16. Pseudo-Hermitian random matrix theory

    Energy Technology Data Exchange (ETDEWEB)

    Srivastava, S.C.L. [RIBFG, Variable Energy Cyclotron Centre, 1/AF Bidhan nagar, Kolkata-700 064 (India); Jain, S.R. [NPD, Bhabha Atomic Research Centre, Mumbai-400 085 (India)

    2013-02-15

    Complex extension of quantum mechanics and the discovery of pseudo-unitarily invariant random matrix theory has set the stage for a number of applications of these concepts in physics. We briefly review the basic ideas and present applications to problems in statistical mechanics where new results have become possible. We have found it important to mention the precise directions where advances could be made if further results become available. (Copyright copyright 2013 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim)

  17. Design of Long Period Pseudo-Random Sequences from the Addition of m -Sequences over 𝔽 p

    OpenAIRE

    Ren Jian

    2004-01-01

    Pseudo-random sequence with good correlation property and large linear span is widely used in code division multiple access (CDMA) communication systems and cryptology for reliable and secure information transmission. In this paper, sequences with long period, large complexity, balance statistics, and low cross-correlation property are constructed from the addition of m -sequences with pairwise-prime linear spans (AMPLS). Using m -sequences as building blocks, the proposed method proved to...

  18. 1.2 GBit/s Pseudo Random Pulse Generator Using Multiplexing with GaAs Mesfet Gates

    DEFF Research Database (Denmark)

    Hede, Carsten

    1978-01-01

    A l.2 Gbit/s RZ pseudo random bit generator using multiplexing of six 200 Mbit/s channels, and a GaAs-MESFET gate circuit which exhibits both high speed and simplicity are presented. As a new contribution to the treatment of pseudo random sequences it is shown how the autocorrelation function and...

  19. Pseudo-random number generator based on asymptotic deterministic randomness

    Energy Technology Data Exchange (ETDEWEB)

    Wang Kai [Department of Radio Engineering, Southeast University, Nanjing (China)], E-mail: kaiwang@seu.edu.cn; Pei Wenjiang; Xia Haishan [Department of Radio Engineering, Southeast University, Nanjing (China); Cheung Yiuming [Department of Computer Science, Hong Kong Baptist University, Hong Kong (China)

    2008-06-09

    A novel approach to generate the pseudorandom-bit sequence from the asymptotic deterministic randomness system is proposed in this Letter. We study the characteristic of multi-value correspondence of the asymptotic deterministic randomness constructed by the piecewise linear map and the noninvertible nonlinearity transform, and then give the discretized systems in the finite digitized state space. The statistic characteristics of the asymptotic deterministic randomness are investigated numerically, such as stationary probability density function and random-like behavior. Furthermore, we analyze the dynamics of the symbolic sequence. Both theoretical and experimental results show that the symbolic sequence of the asymptotic deterministic randomness possesses very good cryptographic properties, which improve the security of chaos based PRBGs and increase the resistance against entropy attacks and symbolic dynamics attacks.

  20. Calibration of Correlation Radiometers Using Pseudo-Random Noise Signals

    Directory of Open Access Journals (Sweden)

    Sebastián Pantoja

    2009-08-01

    Full Text Available The calibration of correlation radiometers, and particularly aperture synthesis interferometric radiometers, is a critical issue to ensure their performance. Current calibration techniques are based on the measurement of the cross-correlation of receivers’ outputs when injecting noise from a common noise source requiring a very stable distribution network. For large interferometric radiometers this centralized noise injection approach is very complex from the point of view of mass, volume and phase/amplitude equalization. Distributed noise injection techniques have been proposed as a feasible alternative, but are unable to correct for the so-called “baseline errors” associated with the particular pair of receivers forming the baseline. In this work it is proposed the use of centralized Pseudo-Random Noise (PRN signals to calibrate correlation radiometers. PRNs are sequences of symbols with a long repetition period that have a flat spectrum over a bandwidth which is determined by the symbol rate. Since their spectrum resembles that of thermal noise, they can be used to calibrate correlation radiometers. At the same time, since these sequences are deterministic, new calibration schemes can be envisaged, such as the correlation of each receiver’s output with a baseband local replica of the PRN sequence, as well as new distribution schemes of calibration signals. This work analyzes the general requirements and performance of using PRN sequences for the calibration of microwave correlation radiometers, and particularizes the study to a potential implementation in a large aperture synthesis radiometer using an optical distribution network.

  1. Calibration of correlation radiometers using pseudo-random noise signals.

    Science.gov (United States)

    Pérez, Isaac Ramos; Bosch-Lluis, Xavi; Camps, Adriano; Alvarez, Nereida Rodriguez; Hernandez, Juan Fernando Marchán; Domènech, Enric Valencia; Vernich, Carlos; de la Rosa, Sonia; Pantoja, Sebastián

    2009-01-01

    The calibration of correlation radiometers, and particularly aperture synthesis interferometric radiometers, is a critical issue to ensure their performance. Current calibration techniques are based on the measurement of the cross-correlation of receivers' outputs when injecting noise from a common noise source requiring a very stable distribution network. For large interferometric radiometers this centralized noise injection approach is very complex from the point of view of mass, volume and phase/amplitude equalization. Distributed noise injection techniques have been proposed as a feasible alternative, but are unable to correct for the so-called "baseline errors" associated with the particular pair of receivers forming the baseline. In this work it is proposed the use of centralized Pseudo-Random Noise (PRN) signals to calibrate correlation radiometers. PRNs are sequences of symbols with a long repetition period that have a flat spectrum over a bandwidth which is determined by the symbol rate. Since their spectrum resembles that of thermal noise, they can be used to calibrate correlation radiometers. At the same time, since these sequences are deterministic, new calibration schemes can be envisaged, such as the correlation of each receiver's output with a baseband local replica of the PRN sequence, as well as new distribution schemes of calibration signals. This work analyzes the general requirements and performance of using PRN sequences for the calibration of microwave correlation radiometers, and particularizes the study to a potential implementation in a large aperture synthesis radiometer using an optical distribution network.

  2. Random matrix theory for pseudo-Hermitian systems: Cyclic blocks

    Indian Academy of Sciences (India)

    We discuss the relevance of random matrix theory for pseudo-Hermitian systems, and, for Hamiltonians that break parity and time-reversal invariance . In an attempt to understand the random Ising model, we present the treatment of cyclic asymmetric matrices with blocks and show that the nearest-neighbour spacing ...

  3. Random matrix theory for pseudo-Hermitian systems: Cyclic blocks

    Indian Academy of Sciences (India)

    tems, and, for Hamiltonians that break parity P and time-reversal invariance T. In an attempt to understand the ... Keywords. Random matrices; circulants; quantum chaos; PT symmetry; pseudo-. Hermiticity. ... local fluctuation properties of complex quantum systems have universal properties, independent of the details of the ...

  4. Chaos-based Pseudo-random Number Generation

    KAUST Repository

    Barakat, Mohamed L.

    2014-04-10

    Various methods and systems related to chaos-based pseudo-random number generation are presented. In one example, among others, a system includes a pseudo-random number generator (PRNG) to generate a series of digital outputs and a nonlinear post processing circuit to perform an exclusive OR (XOR) operation on a first portion of a current digital output of the PRNG and a permutated version of a corresponding first portion of a previous post processed output to generate a corresponding first portion of a current post processed output. In another example, a method includes receiving at least a first portion of a current output from a PRNG and performing an XOR operation on the first portion of the current PRNG output with a permutated version of a corresponding first portion of a previous post processed output to generate a corresponding first portion of a current post processed output.

  5. A Bidirectional Generalized Synchronization Theorem-Based Chaotic Pseudo-random Number Generator

    Directory of Open Access Journals (Sweden)

    Han Shuangshuang

    2013-07-01

    Full Text Available Based on a bidirectional generalized synchronization theorem for discrete chaos system, this paper introduces a new 5-dimensional bidirectional generalized chaos synchronization system (BGCSDS, whose prototype is a novel chaotic system introduced in [12]. Numerical simulation showed that two pair variables of the BGCSDS achieve generalized chaos synchronization via a transform H.A chaos-based pseudo-random number generator (CPNG was designed by the new BGCSDS. Using the FIPS-140-2 tests issued by the National Institute of Standard and Technology (NIST verified the randomness of the 1000 binary number sequences generated via the CPNG and the RC4 algorithm respectively. The results showed that all the tested sequences passed the FIPS-140-2 tests. The confidence interval analysis showed the statistical properties of the randomness of the sequences generated via the CPNG and the RC4 algorithm do not have significant differences.

  6. absolutely regular random sequences

    Directory of Open Access Journals (Sweden)

    Michel Harel

    1996-01-01

    Full Text Available In this paper, the central limit theorems for the density estimator and for the integrated square error are proved for the case when the underlying sequence of random variables is nonstationary. Applications to Markov processes and ARMA processes are provided.

  7. Research of the method of pseudo-random number generation based on asynchronous cellular automata with several active cells

    Directory of Open Access Journals (Sweden)

    Bilan Stepan

    2017-01-01

    Full Text Available To date, there are many tasks that are aimed at studying the dynamic changes in physical processes. These tasks do not give advance known result. The solution of such problems is based on the construction of a dynamic model of the object. Successful structural and functional implementation of the object model can give a positive result in time. This approach uses the task of constructing artificial biological objects. To solve such problems, pseudo-random number generators are used, which also find wide application for information protection tasks. Such generators should have good statistical properties and give a long repetition period of the generated pseudo-random bit sequence. This work is aimed at improving these characteristics. The paper considers the method of forming pseudo-random sequences of numbers on the basis of aperiodic cellular automata with two active cells. A pseudo-random number generator is proposed that generates three bit sequences. The first two bit sequences are formed by the corresponding two active cells in the cellular automaton. The third bit sequence is the result of executing the XOR function over the bits of the first two sequences and it has better characteristics compared to them. The use of cellular automata with two active cells allowed to improve the statistical properties of the formed bit sequence, as well as its repetition period. This is proved by using graphical tests for generators built based on cellular automata using the neighborhoods of von Neumann and Moore. The tests showed high efficiency of the generator based on an asynchronous cellular automaton with the neighborhood of Moore. The proposed pseudo-random number generators have good statistical properties, which makes it possible to use them in information security systems, as well as for simulation tasks of various dynamic processes.

  8. Fully Digital Chaotic Oscillators Applied to Pseudo Random Number Generation

    KAUST Repository

    Mansingka, Abhinav S.

    2012-05-01

    adapted for pseudo random number generation by truncating statistically defective bits. Finally, a novel post-processing technique using the Fibonacci series is proposed and implemented with a non-autonomous driven hyperchaotic system to provide pseudo random number generators with high nonlinear complexity and controllable period length that enables full utilization of all branches of the chaotic output as statistically secure pseudo random output.

  9. Protocols for data hiding in pseudo-random state

    Science.gov (United States)

    Craver, Scott; Li, Enping; Yu, Jun

    2009-02-01

    An emerging form of steganographic communication uses ciphertext to replace the output of a random or strong pseudo-random number generator. PRNG-driven media, for example computer animated backdrops in video-conferencing channels, can then be used as a covert channel, if the PRNG bits that generated a piece of content can be estimated by the recipient. However, all bits sent over such a channel must be computationally indistinguishable from i.i.d. coin flips. Ciphertext messages and even key exchange datagrams are easily shaped to match this distribution; however, when placing these messages into a continous stream of PRNG bits, the sender is unable to provide synchronization markers, metadata, or error correction to ensure the message's location and proper decoding. In this paper we explore methods for message transmission and steganographic key exchange in such a "coin flip" channel. We establish that key exchange is generally not possible in this channel if an adversary possesses even a modest noise budget. If the warden is not vigilant in adding noise, however, communication is very simple.

  10. Algorithm for generation pseudo-random series with arbitrarily assigned distribution law

    Directory of Open Access Journals (Sweden)

    В.С. Єременко

    2005-04-01

    Full Text Available  Method for generation pseudo-random series with arbitrarily assigned distribution law has been proposed. The praxis of using proposed method for generation pseudo-random series with anti-modal and approximate to Gaussian distribution law has been investigated.

  11. Covert Communication in MIMO-OFDM System Using Pseudo Random Location of Fake Subcarriers

    Directory of Open Access Journals (Sweden)

    Rizky Pratama Hudhajanto

    2016-08-01

    Full Text Available Multiple-Input Multiple-Output Orthogonal Frequency Division Multiplexing (MIMO-OFDM is the most used wireless transmission scheme in the world. However, its security is the interesting problem to discuss if we want to use this scheme to transmit a sensitive data, such as in the military and commercial communication systems. In this paper, we propose a new method to increase the security of MIMO-OFDM system using the change of location of fake subcarrier. The fake subcarriers’ location is generated per packet of data using Pseudo Random sequence generator. The simulation results show that the proposed scheme does not decrease the performance of conventional MIMO-OFDM. The attacker or eavesdropper gets worse Bit Error Rate (BER than the legal receiver compared to the conventional MIMO-OFDM system.

  12. Synchronizing microelectrode and electronic goniometer data using a pseudo-random binary signal.

    Science.gov (United States)

    Moore, Tyler Robert; Jacobs, Rennie Underwood; Yang, Alexander Cheung; Richter, Erich Oscar

    2013-04-01

    Intra-operative investigation of the subthalamic nucleus (STN) requires concurrent measurement of microelectrode voltage, electrode depth and joint movement during deep brain stimulation (DBS) surgery. Commercial solutions to this problem exist but are more expensive. Multiple instruments from different manufacturers can collect the same data, but data from incompatible instruments are collected on disparate clocks, precluding quantitative analysis. A pseudo-random binary signal recorded simultaneously by each set of instruments allows for chronological reconciliation. A custom program collects microelectrode data while simultaneously sending a pseudo-random binary signal to instruments measuring joint movement. The record of this signal is later used to express microelectrode voltage and joint position in a single chronological frame of reference. ClockSynch was used in 15 DBS procedures. After each surgery, records of microelectrode and joint movement were successfully chronologically reconciled. In conclusion, a pseudo-random binary signal integrates disparate systems of instrumentation at a significantly decreased cost.

  13. Non-periodic pseudo-random numbers used in Monte Carlo calculations

    Science.gov (United States)

    Barberis, Gaston E.

    2007-09-01

    The generation of pseudo-random numbers is one of the interesting problems in Monte Carlo simulations, mostly because the common computer generators produce periodic numbers. We used simple pseudo-random numbers generated with the simplest chaotic system, the logistic map, with excellent results. The numbers generated in this way are non-periodic, which we demonstrated for 1013 numbers, and they are obtained in a deterministic way, which allows to repeat systematically any calculation. The Monte Carlo calculations are the ideal field to apply these numbers, and we did it for simple and more elaborated cases. Chemistry and Information Technology use this kind of simulations, and the application of this numbers to quantum Monte Carlo and cryptography is immediate. I present here the techniques to calculate, analyze and use these pseudo-random numbers, show that they lack periodicity up to 1013 numbers and that they are not correlated.

  14. Design of a Handheld Pseudo Random Coded UWB Radar for Human Sensing

    Directory of Open Access Journals (Sweden)

    Xia Zheng-huan

    2015-10-01

    Full Text Available This paper presents the design of a handheld pseudo random coded Ultra-WideBand (UWB radar for human sensing. The main tasks of the radar are to track the moving human object and extract the human respiratory frequency. In order to achieve perfect penetrability and good range resolution, m sequence with a carrier of 800 MHz is chosen as the transmitting signal. The modulated m-sequence can be generated directly by the high-speed DAC and FPGA to reduce the size of the radar system, and the mean power of the transmitting signal is 5 dBm. The receiver has two receiving channels based on hybrid sampling, the first receiving channel is to sample the reference signal and the second receiving channel is to obtain the radar echo. The real-time pulse compression is computed in parallel with a group of on-chip DSP48E slices in FPGA to improve the scanning rate of the radar system. Additionally, the algorithms of moving target tracking and life detection are implemented using Intel’s micro-processor, and the detection results are sent to the micro displayer fixed on the helmet. The experimental results show that the moving target located at less than 16 m far away from the wall can be tracked, and the respiratory frequency of the static human at less than 14 m far away from the wall can be extracted.

  15. Pseudo-random dynamic address configuration (PRDAC) algorithm for mobile ad hoc networks

    Science.gov (United States)

    Wu, Shaochuan; Tan, Xuezhi

    2007-11-01

    By analyzing all kinds of address configuration algorithms, this paper provides a new pseudo-random dynamic address configuration (PRDAC) algorithm for mobile ad hoc networks. Based on PRDAC, the first node that initials this network randomly chooses a nonlinear shift register that can generates an m-sequence. When another node joins this network, the initial node will act as an IP address configuration sever to compute an IP address according to this nonlinear shift register, and then allocates this address and tell the generator polynomial of this shift register to this new node. By this means, when other node joins this network, any node that has obtained an IP address can act as a server to allocate address to this new node. PRDAC can also efficiently avoid IP conflicts and deal with network partition and merge as same as prophet address (PA) allocation and dynamic configuration and distribution protocol (DCDP). Furthermore, PRDAC has less algorithm complexity, less computational complexity and more sufficient assumption than PA. In addition, PRDAC radically avoids address conflicts and maximizes the utilization rate of IP addresses. Analysis and simulation results show that PRDAC has rapid convergence, low overhead and immune from topological structures.

  16. Pseudo-random Spray Release to Measure World-wide Transfer Functions of Cloud Albedo Control.

    Science.gov (United States)

    Salter, Stephen

    2010-05-01

    Institute for Energy Systems, School of Engineering, University of Edinburgh. S.Salter@ed.ac.uk Previous climate models of Latham's proposal to reverse global warming by using sub-micron sea spray to increase cloud albedo have used a variety of spray patterns. Kettles forced CCN concentration to be 375/cm3 everywhere. Rasch et al used the 20% and 70% most susceptible regions. Bala and Caldeira used an even spread. Jones et al. concentrated spray in the 3.3% oceans with the highest susceptibility All used the same rate through the year. We want to choose a scheme for a climate-modelling experiment designed to identify simultaneously the effects of cloud albedo control at various seasons of the year from spray at all regions of the world on climates of all other regions the world. In particular we want to know seasons and spray places which might have an undesirable effect on precipitation. The spray systems in various regions of a numerical climate model will be modulated on an off with different but known pseudo-random sequences and a selection of seasons. The mean value of the resulting weather records of the parameters of interest, mainly temperature and water run-off, at each region will be subtracted from each value of the record so as to give just the alternating component with an average value of zero. This will be correlated with each of the chosen pseudo-random sequences to give the magnitude and polarity of the effect of a treatment at each input area and selected seasons of the year with the resulting effects on all regions. By doing a time-shifted correlation we can account for phase-shift and time delay. The signal-to-noise ratio should improve with the square root of the analysis time and so we may be able to measure the transfer function with quite a small stimulus. The results of a Mathcad simulation of the process with statistical distributions approximating to natural variations temperature and precipitation show that a single run of a climate

  17. Pseudo nucleotide composition or PseKNC: an effective formulation for analyzing genomic sequences.

    Science.gov (United States)

    Chen, Wei; Lin, Hao; Chou, Kuo-Chen

    2015-10-01

    With the avalanche of DNA/RNA sequences generated in the post-genomic age, it is urgent to develop automated methods for analyzing the relationship between the sequences and their functions. Towards this goal, a series of sequence-based methods have been proposed and applied to analyze various character-unknown DNA/RNA sequences in order for in-depth understanding their action mechanisms and processes. Compared with the classical sequence-based methods, the pseudo nucleotide composition or PseKNC approach developed very recently has the following advantages: (1) it can convert length-different DNA/RNA sequences into dimension-fixed digital vectors that can be directly handled by all the existing machine-learning algorithms or operation engines; (2) it can contain the desired features and properties according to the selection or definition of users; (3) it can cover considerable sequence pattern information, both local and global. This minireview is focused on the concept of pseudo nucleotide composition, its development and applications.

  18. Pseudo-random tool paths for CNC sub-aperture polishing and other applications.

    Science.gov (United States)

    Dunn, Christina R; Walker, David D

    2008-11-10

    In this paper we first contrast classical and CNC polishing techniques in regard to the repetitiveness of the machine motions. We then present a pseudo-random tool path for use with CNC sub-aperture polishing techniques and report polishing results from equivalent random and raster tool-paths. The random tool-path used - the unicursal random tool-path - employs a random seed to generate a pattern which never crosses itself. Because of this property, this tool-path is directly compatible with dwell time maps for corrective polishing. The tool-path can be used to polish any continuous area of any boundary shape, including surfaces with interior perforations.

  19. Pseudo-Random Number Generators for Vector Processors and Multicore Processors

    DEFF Research Database (Denmark)

    Fog, Agner

    2015-01-01

    Large scale Monte Carlo applications need a good pseudo-random number generator capable of utilizing both the vector processing capabilities and multiprocessing capabilities of modern computers in order to get the maximum performance. The requirements for such a generator are discussed. New ways ...

  20. Complexity and properties of a multidimensional Cat-Hadamard map for pseudo random number generation

    Science.gov (United States)

    Kim Hue, Ta Thi; Hoang, Thang Manh

    2017-07-01

    This paper presents a novel method to extend the Cat map from 2-dimension to higher dimension using the fast pseudo Hadamard Transform, and the resulted maps are called Cat-Hadamard maps. The complexity and properties of Cat-Hadamard maps are investigated under the point of view for cryptographic applications. In addition, we propose a method for constructing a pseudo random number generator using a novel design concept of the high dimensional Cat map. The simulation results show that the proposed generator fulfilled all the statistic tests of the NIST SP 800-90 A.

  1. Concurrent Generation of Pseudo Random Numbers with LFSR of Fibonacci and Galois Type

    OpenAIRE

    Emina I. Milovanović; Stojčev, Mile K.; Igor Ž. Milovanović; Tatjana R. Nikolić; Zoran Stamenković

    2016-01-01

    We have considered implementation of parallel test pattern generator based on a linear feedback shift register (LFSR) with multiple outputs used as a building block in built-in-self-test (BIST) design within SoC. The proposed design can drive several circuits under test (CUT) simultaneously. The mathematical procedure for concurrent pseudo random number (PRN) generation is described. We have implemented LFSRs that generate two and three PRNs in FPGA and ASIC technology. The design was tested ...

  2. Characterization of Electron Microscopes with Binary Pseudo-random Multilayer Test Samples

    Energy Technology Data Exchange (ETDEWEB)

    V Yashchuk; R Conley; E Anderson; S Barber; N Bouet; W McKinney; P Takacs; D Voronov

    2011-12-31

    Verification of the reliability of metrology data from high quality X-ray optics requires that adequate methods for test and calibration of the instruments be developed. For such verification for optical surface profilometers in the spatial frequency domain, a modulation transfer function (MTF) calibration method based on binary pseudo-random (BPR) gratings and arrays has been suggested [1] and [2] and proven to be an effective calibration method for a number of interferometric microscopes, a phase shifting Fizeau interferometer, and a scatterometer [5]. Here we describe the details of development of binary pseudo-random multilayer (BPRML) test samples suitable for characterization of scanning (SEM) and transmission (TEM) electron microscopes. We discuss the results of TEM measurements with the BPRML test samples fabricated from a WiSi2/Si multilayer coating with pseudo-randomly distributed layers. In particular, we demonstrate that significant information about the metrological reliability of the TEM measurements can be extracted even when the fundamental frequency of the BPRML sample is smaller than the Nyquist frequency of the measurements. The measurements demonstrate a number of problems related to the interpretation of the SEM and TEM data. Note that similar BPRML test samples can be used to characterize X-ray microscopes. Corresponding work with X-ray microscopes is in progress.

  3. Characterization of electron microscopes with binary pseudo-random multilayer test samples

    Energy Technology Data Exchange (ETDEWEB)

    Yashchuk, Valeriy V., E-mail: VVYashchuk@lbl.gov [Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 (United States); Conley, Raymond [NSLS-II, Brookhaven National Laboratory, Upton, NY 11973 (United States); Anderson, Erik H. [Center for X-ray Optics, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 (United States); Barber, Samuel K. [Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 (United States); Bouet, Nathalie [NSLS-II, Brookhaven National Laboratory, Upton, NY 11973 (United States); McKinney, Wayne R. [Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 (United States); Takacs, Peter Z. [Brookhaven National Laboratory, Upton, NY 11973 (United States); Voronov, Dmitriy L. [Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, CA 94720 (United States)

    2011-09-01

    Verification of the reliability of metrology data from high quality X-ray optics requires that adequate methods for test and calibration of the instruments be developed. For such verification for optical surface profilometers in the spatial frequency domain, a modulation transfer function (MTF) calibration method based on binary pseudo-random (BPR) gratings and arrays has been suggested and proven to be an effective calibration method for a number of interferometric microscopes, a phase shifting Fizeau interferometer, and a scatterometer [5]. Here we describe the details of development of binary pseudo-random multilayer (BPRML) test samples suitable for characterization of scanning (SEM) and transmission (TEM) electron microscopes. We discuss the results of TEM measurements with the BPRML test samples fabricated from a WiSi{sub 2}/Si multilayer coating with pseudo-randomly distributed layers. In particular, we demonstrate that significant information about the metrological reliability of the TEM measurements can be extracted even when the fundamental frequency of the BPRML sample is smaller than the Nyquist frequency of the measurements. The measurements demonstrate a number of problems related to the interpretation of the SEM and TEM data. Note that similar BPRML test samples can be used to characterize X-ray microscopes. Corresponding work with X-ray microscopes is in progress.

  4. Permutation Entropy for Random Binary Sequences

    Directory of Open Access Journals (Sweden)

    Lingfeng Liu

    2015-12-01

    Full Text Available In this paper, we generalize the permutation entropy (PE measure to binary sequences, which is based on Shannon’s entropy, and theoretically analyze this measure for random binary sequences. We deduce the theoretical value of PE for random binary sequences, which can be used to measure the randomness of binary sequences. We also reveal the relationship between this PE measure with other randomness measures, such as Shannon’s entropy and Lempel–Ziv complexity. The results show that PE is consistent with these two measures. Furthermore, we use PE as one of the randomness measures to evaluate the randomness of chaotic binary sequences.

  5. Calibration of Modulation Transfer Function of Surface Profilometers with 1D and 2D Binary Pseudo-random Array Standards

    Energy Technology Data Exchange (ETDEWEB)

    Yashchuk, Valeriy V.; McKinney, Wayne R.; Takacs, Peter Z.

    2008-05-19

    We suggest and describe the use of a binary pseudo-random grating as a standard test surface for calibration of the modulation transfer function of microscopes. Results from calibration of a MicromapTM-570 interferometric microscope are presented.

  6. Pseudo-Random Mating Populations. in Celebration of the 80th Anniversary of the Hardy-Weinberg Law

    OpenAIRE

    Li, C. C.

    1988-01-01

    That random mating leads to Hardy-Weinberg distribution of genotypes is well known. This report is to show that, if the deviations from random mating are of a certain pattern, the offspring generation will also be in Hardy-Weinberg proportions. This brings out the fact that random mating is a sufficient condition, not a necessary one, for the attainment of the Hardy-Weinberg proportions. Such nonrandom-mating populations are tentatively said to be pseudo-random mating. Pseudo-random-mating po...

  7. Improving the pseudo-randomness properties of chaotic maps using deep-zoom.

    Science.gov (United States)

    Machicao, Jeaneth; Bruno, Odemir M

    2017-05-01

    A generalized method is proposed to compose new orbits from a given chaotic map. The method provides an approach to examine discrete-time chaotic maps in a "deep-zoom" manner by using k-digits to the right from the decimal separator of a given point from the underlying chaotic map. Interesting phenomena have been identified. Rapid randomization was observed, i.e., chaotic patterns tend to become indistinguishable when compared to the original orbits of the underlying chaotic map. Our results were presented using different graphical analyses (i.e., time-evolution, bifurcation diagram, Lyapunov exponent, Poincaré diagram, and frequency distribution). Moreover, taking advantage of this randomization improvement, we propose a Pseudo-Random Number Generator (PRNG) based on the k-logistic map. The pseudo-random qualities of the proposed PRNG passed both tests successfully, i.e., DIEHARD and NIST, and were comparable with other traditional PRNGs such as the Mersenne Twister. The results suggest that simple maps such as the logistic map can be considered as good PRNG methods.

  8. New Design of Crypto-Based Pseudo random number generator (CBPRNG) using BLOW FISH cipher

    OpenAIRE

    T.Chalama Reddy; Dr.R.Seshadri

    2013-01-01

    Random Number Generators (RNGs) are an important building block for algorithms and protocols in cryptography. Random number generation is used in a wide variety of cryptographic operations, such as key generation and challenge/response protocols. A random number generator outputs a sequence of 0s and 1s such that at any position, the next bit cannot be expected on the previous bits. However, true random number produces non- deterministic output since if the same random generator is run twice,...

  9. Pseudo-random Aloha for inter-frame soft combining in RFID systems

    DEFF Research Database (Denmark)

    Castiglione, Paolo; Ricciato, Fabio; Popovski, Petar

    2013-01-01

    In this work we consider a recently proposed variant of the classical Framed Slotted-ALOHA where slot selection is based on a pseudo-random function of the message to be transmitted and of the frame index. We couple this feature with convolutional encoding, that allows to perform Inter-frame Soft...... cancellation (instead of combining). Numerical simulation results show that the ISoC scheme brings a noticeable throughput gain over traditional schemes in a dense RFID scenario with multiple concurrent Tag transmissions....

  10. DEMONSTRATION BY MASS-SPECTROMETRY THAT PSEUDO-HEVEIN AND HEVEIN HAVE RAGGED C-TERMINAL SEQUENCES

    NARCIS (Netherlands)

    SOEDJANAATMADJA, UMS; HOFSTEENGE, J; JERONIMUSSTRATINGH, CM; BRUINS, AP; BEINTEMA, JJ

    1994-01-01

    The primary structure of pseudo-hevein, a minor hevein component from the latex of the rubber tree, Hevea brasiliensis, was determined. Six differences with the sequence of the major hevein component were found, one of which is a replacement of tryptophan by tyrosine in the carbohydrate binding

  11. Pseudo cluster randomization: balancing the disadvantages of cluster and individual randomization

    NARCIS (Netherlands)

    Melis, R.J.F.; Teerenstra, S.; Olde Rikkert, M.G.M.; Borm, G.F.

    2011-01-01

    While designing a trial to evaluate a complex intervention, one may be confronted with the dilemma that randomization at the level of the individual patient risks contamination bias, whereas cluster randomization risks incomparability of study arms and recruitment problems. Literature provides only

  12. Pseudo-random mating populations. In celebration of the 80th anniversary of the Hardy-Weinberg law.

    Science.gov (United States)

    Li, C C

    1988-07-01

    That random mating leads to Hardy-Weinberg distribution of genotypes is well known. This report is to show that, if the deviations from random mating are of a certain pattern, the offspring generation will also be in Hardy-Weinberg proportions. This brings out the fact that random mating is a sufficient condition, not a necessary one, for the attainment of the Hardy-Weinberg proportions. Such nonrandom-mating populations are tentatively said to be pseudo-random mating. Pseudo-random-mating populations exist for both autosomal and sex-linked systems with two or multiple alleles. This report covers the basic case of a two-allele autosomal locus in detail, but the possible extension to two loci and cytonuclear systems have also been mentioned in discussion.

  13. Goal-independent mechanisms for free response generation: creative and pseudo-random performance share neural substrates.

    Science.gov (United States)

    de Manzano, Örjan; Ullén, Fredrik

    2012-01-02

    To what extent free response generation in different tasks uses common and task-specific neurocognitive processes has remained unclear. Here, we investigated overlap and differences in neural activity during musical improvisation and pseudo-random response generation. Brain activity was measured using fMRI in a group of professional classical pianists, who performed musical improvisation of melodies, pseudo-random key-presses and a baseline condition (sight-reading), on either two, six or twelve keys on a piano keyboard. The results revealed an extensive overlap in neural activity between the two generative conditions. Active regions included the dorsolateral and dorsomedial prefrontal cortices, inferior frontal gyrus, anterior cingulate cortex and pre-SMA. No regions showed higher activity in improvisation than in pseudo-random generation. These findings suggest that the activated regions fulfill generic functions that are utilized in different types of free generation tasks, independent of overall goal. In contrast, pseudo-random generation was accompanied by higher activity than improvisation in several regions. This presumably reflects the participants' musical expertise as well as the pseudo-random generation task's high load on attention, working memory, and executive control. The results highlight the significance of using naturalistic tasks to study human behavior and cognition. No brain activity was related to the size of the response set. We discuss that this may reflect that the musicians were able to use specific strategies for improvisation, by which there was no simple relationship between response set size and neural activity. Copyright © 2011 Elsevier Inc. All rights reserved.

  14. Pseudo-random data acquisition geometry in 3D seismic survey; Sanjigen jishin tansa ni okeru giji random data shutoku reiauto ni tsuite

    Energy Technology Data Exchange (ETDEWEB)

    Minegishi, M.; Tsuburaya, Y. [Japan National Oil Corp., Tokyo (Japan). Technology Research Center

    1996-10-01

    Influence of pseudo-random geometry on the imaging for 3D seismic exploration data acquisition has been investigate using a simple model by comparing with the regular geometry. When constituting wave front by the interference of elemental waves, pseudo-random geometry data did not always provide good results. In the case of a point diffractor, the imaging operation, where the constituted wave front was returned to the point diffractor by the interference of elemental waves for the spatial alias records, did not always give clear images. In the case of multi point diffractor, good images were obtained with less noise generation in spite of alias records. There are a lot of diffractors in the actual geological structures, which corresponds to the case of multi point diffractors. Finally, better images could be obtained by inputting records acquired using the pseudo-random geometry rather than by inputting spatial alias records acquired using the regular geometry. 7 refs., 6 figs.

  15. Classification of real and pseudo microRNA precursors using local structure-sequence features and support vector machine

    Directory of Open Access Journals (Sweden)

    Liu Guo-Ping

    2005-12-01

    Full Text Available Abstract Background MicroRNAs (miRNAs are a group of short (~22 nt non-coding RNAs that play important regulatory roles. MiRNA precursors (pre-miRNAs are characterized by their hairpin structures. However, a large amount of similar hairpins can be folded in many genomes. Almost all current methods for computational prediction of miRNAs use comparative genomic approaches to identify putative pre-miRNAs from candidate hairpins. Ab initio method for distinguishing pre-miRNAs from sequence segments with pre-miRNA-like hairpin structures is lacking. Being able to classify real vs. pseudo pre-miRNAs is important both for understanding of the nature of miRNAs and for developing ab initio prediction methods that can discovery new miRNAs without known homology. Results A set of novel features of local contiguous structure-sequence information is proposed for distinguishing the hairpins of real pre-miRNAs and pseudo pre-miRNAs. Support vector machine (SVM is applied on these features to classify real vs. pseudo pre-miRNAs, achieving about 90% accuracy on human data. Remarkably, the SVM classifier built on human data can correctly identify up to 90% of the pre-miRNAs from other species, including plants and virus, without utilizing any comparative genomics information. Conclusion The local structure-sequence features reflect discriminative and conserved characteristics of miRNAs, and the successful ab initio classification of real and pseudo pre-miRNAs opens a new approach for discovering new miRNAs.

  16. Binary Pseudo-Random Gratings and Arrays for Calibration of Modulation Transfer Functions of Surface Profilometers

    Energy Technology Data Exchange (ETDEWEB)

    Barber, Samuel K.; Anderson, Erik D.; Cambie, Rossana; McKinney, Wayne R.; Takacs, Peter Z.; Stover, John C.; Voronov, Dmitriy L.; Yashchuk, Valeriy V.

    2009-09-11

    A technique for precise measurement of the modulation transfer function (MTF), suitable for characterization of a broad class of surface profilometers, is investigated in detail. The technique suggested in [Proc. SPIE 7077-7, (2007), Opt. Eng. 47(7), 073602-1-5 (2008)]is based on use of binary pseudo-random (BPR) gratings and arrays as standard MTF test surfaces. Unlike most conventional test surfaces, BPR gratings and arrays possess white-noise-like inherent power spectral densities (PSD), allowing the direct determination of the one- and two-dimensional MTF, respectively, with a sensitivity uniform over the entire spatial frequency range of a profiler. In the cited work, a one dimensional realization of the suggested method based on use of BPR gratings has been demonstrated. Here, a high-confidence of the MTF calibration technique is demonstrated via cross comparison measurements of a number of two dimensional BPR arrays using two different interferometric microscopes and a scatterometer. We also present the results of application of the experimentally determined MTF correction to the measurement taken with the MicromapTM-570 interferometric microscope of the surface roughness of a super-polished test mirror. In this particular case, without accounting for the instrumental MTF, the surface rms roughness over half of the instrumental spatial frequency bandwidth would be underestimated by a factor of approximately 1.4.

  17. Patch-based generation of a pseudo CT from conventional MRI sequences for MRI-only radiotherapy of the brain

    DEFF Research Database (Denmark)

    Andreasen, Daniel; Van Leemput, Koen; Hansen, Rasmus H.

    2015-01-01

    Purpose: In radiotherapy (RT) based on magnetic resonance imaging (MRI) as the only modality, the information on electron density must be derived from the MRI scan by creating a so-called pseudo computed tomography (pCT). This is a nontrivial task, since the voxel-intensities in an MRI scan are n...... on conventional T1-weighted MRI sequences and without deformable registrations. In our evaluations, the method performed better than existing voxel-based and atlas-based methods and showed a promising potential for RT of the brain based only on MRI.......Purpose: In radiotherapy (RT) based on magnetic resonance imaging (MRI) as the only modality, the information on electron density must be derived from the MRI scan by creating a so-called pseudo computed tomography (pCT). This is a nontrivial task, since the voxel-intensities in an MRI scan...... are not uniquely related to electron density. To solve the task, voxel-based or atlas-based models have typically been used. The voxel-based models require a specialized dual ultrashort echo time MRI sequence for bone visualization and the atlas-based models require deformable registrations of conventional MRI...

  18. Rapid detection of a norovirus pseudo-outbreak by using real-time sequence based information

    NARCIS (Netherlands)

    Rahamat-Langendoen, J. C.; Lokate, M.; Scholvinck, E. H.; Friedrich, A. W.; Niesters, H. G. M.

    Background: Sequence based information is increasingly used to study the epidemiology of viruses, not only to provide insight in viral evolution, but also to understand transmission patterns during outbreaks. However, sequence analysis is not yet routinely performed by diagnostic laboratories,

  19. Comparison of tool feed influence in CNC polishing between a novel circular-random path and other pseudo-random paths.

    Science.gov (United States)

    Takizawa, Ken; Beaucamp, Anthony

    2017-09-18

    A new category of circular pseudo-random paths is proposed in order to suppress repetitive patterns and improve surface waviness on ultra-precision polished surfaces. Random paths in prior research had many corners, therefore deceleration of the polishing tool affected the surface waviness. The new random path can suppress velocity changes of the polishing tool and thus restrict degradation of the surface waviness, making it suitable for applications with stringent mid-spatial-frequency requirements such as photomask blanks for EUV lithography.

  20. Nonlinear deterministic structures and the randomness of protein sequences

    CERN Document Server

    Huang Yan Zhao

    2003-01-01

    To clarify the randomness of protein sequences, we make a detailed analysis of a set of typical protein sequences representing each structural classes by using nonlinear prediction method. No deterministic structures are found in these protein sequences and this implies that they behave as random sequences. We also give an explanation to the controversial results obtained in previous investigations.

  1. An empirical test of pseudo random number generators by means of an exponential decaying process; Una prueba empirica de generadores de numeros pseudoaleatorios mediante un proceso de decaimiento exponencial

    Energy Technology Data Exchange (ETDEWEB)

    Coronel B, H.F.; Hernandez M, A.R.; Jimenez M, M.A. [Facultad de Fisica e Inteligencia Artificial, Universidad Veracruzana, A.P. 475, Xalapa, Veracruz (Mexico); Mora F, L.E. [CIMAT, A.P. 402, 36000 Guanajuato (Mexico)]. e-mail: hcoronel@uv.mx

    2007-07-01

    Empirical tests for pseudo random number generators based on the use of processes or physical models have been successfully used and are considered as complementary to theoretical tests of randomness. In this work a statistical methodology for evaluating the quality of pseudo random number generators is presented. The method is illustrated in the context of the so-called exponential decay process, using some pseudo random number generators commonly used in physics. (Author)

  2. A novel effect of Noscapine on patients with massive ischemic stroke: A pseudo-randomized clinical trial.

    Science.gov (United States)

    Mahmoudian, Massoud; Rezvani, Mohammad; Rohani, Mohammad; Benaissa, Foozya; Jalili, Mehdi; Ghourchian, Shadi

    2015-01-05

    Massive ischemic stroke causes significant mortality and morbidity in stroke patients. The main treatments for massive ischemic stroke are recombinant tissue plasminogen activator (rtPA), craniotomy, and endovascular interventions. Due to destructive effects of bradykinin on the nervous system in ischemic stroke, it seems reasonable that using Noscapine as a Bradykinin antagonist may improve patients' outcome after ischemic stroke. The effect of Noscapine on massive ischemic stroke was shown by the previous pilot study by our group. This pseudo-randomized clinical trial study was designed to assess the result of the pilot study. Patients who had clinical symptoms or computed tomography scan indicative of massive stroke (in full middle cerebral artery territory) were entered to the study. The cases received the drugs according to their turns in emergency ward (pseudo-randomized). The patient group received Noscapine, and the control group received common supportive treatments. The patients and data analyzer were blinded about the data. At the end of the study, to adjust confounding variables we used logistic regression. After 1-month follow-up, 16 patients in the control group and 11 patients in the case group expired (P = 0.193). Analyzing the data extracted from Rankin scale and Barthel index check lists, revealed no significant differences in the two groups. Despite the absence of significant statistical results in our study, the reduction rate of 16% for mortality rate in Noscapine recipients is clinically remarkable and motivates future studies with larger sample sizes.

  3. Pseudo cluster randomization dealt with selection bias and contamination in clinical trials

    NARCIS (Netherlands)

    Teerenstra, S.; Melis, R.J.F.; Peer, P.G.M.; Borm, G.F.

    2006-01-01

    BACKGROUND AND OBJECTIVES: When contamination is present, randomization on a patient level leads to dilution of the treatment effect. The usual solution is to randomize on a cluster level, but at the cost of efficiency and more importantly, this may introduce selection bias. Furthermore, it may slow

  4. Binary pseudo-random grating as a standard test surface formeasurement of modulation transfer function of interferometricmicroscopes

    Energy Technology Data Exchange (ETDEWEB)

    Yashchuk, Valeriy V.; McKinney, Wayne R.; Takacs, Peter Z.

    2007-07-25

    The task of designing high performance X-ray optical systemsrequires the development of sophisticated X-ray scattering calculationsbased on rigorous information about the optics. One of the mostinsightful approaches to these calculations is based on the powerspectral density (PSD) distribution of the surface height. The majorproblem of measurement of a PSD distribution with an interferometricand/or atomic force microscope arises due to the unknown ModulationTransfer Function (MTF) of the instruments. The MTF characterizes theperturbation of the PSD distribution at higher spatial frequencies. Here,we describe a new method and dedicated test surfaces for calibration ofthe MTF of a microscope. The method is based on use of a speciallydesigned Binary Pseudo-random (BPR) grating. Comparison of atheoretically calculated PSD spectrum of a BPR grating with a spectrummeasured with the grating provides the desired calibration of theinstrumental MTF. The theoretical background of the method, as well asresults of experimental investigations are presented.

  5. De novo transcriptome sequencing and analysis of male, pseudo-male and female yellow perch, Perca flavescens.

    Directory of Open Access Journals (Sweden)

    Yan-He Li

    Full Text Available Transcriptome sequencing could facilitate discovery of sex-biased genes, biological pathways and molecular markers, which could help clarify the molecular mechanism of sex determination and sexual dimorphism, and assist with selective breeding in aquaculture. Yellow perch has unique gonad system and sexual dimorphism and is an alternative model to study mechanism of sex determination, sexual dimorphism and sexual selection. In this study, we performed the de novo assembly of yellow perch gonads and muscle transcriptomes by high throughput Illumina sequencing. A total of 212,180 contigs were obtained, ranging from 127 to 64,876 bp, and N50 of 1,066 bp. The assembly RNA-Seq contigs (≥200bp were then used for subsequent analyses, including annotation, pathway analysis, and microsatellites discovery. No female- and pseudo-male-biased genes were involved in any pathways while male-biased genes were involved in 29 pathways, and neuroactive ligand receptor interaction and enzyme of trypsin (enzyme code, EC: 3.4.21.4 was highly involved. Pyruvate kinase (enzyme code, EC: 2.7.1.40, which plays important roles in cell proliferation, was highly expressed in muscles. In addition, a total of 183,939 SNPs, 11,286 InDels and 41,479 microsatellites were identified. This study is the first report on transcriptome information in Percids, and provides rich resources for conducting further studies on understanding the molecular basis of sex determinations, sexual dimorphism, and sexual selection in fish, and for population studies and marker-assisted selection in Percids.

  6. Pseudo cluster randomization: a treatment allocation method to minimize contamination and selection bias.

    NARCIS (Netherlands)

    Borm, G.F.; Melis, R.J.F.; Teerenstra, S.; Peer, P.G.M.

    2005-01-01

    In some clinical trials, treatment allocation on a patient level is not feasible, and whole groups or clusters of patients are allocated to the same treatment. If, for example, a clinical trial is investigating the efficacy of various patient coaching methods and randomization is done on a patient

  7. Binary pseudo-random patterned structures for modulation transfer function calibration and resolution characterization of a full-field transmission soft x-ray microscope

    Energy Technology Data Exchange (ETDEWEB)

    Yashchuk, V. V., E-mail: VVYashchuk@lbl.gov; Chan, E. R.; Lacey, I. [Advanced Light Source, Lawrence Berkeley National Laboratory, Berkeley, California 94720 (United States); Fischer, P. J. [Center for X-Ray Optics, Lawrence Berkeley National Laboratory, Berkeley, California 94720 (United States); Physics Department, University of California Santa Cruz, Santa Cruz, California 94056 (United States); Conley, R. [Advance Photon Source, Argonne National Laboratory, Argonne, Illinois 60439 (United States); National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, New York 11973 (United States); McKinney, W. R. [Diablo Valley College, 321 Golf Club Road, Pleasant Hill, California 94523 (United States); Artemiev, N. A. [KLA-Tencor Corp., 1 Technology Drive, Milpitas, California 95035 (United States); Bouet, N. [National Synchrotron Light Source II, Brookhaven National Laboratory, Upton, New York 11973 (United States); Cabrini, S. [Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley, California 94720 (United States); Calafiore, G.; Peroz, C.; Babin, S. [aBeam Technologies, Inc., Hayward, California 94541 (United States)

    2015-12-15

    We present a modulation transfer function (MTF) calibration method based on binary pseudo-random (BPR) one-dimensional sequences and two-dimensional arrays as an effective method for spectral characterization in the spatial frequency domain of a broad variety of metrology instrumentation, including interferometric microscopes, scatterometers, phase shifting Fizeau interferometers, scanning and transmission electron microscopes, and at this time, x-ray microscopes. The inherent power spectral density of BPR gratings and arrays, which has a deterministic white-noise-like character, allows a direct determination of the MTF with a uniform sensitivity over the entire spatial frequency range and field of view of an instrument. We demonstrate the MTF calibration and resolution characterization over the full field of a transmission soft x-ray microscope using a BPR multilayer (ML) test sample with 2.8 nm fundamental layer thickness. We show that beyond providing a direct measurement of the microscope’s MTF, tests with the BPRML sample can be used to fine tune the instrument’s focal distance. Our results confirm the universality of the method that makes it applicable to a large variety of metrology instrumentation with spatial wavelength bandwidths from a few nanometers to hundreds of millimeters.

  8. Simulations Using Random-Generated DNA and RNA Sequences

    Science.gov (United States)

    Bryce, C. F. A.

    1977-01-01

    Using a very simple computer program written in BASIC, a very large number of random-generated DNA or RNA sequences are obtained. Students use these sequences to predict complementary sequences and translational products, evaluate base compositions, determine frequencies of particular triplet codons, and suggest possible secondary structures.…

  9. BINERY PSEUDO-RANDOM GRATING AS A STANDARD TEST SURFACE FOR MEASUREMENT OF MODULATION TRANSFER FUNCTION OF INTERFEROMETRIC MICROSCOPES.

    Energy Technology Data Exchange (ETDEWEB)

    YASHCHUK,V.V.; MCKINNEY, W.R.; TAKACS, P.Z.

    2007-08-01

    The task of designing high performance X-ray optical systems requires the development of sophisticated X-ray scattering calculations based on rigorous information about the optics. One of the most insightful approaches to these calculations is based on the power spectral density (PSD) distribution of the surface height. The major problem of measurement of a PSD distribution with an interferometric and/or atomic force microscope arises due to the unknown Modulation Transfer Function (MTF) of the instruments. The MTF characterizes the perturbation of the PSD distribution at higher spatial frequencies. Here, we describe a new method and dedicated test surfaces for calibration of the MTF of a microscope. The method is based on use of a specially designed Binary Pseudo-random (BPR) grating. Comparison of a theoretically calculated PSD spectrum of a BPR grating with a spectrum measured with the grating provides the desired calibration of the instrumental MTF. The theoretical background of the method, as well as results of experimental investigations are presented.

  10. Cost-effectiveness of multidisciplinary wound care in nursing homes: a pseudo-randomized pragmatic cluster trial.

    Science.gov (United States)

    Vu, Trang; Harris, Anthony; Duncan, Gregg; Sussman, Geoff

    2007-09-01

    To evaluate the cost-effectiveness of a multidisciplinary wound care team in the nursing home setting from a health system perspective. Pseudo-randomized pragmatic cluster trial with 20-week follow-up involving 342 uncomplicated leg and pressure ulcers in 176 residents located in 44 high-care nursing homes in Melbourne, Australia in 1999-2000. Twenty-one nursing homes (180 wounds in 94 residents) were assigned to the intervention arm and 23 to the control arm (162 wounds in 82 residents). Residents in the intervention arm received standardized treatment from a wound care team comprising of trained community pharmacists and nurses. Residents in the control arm received usual care. More wounds healed during the trial in the intervention arm than in the control arm (61.7% versus 52.5%, P = 0.07). A Cox regression with shared frailty predicted that the chances of healing increased 73% for intervention wounds [95% confidence interval (CI) 20-150%, P = 0.003]. The mean treatment cost was $A616.4 for intervention and $A977.9 for control patients (P = 0.006). Most cost reduction was obtained from decreases in nursing time and waste disposal. The mean cost saving per wound, adjusted for baseline wound severity and random censoring, was $A277.9 (95% CI $A21.6-$A534.1). Standardized treatment provided by a multidisciplinary wound care team saved costs and improved chronic wound healing in nursing homes. The main source of saving was in the cost of nursing time in applying traditional dressings and in the cost of their disposal.

  11. Stability of modulation transfer function calibration of surface profilometers using binary pseudo-random gratings and arrays with nonideal groove shapes

    Energy Technology Data Exchange (ETDEWEB)

    Barber, Samuel K.; Anderson, Erik H.; Cambie, Rossana; Marchesini, Stefano; McKinney, Wayne R.; Takacs, Peter Z.; Voronov, Dmitry L.; Yashchuk, Valeriy V.

    2010-03-31

    The major problem of measurement of a power spectral density (PSD) distribution of surface heights with surface profilometers arises due to the unknown Modulation Transfer Function (MTF) of the instruments, which tends to distort the PSD at higher spatial frequencies. The special mathematical properties of binary pseudo-random patterns make them an ideal basis for developing MTF calibration test surfaces. Two-dimensional binary pseudo-random arrays (BPRAs) have been fabricated and used for the MTF calibration of the MicroMap{trademark}-570 interferometric microscope with all available objectives. An investigation into the effects of fabrication imperfections on the quality of the MTF calibration and a procedure for accounting for such imperfections are presented.

  12. Generation of brain pseudo-CTs using an undersampled, single-acquisition UTE-mDixon pulse sequence and unsupervised clustering

    Energy Technology Data Exchange (ETDEWEB)

    Su, Kuan-Hao [Case Center for Imaging Research, Case Western Reserve University, Cleveland, Ohio 44106 and Department of Radiology, University Hospitals Case Medical Center, Case Western Reserve University, Cleveland, Ohio 44106 (United States); Hu, Lingzhi; Traughber, Melanie [Philips Healthcare, Cleveland, Ohio 44143 (United States); Stehning, Christian; Helle, Michael [Philips Research, Hamburg 22335 (Germany); Qian, Pengjiang [School of Digital Media, Jiangnan University, Jiangsu 214122 (China); Thompson, Cheryl L. [Departments of Family Medicine and Community Health and Epidemiology and Biostatistics, Case Western Reserve University, Cleveland, Ohio 44106 and Case Comprehensive Cancer Center, Case Western Reserve University, Cleveland, Ohio 44106 (United States); Pereira, Gisele C.; Traughber, Bryan J., E-mail: bryan.traughber@case.edu [Department of Radiation Oncology, University Hospitals Seidman Cancer Center, Case Western Reserve University, Cleveland, Ohio 44106 (United States); Jordan, David W. [Department of Radiology, University Hospitals Case Medical Center, Case Western Reserve University, Cleveland, Ohio 44106 (United States); Herrmann, Karin A. [Department of Radiology, University Hospitals Case Medical Center, Case Western Reserve University, Cleveland, Ohio 44106 and Case Comprehensive Cancer Center, Case Western Reserve University, Cleveland, Ohio 44106 (United States); Muzic, Raymond F. [Case Center for Imaging Research, Case Western Reserve University, Cleveland, Ohio 44106 (United States); Department of Radiology, University Hospitals Case Medical Center, Case Western Reserve University, Cleveland, Ohio 44106 (United States); Department of Biomedical Engineering, Case Western Reserve University, Cleveland, Ohio 44106 (United States)

    2015-08-15

    Purpose: MR-based pseudo-CT has an important role in MR-based radiation therapy planning and PET attenuation correction. The purpose of this study is to establish a clinically feasible approach, including image acquisition, correction, and CT formation, for pseudo-CT generation of the brain using a single-acquisition, undersampled ultrashort echo time (UTE)-mDixon pulse sequence. Methods: Nine patients were recruited for this study. For each patient, a 190-s, undersampled, single acquisition UTE-mDixon sequence of the brain was acquired (TE = 0.1, 1.5, and 2.8 ms). A novel method of retrospective trajectory correction of the free induction decay (FID) signal was performed based on point-spread functions of three external MR markers. Two-point Dixon images were reconstructed using the first and second echo data (TE = 1.5 and 2.8 ms). R2{sup ∗} images (1/T2{sup ∗}) were then estimated and were used to provide bone information. Three image features, i.e., Dixon-fat, Dixon-water, and R2{sup ∗}, were used for unsupervised clustering. Five tissue clusters, i.e., air, brain, fat, fluid, and bone, were estimated using the fuzzy c-means (FCM) algorithm. A two-step, automatic tissue-assignment approach was proposed and designed according to the prior information of the given feature space. Pseudo-CTs were generated by a voxelwise linear combination of the membership functions of the FCM. A low-dose CT was acquired for each patient and was used as the gold standard for comparison. Results: The contrast and sharpness of the FID images were improved after trajectory correction was applied. The mean of the estimated trajectory delay was 0.774 μs (max: 1.350 μs; min: 0.180 μs). The FCM-estimated centroids of different tissue types showed a distinguishable pattern for different tissues, and significant differences were found between the centroid locations of different tissue types. Pseudo-CT can provide additional skull detail and has low bias and absolute error of

  13. Entropy and long-range correlations in random symbolic sequences

    CERN Document Server

    Melnik, S S

    2014-01-01

    The goal of this paper is to develop an estimate for the entropy of random long-range correlated symbolic sequences with elements belonging to a finite alphabet. As a plausible model, we use the high-order additive stationary ergodic Markov chain. Supposing that the correlations between random elements of the chain are weak we express the differential entropy of the sequence by means of the symbolic pair correlation function. We also examine an algorithm for estimating the differential entropy of finite symbolic sequences. We show that the entropy contains two contributions, the correlation and fluctuation ones. The obtained analytical results are used for numerical evaluation of the entropy of written English texts and DNA nucleotide sequences. The developed theory opens the way for constructing a more consistent and sophisticated approach to describe the systems with strong short- and weak long-range correlations.

  14. Humans cannot consciously generate random numbers sequences: Polemic study.

    Science.gov (United States)

    Figurska, Małgorzata; Stańczyk, Maciej; Kulesza, Kamil

    2008-01-01

    It is widely believed, that randomness exists in Nature. In fact such an assumption underlies many scientific theories and is embedded in the foundations of quantum mechanics. Assuming that this hypothesis is valid one can use natural phenomena, like radioactive decay, to generate random numbers. Today, computers are capable of generating the so-called pseudorandom numbers. Such series of numbers are only seemingly random (bias in the randomness quality can be observed). Question whether people can produce random numbers, has been investigated by many scientists in the recent years. The paper "Humans can consciously generate random numbers sequences..." published recently in Medical Hypotheses made claims that were in many ways contrary to state of art; it also stated far-reaching hypotheses. So, we decided to repeat the experiments reported, with special care being taken of proper laboratory procedures. Here, we present the results and discuss possible implications in computer and other sciences.

  15. Classification of periodic, chaotic and random sequences using ...

    Indian Academy of Sciences (India)

    ities of different datasets. Entropy cannot differentiate between chaotic and random sequences while ApEn and LZ cannot distinguish between weak and strong chaos. Figure 1. 95% confidence interval for mean LZ complexity of 50 samples of length. 20 using four bins. Pramana – J. Phys., Vol. 84, No. 3, March 2015. 367 ...

  16. Emergence of sequence type 779 methicillin-resistant Staphylococcus aureus harboring a novel pseudo staphylococcal cassette chromosome mec (SCCmec)-SCC-SCCCRISPR composite element in Irish hospitals.

    LENUS (Irish Health Repository)

    Kinnevey, Peter M

    2013-01-01

    Methicillin-resistant Staphylococcus aureus (MRSA) has been a major cause of nosocomial infection in Irish hospitals for 4 decades, and replacement of predominant MRSA clones has occurred several times. An MRSA isolate recovered in 2006 as part of a larger study of sporadic MRSA exhibited a rare spa (t878) and multilocus sequence (ST779) type and was nontypeable by PCR- and DNA microarray-based staphylococcal cassette chromosome mec (SCCmec) element typing. Whole-genome sequencing revealed the presence of a novel 51-kb composite island (CI) element with three distinct domains, each flanked by direct repeat and inverted repeat sequences, including (i) a pseudo SCCmec element (16.3 kb) carrying mecA with a novel mec class region, a fusidic acid resistance gene (fusC), and two copper resistance genes (copB and copC) but lacking ccr genes; (ii) an SCC element (17.5 kb) carrying a novel ccrAB4 allele; and (iii) an SCC element (17.4 kb) carrying a novel ccrC allele and a clustered regularly interspaced short palindromic repeat (CRISPR) region. The novel CI was subsequently identified by PCR in an additional 13 t878\\/ST779 MRSA isolates, six from bloodstream infections, recovered between 2006 and 2011 in 11 hospitals. Analysis of open reading frames (ORFs) carried by the CI showed amino acid sequence similarity of 44 to 100% to ORFs from S. aureus and coagulase-negative staphylococci (CoNS). These findings provide further evidence of genetic transfer between S. aureus and CoNS and show how this contributes to the emergence of novel SCCmec elements and MRSA strains. Ongoing surveillance of this MRSA strain is warranted and will require updating of currently used SCCmec typing methods.

  17. Pseudo-Marginal Slice Sampling

    OpenAIRE

    Murray, Iain; Graham, Matthew

    2015-01-01

    Markov chain Monte Carlo (MCMC) methods asymptotically sample from complex probability distributions. The pseudo-marginal MCMC framework only requires an unbiased estimator of the unnormalized probability distribution function to construct a Markov chain. However, the resulting chains are harder to tune to a target distribution than conventional MCMC, and the types of updates available are limited. We describe a general way to clamp and update the random numbers used in a pseudo-marginal meth...

  18. Peptide based diagnostics: are random-sequence peptides more useful than tiling proteome sequences?

    Science.gov (United States)

    Navalkar, Krupa Arun; Johnston, Stephan Albert; Stafford, Phillip

    2015-02-01

    Diagnostics using peptide ligands have been available for decades. However, their adoption in diagnostics has been limited, not because of poor sensitivity but in many cases due to diminished specificity. Numerous reports suggest that protein-based rather than peptide-based disease detection is more specific. We examined two different approaches to peptide-based diagnostics using Coccidioides (aka Valley Fever) as the disease model. Although the pathogen was discovered more than a century ago, a highly sensitive diagnostic remains unavailable. We present a case study where two different approaches to diagnosing Valley Fever were used: first, overlapping Valley Fever epitopes representing immunodominant Coccidioides antigens were tiled using a microarray format of presynthesized peptides. Second, a set of random sequence peptides identified using a 10,000 peptide immunosignaturing microarray was compared for sensitivity and specificity. The scientific hypothesis tested was that actual epitope peptides from Coccidioides would provide sufficient sensitivity and specificity as a diagnostic. Results demonstrated that random sequence peptides exhibited higher accuracy when classifying different stages of Valley Fever infection vs. epitope peptides. The epitope peptide array did provide better performance than the existing immunodiffusion array, but when directly compared to the random sequence peptides, reported lower overall accuracy. This study suggests that there are competing aspects of antibody recognition that involve conservation of pathogen sequence and aspects of mimotope recognition and amino acid substitutions. These factors may prove critical when developing the next generation of high-performance immunodiagnostics. Copyright © 2014 Elsevier B.V. All rights reserved.

  19. Random Sequence for Optimal Low-Power Laser Generated Ultrasound

    Science.gov (United States)

    Vangi, D.; Virga, A.; Gulino, M. S.

    2017-08-01

    Low-power laser generated ultrasounds are lately gaining importance in the research world, thanks to the possibility of investigating a mechanical component structural integrity through a non-contact and Non-Destructive Testing (NDT) procedure. The ultrasounds are, however, very low in amplitude, making it necessary to use pre-processing and post-processing operations on the signals to detect them. The cross-correlation technique is used in this work, meaning that a random signal must be used as laser input. For this purpose, a highly random and simple-to-create code called T sequence, capable of enhancing the ultrasound detectability, is introduced (not previously available at the state of the art). Several important parameters which characterize the T sequence can influence the process: the number of pulses Npulses , the pulse duration δ and the distance between pulses dpulses . A Finite Element FE model of a 3 mm steel disk has been initially developed to analytically study the longitudinal ultrasound generation mechanism and the obtainable outputs. Later, experimental tests have shown that the T sequence is highly flexible for ultrasound detection purposes, making it optimal to use high Npulses and δ but low dpulses . In the end, apart from describing all phenomena that arise in the low-power laser generation process, the results of this study are also important for setting up an effective NDT procedure using this technology.

  20. Random-breakage mapping method applied to human DNA sequences

    Science.gov (United States)

    Lobrich, M.; Rydberg, B.; Cooper, P. K.; Chatterjee, A. (Principal Investigator)

    1996-01-01

    The random-breakage mapping method [Game et al. (1990) Nucleic Acids Res., 18, 4453-4461] was applied to DNA sequences in human fibroblasts. The methodology involves NotI restriction endonuclease digestion of DNA from irradiated calls, followed by pulsed-field gel electrophoresis, Southern blotting and hybridization with DNA probes recognizing the single copy sequences of interest. The Southern blots show a band for the unbroken restriction fragments and a smear below this band due to radiation induced random breaks. This smear pattern contains two discontinuities in intensity at positions that correspond to the distance of the hybridization site to each end of the restriction fragment. By analyzing the positions of those discontinuities we confirmed the previously mapped position of the probe DXS1327 within a NotI fragment on the X chromosome, thus demonstrating the validity of the technique. We were also able to position the probes D21S1 and D21S15 with respect to the ends of their corresponding NotI fragments on chromosome 21. A third chromosome 21 probe, D21S11, has previously been reported to be close to D21S1, although an uncertainty about a second possible location existed. Since both probes D21S1 and D21S11 hybridized to a single NotI fragment and yielded a similar smear pattern, this uncertainty is removed by the random-breakage mapping method.

  1. Fully digital jerk-based chaotic oscillators for high throughput pseudo-random number generators up to 8.77Gbits/s

    KAUST Repository

    Mansingka, Abhinav S.

    2014-06-18

    This paper introduces fully digital implementations of four di erent systems in the 3rd order jerk-equation based chaotic family using the Euler approximation. The digitization approach enables controllable chaotic systems that reliably provide sinusoidal or chaotic output based on a selection input. New systems are introduced, derived using logical and arithmetic operations between two system implementations of different bus widths, with up to 100x higher maximum Lyapunov exponent than the original jerkequation based chaotic systems. The resulting chaotic output is shown to pass the NIST sp. 800-22 statistical test suite for pseudorandom number generators without post-processing by only eliminating the statistically defective bits. The systems are designed in Verilog HDL and experimentally verified on a Xilinx Virtex 4 FPGA for a maximum throughput of 15.59 Gbits/s for the native chaotic output and 8.77 Gbits/s for the resulting pseudo-random number generators.

  2. Pseudo-Gaussian and rank-based optimal tests for random individual effects in large n small T panels

    NARCIS (Netherlands)

    Bennala, N.; Hallin, M.; Paindaveine, D.

    2012-01-01

    We consider the problem of detecting unobserved heterogeneity, that is, the problem of testing the absence of random individual effects in an n × T panel. We establish a local asymptotic normality property–with respect to intercept, regression coefficient, the scale parameter σ of the error, and the

  3. Random Whole Metagenomic Sequencing for Forensic Discrimination of Soils

    Science.gov (United States)

    Khodakova, Anastasia S.; Smith, Renee J.; Burgoyne, Leigh; Abarno, Damien; Linacre, Adrian

    2014-01-01

    Here we assess the ability of random whole metagenomic sequencing approaches to discriminate between similar soils from two geographically distinct urban sites for application in forensic science. Repeat samples from two parklands in residential areas separated by approximately 3 km were collected and the DNA was extracted. Shotgun, whole genome amplification (WGA) and single arbitrarily primed DNA amplification (AP-PCR) based sequencing techniques were then used to generate soil metagenomic profiles. Full and subsampled metagenomic datasets were then annotated against M5NR/M5RNA (taxonomic classification) and SEED Subsystems (metabolic classification) databases. Further comparative analyses were performed using a number of statistical tools including: hierarchical agglomerative clustering (CLUSTER); similarity profile analysis (SIMPROF); non-metric multidimensional scaling (NMDS); and canonical analysis of principal coordinates (CAP) at all major levels of taxonomic and metabolic classification. Our data showed that shotgun and WGA-based approaches generated highly similar metagenomic profiles for the soil samples such that the soil samples could not be distinguished accurately. An AP-PCR based approach was shown to be successful at obtaining reproducible site-specific metagenomic DNA profiles, which in turn were employed for successful discrimination of visually similar soil samples collected from two different locations. PMID:25111003

  4. Random whole metagenomic sequencing for forensic discrimination of soils.

    Directory of Open Access Journals (Sweden)

    Anastasia S Khodakova

    Full Text Available Here we assess the ability of random whole metagenomic sequencing approaches to discriminate between similar soils from two geographically distinct urban sites for application in forensic science. Repeat samples from two parklands in residential areas separated by approximately 3 km were collected and the DNA was extracted. Shotgun, whole genome amplification (WGA and single arbitrarily primed DNA amplification (AP-PCR based sequencing techniques were then used to generate soil metagenomic profiles. Full and subsampled metagenomic datasets were then annotated against M5NR/M5RNA (taxonomic classification and SEED Subsystems (metabolic classification databases. Further comparative analyses were performed using a number of statistical tools including: hierarchical agglomerative clustering (CLUSTER; similarity profile analysis (SIMPROF; non-metric multidimensional scaling (NMDS; and canonical analysis of principal coordinates (CAP at all major levels of taxonomic and metabolic classification. Our data showed that shotgun and WGA-based approaches generated highly similar metagenomic profiles for the soil samples such that the soil samples could not be distinguished accurately. An AP-PCR based approach was shown to be successful at obtaining reproducible site-specific metagenomic DNA profiles, which in turn were employed for successful discrimination of visually similar soil samples collected from two different locations.

  5. Equivalent Conditions of Complete Convergence for Weighted Sums of Sequences of Negatively Dependent Random Variables

    Directory of Open Access Journals (Sweden)

    Mingle Guo

    2012-01-01

    Full Text Available The complete convergence for weighted sums of sequences of negatively dependent random variables is investigated. By applying moment inequality and truncation methods, the equivalent conditions of complete convergence for weighted sums of sequences of negatively dependent random variables are established. These results not only extend the corresponding results obtained by Li et al. (1995, Gut (1993, and Liang (2000 to sequences of negatively dependent random variables, but also improve them.

  6. OOgenesis_Pred: A sequence-based method for predicting oogenesis proteins by six different modes of Chou's pseudo amino acid composition.

    Science.gov (United States)

    Rahimi, Maryam; Bakhtiarizadeh, Mohammad Reza; Mohammadi-Sangcheshmeh, Abdollah

    2017-02-07

    Regarding to critical roles of oogenesis in formation of ova or unfertilized eggs from the oogonia by mitotic division and subsequent differentiation, the identification of oogenesis-related proteins is of great interest. However, the experimental determination of proteins involved in oogenesis is expensive, time consuming and labor-intensive. Therefore, a new powerful discriminating model is indispensable for classifying oogenesis/non-oogenesis-related proteins with high accuracy and precision. Hereby, for the first time we developed a support vector machine based oogenesis protein prediction method which differentiates oogenesis from non-oogenesis proteins. By means of informative protein physicochemical properties and in addition parameter optimization scheme, our method yields a robust and consistent performance. Our model achieved 87.68% and 84.82% prediction accuracy by five-fold cross validation test for datasets with 90% and 50% identity, respectively. The prediction model was also assessed using the independent dataset and yielded 91.62% and 85.38% prediction accuracy for datasets with 90% and 50% identity, respectively, which further demonstrates the effectiveness of our method. Moreover, by applying 10 different feature weighting methods, the more important protein features for oogenesis/non-oogenesis-related proteins discrimination, including serine and glycine frequency, quasi-sequence-order, pseudo-amino acid composition, distribution and conjoint triad, were determined. The success rates revealed that our model can be considered as a new encouraging and strong model for predicting proteins involved in oogenesis with appropriate performance. To enhance the value of the practical applications of the proposed method, we developed a standalone software for predicting oogenesis candidate proteins called OOgenesis_Pred. This software is the first predictor ever established for identifying oogenesis proteins. We also showed the capability of OOgenesis

  7. Distributions on unbounded moment spaces and random moment sequences

    OpenAIRE

    Dette, Holger; Nagel, Jan

    2012-01-01

    In this paper we define distributions on moment spaces corresponding to measures on the real line with an unbounded support. We identify these distributions as limiting distributions of random moment vectors defined on compact moment spaces and as distributions corresponding to random spectral measures associated with the Jacobi, Laguerre and Hermite ensemble from random matrix theory. For random vectors on the unbounded moment spaces we prove a central limit theorem where the centering vecto...

  8. A Novel Method for Increasing the Entropy of a Sequence of Independent, Discrete Random Variables

    Directory of Open Access Journals (Sweden)

    Mieczyslaw Jessa

    2015-10-01

    Full Text Available In this paper, we propose a novel method for increasing the entropy of a sequence of independent, discrete random variables with arbitrary distributions. The method uses an auxiliary table and a novel theorem that concerns the entropy of a sequence in which the elements are a bitwise exclusive-or sum of independent discrete random variables.

  9. Genetic analysis of the cumulative pseudo-survival rate during lactation of Holstein cattle in Japan by using random regression models.

    Science.gov (United States)

    Sasaki, O; Aihara, M; Nishiura, A; Takeda, H; Satoh, M

    2015-08-01

    Longevity is a crucial economic trait in the dairy farming industry. In this study, our objective was to develop a random regression model for genetic evaluation of survival. For the analysis, we used test-day records obtained for the first 5 lactations of 380,252 cows from 1,296 herds in Japan between 2001 and 2010; this data set was randomly divided into 7 subsets. The cumulative pseudo-survival rate (PSR) was determined according to whether a cow was alive (1) or absent (0) in her herd on the test day within each lactation group. Each lactation number was treated as an independent trait in a random regression multiple-trait model (MTM) or as a repeated measure in a random regression single-trait repeatability model (STRM). A proportional hazard model (PHM) was also developed as a piecewise-hazards model. The average (± standard deviation) heritability estimates of the PSR at 365 d in milk (DIM) among the 7 data sets in the first (LG1), second (LG2), and third to fifth lactations (LG3) of the MTM were 0.042±0.007, 0.070±0.012, and 0.084±0.007, respectively. The heritability estimate of the STRM was 0.038±0.004. The genetic correlations of PSR between distinct DIM within or between lactation groups were high when the interval between DIM was short. These results indicated that whereas the genetic factors contributing to the PSR between closely associated DIM would be similar even for different lactation numbers, the genetic factors contributing to PSR would differ between distinct lactation periods. The average (± standard deviation) effective heritability estimate based on the relative risk of the PHM among the 7 data sets was 0.068±0.009. The estimated breeding values (EBV) in LG1, LG2, LG3, the STRM, and the PHM were unbiased estimates of the genetic trend. The absolute values of the Spearman's rank correlation coefficients between the EBV of the relative risk of the PHM and the EBV of PSR at 365 DIM for LG1, LG2, LG3, and the STRM were 0.75, 0.87, 0

  10. Natural vs. random protein sequences: Discovering combinatorics properties on amino acid words.

    Science.gov (United States)

    Santoni, Daniele; Felici, Giovanni; Vergni, Davide

    2016-02-21

    Casual mutations and natural selection have driven the evolution of protein amino acid sequences that we observe at present in nature. The question about which is the dominant force of proteins evolution is still lacking of an unambiguous answer. Casual mutations tend to randomize protein sequences while, in order to have the correct functionality, one expects that selection mechanisms impose rigid constraints on amino acid sequences. Moreover, one also has to consider that the space of all possible amino acid sequences is so astonishingly large that it could be reasonable to have a well tuned amino acid sequence indistinguishable from a random one. In order to study the possibility to discriminate between random and natural amino acid sequences, we introduce different measures of association between pairs of amino acids in a sequence, and apply them to a dataset of 1047 natural protein sequences and 10,470 random sequences, carefully generated in order to preserve the relative length and amino acid distribution of the natural proteins. We analyze the multidimensional measures with machine learning techniques and show that, to a reasonable extent, natural protein sequences can be differentiated from random ones. Copyright © 2015 Elsevier Ltd. All rights reserved.

  11. Genetic correlations between the cumulative pseudo-survival rate, milk yield, and somatic cell score during lactation in Holstein cattle in Japan using a random regression model.

    Science.gov (United States)

    Sasaki, O; Aihara, M; Nishiura, A; Takeda, H

    2017-09-01

    Trends in genetic correlations between longevity, milk yield, and somatic cell score (SCS) during lactation in cows are difficult to trace. In this study, changes in the genetic correlations between milk yield, SCS, and cumulative pseudo-survival rate (PSR) during lactation were examined, and the effect of milk yield and SCS information on the reliability of estimated breeding value (EBV) of PSR were determined. Test day milk yield, SCS, and PSR records were obtained for Holstein cows in Japan from 2004 to 2013. A random subset of the data was used for the analysis (825 herds, 205,383 cows). This data set was randomly divided into 5 subsets (162-168 herds, 83,389-95,854 cows), and genetic parameters were estimated in each subset independently. Data were analyzed using multiple-trait random regression animal models including either the residual effect for the whole lactation period (H0), the residual effects for 5 lactation stages (H5), or both of these residual effects (HD). Milk yield heritability increased until 310 to 351 d in milk (DIM) and SCS heritability increased until 330 to 344 DIM. Heritability estimates for PSR increased with DIM from 0.00 to 0.05. The genetic correlation between milk yield and SCS increased negatively to under -0.60 at 455 DIM. The genetic correlation between milk yield and PSR increased until 342 to 355 DIM (0.53-0.57). The genetic correlation between the SCS and PSR was -0.82 to -0.83 at around 180 DIM, and decreased to -0.65 to -0.71 at 455 DIM. The reliability of EBV of PSR for sires with 30 or more recorded daughters was 0.17 to 0.45 when the effects of correlated traits were ignored. The maximum reliability of EBV was observed at 257 (H0) or 322 (HD) DIM. When the correlations of PSR with milk yield and SCS were considered, the reliabilities of PSR estimates increased to 0.31-0.76. The genetic parameter estimates of H5 were the same as those for HD. The rank correlation coefficients of the EBV of PSR between H0 and H5 or HD were

  12. Discrete pseudo-integrals

    Czech Academy of Sciences Publication Activity Database

    Mesiar, Radko; Li, J.; Pap, E.

    2013-01-01

    Roč. 54, č. 3 (2013), s. 357-364 ISSN 0888-613X R&D Projects: GA ČR GAP402/11/0378 Institutional support: RVO:67985556 Keywords : concave integral * pseudo-addition * pseudo- multiplication Subject RIV: BA - General Mathematics Impact factor: 1.977, year: 2013 http://library.utia.cas.cz/separaty/2013/E/mesiar-discrete pseudo-integrals. pdf

  13. Quantifying biodiversity and asymptotics for a sequence of random strings.

    Science.gov (United States)

    Koyano, Hitoshi; Kishino, Hirohisa

    2010-06-01

    We present a methodology for quantifying biodiversity at the sequence level by developing the probability theory on a set of strings. Further, we apply our methodology to the problem of quantifying the population diversity of microorganisms in several extreme environments and digestive organs and reveal the relation between microbial diversity and various environmental parameters.

  14. Inter simple sequence repeats (ISSR) and random amplified ...

    African Journals Online (AJOL)

    21 of 30 random amplified polymorphic DNA (RAPD) primers produced 220 reproducible bands with average of 10.47 bands per primer and 80.12% of polymorphism. OPR02 primer showed the highest number of effective allele (Ne), Shannon index (I) and genetic diversity (H). Some of the cultivars had specific bands, ...

  15. Random Coding Bounds for DNA Codes Based on Fibonacci Ensembles of DNA Sequences

    Science.gov (United States)

    2008-07-01

    Highway, Suite 1204, Arlington, VA 22202-4302, and to the Office of Management and Budget, Paperwork Reduction Project (0704-0188) Washington, DC...COVERED (From - To) 6 Jul 08 – 11 Jul 08 4. TITLE AND SUBTITLE RANDOM CODING BOUNDS FOR DNA CODES BASED ON FIBONACCI ENSEMBLES OF DNA SEQUENCES...sequences which are generalizations of the Fibonacci sequences. 15. SUBJECT TERMS DNA Codes, Fibonacci Ensembles, DNA Computing, Code Optimization 16

  16. Prediction of Protein Hotspots from Whole Protein Sequences by a Random Projection Ensemble System

    Directory of Open Access Journals (Sweden)

    Jinjian Jiang

    2017-07-01

    Full Text Available Hotspot residues are important in the determination of protein-protein interactions, and they always perform specific functions in biological processes. The determination of hotspot residues is by the commonly-used method of alanine scanning mutagenesis experiments, which is always costly and time consuming. To address this issue, computational methods have been developed. Most of them are structure based, i.e., using the information of solved protein structures. However, the number of solved protein structures is extremely less than that of sequences. Moreover, almost all of the predictors identified hotspots from the interfaces of protein complexes, seldom from the whole protein sequences. Therefore, determining hotspots from whole protein sequences by sequence information alone is urgent. To address the issue of hotspot predictions from the whole sequences of proteins, we proposed an ensemble system with random projections using statistical physicochemical properties of amino acids. First, an encoding scheme involving sequence profiles of residues and physicochemical properties from the AAindex1 dataset is developed. Then, the random projection technique was adopted to project the encoding instances into a reduced space. Then, several better random projections were obtained by training an IBk classifier based on the training dataset, which were thus applied to the test dataset. The ensemble of random projection classifiers is therefore obtained. Experimental results showed that although the performance of our method is not good enough for real applications of hotspots, it is very promising in the determination of hotspot residues from whole sequences.

  17. Prediction of Protein Hotspots from Whole Protein Sequences by a Random Projection Ensemble System

    Science.gov (United States)

    Jiang, Jinjian; Wang, Nian; Chen, Peng; Zheng, Chunhou; Wang, Bing

    2017-01-01

    Hotspot residues are important in the determination of protein-protein interactions, and they always perform specific functions in biological processes. The determination of hotspot residues is by the commonly-used method of alanine scanning mutagenesis experiments, which is always costly and time consuming. To address this issue, computational methods have been developed. Most of them are structure based, i.e., using the information of solved protein structures. However, the number of solved protein structures is extremely less than that of sequences. Moreover, almost all of the predictors identified hotspots from the interfaces of protein complexes, seldom from the whole protein sequences. Therefore, determining hotspots from whole protein sequences by sequence information alone is urgent. To address the issue of hotspot predictions from the whole sequences of proteins, we proposed an ensemble system with random projections using statistical physicochemical properties of amino acids. First, an encoding scheme involving sequence profiles of residues and physicochemical properties from the AAindex1 dataset is developed. Then, the random projection technique was adopted to project the encoding instances into a reduced space. Then, several better random projections were obtained by training an IBk classifier based on the training dataset, which were thus applied to the test dataset. The ensemble of random projection classifiers is therefore obtained. Experimental results showed that although the performance of our method is not good enough for real applications of hotspots, it is very promising in the determination of hotspot residues from whole sequences. PMID:28718782

  18. An empirical study of the complexity and randomness of prediction error sequences

    Science.gov (United States)

    Ratsaby, Joel

    2011-07-01

    We investigate a population of binary mistake sequences that result from learning with parametric models of different order. We obtain estimates of their error, algorithmic complexity and divergence from a purely random Bernoulli sequence. We study the relationship of these variables to the learner's information density parameter which is defined as the ratio between the lengths of the compressed to uncompressed files that contain the learner's decision rule. The results indicate that good learners have a low information density ρ while bad learners have a high ρ. Bad learners generate mistake sequences that are atypically complex or diverge stochastically from a purely random Bernoulli sequence. Good learners generate typically complex sequences with low divergence from Bernoulli sequences and they include mistake sequences generated by the Bayes optimal predictor. Based on the static algorithmic interference model of [18] the learner here acts as a static structure which "scatters" the bits of an input sequence (to be predicted) in proportion to its information density ρ thereby deforming its randomness characteristics.

  19. Predict protein structural class for low-similarity sequences by evolutionary difference information into the general form of Chou's pseudo amino acid composition.

    Science.gov (United States)

    Zhang, Lichao; Zhao, Xiqiang; Kong, Liang

    2014-08-21

    Knowledge of protein structural class plays an important role in characterizing the overall folding type of a given protein. At present, it is still a challenge to extract sequence information solely using protein sequence for protein structural class prediction with low similarity sequence in the current computational biology. In this study, a novel sequence representation method is proposed based on position specific scoring matrix for protein structural class prediction. By defined evolutionary difference formula, varying length proteins are expressed as uniform dimensional vectors, which can represent evolutionary difference information between the adjacent residues of a given protein. To perform and evaluate the proposed method, support vector machine and jackknife tests are employed on three widely used datasets, 25PDB, 1189 and 640 datasets with sequence similarity lower than 25%, 40% and 25%, respectively. Comparison of our results with the previous methods shows that our method may provide a promising method to predict protein structural class especially for low-similarity sequences. Copyright © 2014 Elsevier Ltd. All rights reserved.

  20. Do natural proteins differ from random sequences polypeptides? Natural vs. random proteins classification using an evolutionary neural network.

    Directory of Open Access Journals (Sweden)

    Davide De Lucrezia

    Full Text Available Are extant proteins the exquisite result of natural selection or are they random sequences slightly edited by evolution? This question has puzzled biochemists for long time and several groups have addressed this issue comparing natural protein sequences to completely random ones coming to contradicting conclusions. Previous works in literature focused on the analysis of primary structure in an attempt to identify possible signature of evolutionary editing. Conversely, in this work we compare a set of 762 natural proteins with an average length of 70 amino acids and an equal number of completely random ones of comparable length on the basis of their structural features. We use an ad hoc Evolutionary Neural Network Algorithm (ENNA in order to assess whether and to what extent natural proteins are edited from random polypeptides employing 11 different structure-related variables (i.e. net charge, volume, surface area, coil, alpha helix, beta sheet, percentage of coil, percentage of alpha helix, percentage of beta sheet, percentage of secondary structure and surface hydrophobicity. The ENNA algorithm is capable to correctly distinguish natural proteins from random ones with an accuracy of 94.36%. Furthermore, we study the structural features of 32 random polypeptides misclassified as natural ones to unveil any structural similarity to natural proteins. Results show that random proteins misclassified by the ENNA algorithm exhibit a significant fold similarity to portions or subdomains of extant proteins at atomic resolution. Altogether, our results suggest that natural proteins are significantly edited from random polypeptides and evolutionary editing can be readily detected analyzing structural features. Furthermore, we also show that the ENNA, employing simple structural descriptors, can predict whether a protein chain is natural or random.

  1. Pseudo Class III malocclusion

    National Research Council Canada - National Science Library

    Al-Hummayani, Fadia M

    2016-01-01

    .... This case report represents a none traditional treatment modality to treat deep anterior crossbite in an adult pseudo class III malocclusion complicated by severely retruded, supraerupted upper and lower incisors...

  2. Assessing randomness and complexity in human motion trajectories through analysis of symbolic sequences

    Directory of Open Access Journals (Sweden)

    Zhen ePeng

    2014-03-01

    Full Text Available Complexity is a hallmark of intelligent behavior consisting both of regular patterns and random variation. To quantitatively assess the complexity and randomness of human motion, we designed a motor task in which we translated subjects' motion trajectories into strings of symbol sequences. In the first part of the experiment participants were asked to perform self-paced movements to create repetitive patterns, copy pre-specified letter sequences, and generate random movements. To investigate whether the degree of randomness can be manipulated, in the second part of the experiment participants were asked to perform unpredictable movements in the context of a pursuit game, where they received feedback from an online Bayesian predictor guessing their next move. We analyzed symbol sequences representing subjects' motion trajectories with five common complexity measures: predictability, compressibility, approximate entropy, Lempel-Ziv complexity, as well as effective measure complexity. We found that subjects’ self-created patterns were the most complex, followed by drawing movements of letters and self-paced random motion. We also found that participants could change the randomness of their behavior depending on context and feedback. Our results suggest that humans can adjust both complexity and regularity in different movement types and contexts and that this can be assessed with information-theoretic measures of the symbolic sequences generated from movement trajectories.

  3. INSTRUCTIONAL CONFERENCE ON THE THEORY OF STOCHASTIC PROCESSES: Controlled random sequences and Markov chains

    Science.gov (United States)

    Yushkevich, A. A.; Chitashvili, R. Ya

    1982-12-01

    CONTENTSIntroduction Chapter I. Foundations of the general theory of controlled random sequences and Markov chains with the expected reward criterion § 1. Controlled random sequences, Markov chains, and models § 2. Necessary and sufficient conditions for optimality § 3. The Bellman equation for the value function and the existence of (ε-) optimal strategies Chapter II. Some problems in the theory of controlled homogeneous Markov chains § 4. Description of the solutions of the Bellman equation, a characterization of the value function, and the Bellman operator § 5. Sufficiency of stationary strategies in homogeneous Markov models § 6. The lexicographic Bellman equation References

  4. The algorithm of random length sequences synthesis for frame synchronization of digital television systems

    Directory of Open Access Journals (Sweden)

    Аndriy V. Sadchenko

    2015-12-01

    Full Text Available Digital television systems need to ensure that all digital signals processing operations are performed simultaneously and consistently. Frame synchronization dictated by the need to match phases of transmitter and receiver so that it would be possible to identify the start of a frame. As a frame synchronization signals are often used long length binary sequence with good aperiodic autocorrelation function. Aim: This work is dedicated to the development of the algorithm of random length sequences synthesis. Materials and Methods: The paper provides a comparative analysis of the known sequences, which can be used at present as synchronization ones, revealed their advantages and disadvantages. This work proposes the algorithm for the synthesis of binary synchronization sequences of random length with good autocorrelation properties based on noise generator with a uniform distribution law of probabilities. A "white noise" semiconductor generator is proposed to use as the initial material for the synthesis of binary sequences with desired properties. Results: The statistical analysis of the initial implementations of the "white noise" and synthesized sequences for frame synchronization of digital television is conducted. The comparative analysis of the synthesized sequences with known ones was carried out. The results show the benefits of obtained sequences in compare with known ones. The performed simulations confirm the obtained results. Conclusions: Thus, the search algorithm of binary synchronization sequences with desired autocorrelation properties received. According to this algorithm, the sequence can be longer in length and without length limitations. The received sync sequence can be used for frame synchronization in modern digital communication systems that will increase their efficiency and noise immunity.

  5. Seq2Logo: a method for construction and visualization of amino acid binding motifs and sequence profiles including sequence weighting, pseudo counts and two-sided representation of amino acid enrichment and depletion

    DEFF Research Database (Denmark)

    Thomsen, Martin Christen Frølund; Nielsen, Morten

    2012-01-01

    Seq2Logo is a web-based sequence logo generator. Sequence logos are a graphical representation of the information content stored in a multiple sequence alignment (MSA) and provide a compact and highly intuitive representation of the position-specific amino acid composition of binding motifs, active...

  6. Theoretical study of polymeric mixtures with different sequence statistics. I. Ising class: Linear random copolymers with different statistical sequences and ternary blends of linear random copolymers with homopolymers

    Energy Technology Data Exchange (ETDEWEB)

    Qi, Shuyan [Department of Chemical Engineering, Department of Chemistry, and Materials Science Division, Lawrence Berkeley National Laboratory, University of California, Berkeley, California 94720 (United States); Chakraborty, Arup K. [Department of Chemical Engineering, Department of Chemistry, and Materials Science Division, Lawrence Berkeley National Laboratory, University of California, Berkeley, California 94720 (United States)

    2000-01-15

    We derive a Landau free energy functional for polymeric mixtures containing components with different sequence statistics. We then apply this general field theory to two mixtures that belong to the Ising universality class: mixtures of two different linear random copolymers, and ternary systems of linear random copolymers and two homopolymers. We discuss the instability conditions for the homogeneous state of these mixtures, and calculate the structure factors for different components in the homogeneous state. The structure factors show interesting features which can directly be compared with scattering experiments carried out with selectively deuterated samples. We also work out the eigenmodes representing the least stable concentration fluctuations for these mixtures. The nature of these concentration fluctuations provides information regarding the ordered phases and the kinetic pathways that lead to them. We find various demixing modes for different characteristics of the two mixtures (e.g., average compositions, statistical correlation lengths, and volume fractions). (c) 2000 American Institute of Physics.

  7. Pse-Analysis: a python package for DNA/RNA and protein/ peptide sequence analysis based on pseudo components and kernel methods.

    Science.gov (United States)

    Liu, Bin; Wu, Hao; Zhang, Deyuan; Wang, Xiaolong; Chou, Kuo-Chen

    2017-02-21

    To expedite the pace in conducting genome/proteome analysis, we have developed a Python package called Pse-Analysis. The powerful package can automatically complete the following five procedures: (1) sample feature extraction, (2) optimal parameter selection, (3) model training, (4) cross validation, and (5) evaluating prediction quality. All the work a user needs to do is to input a benchmark dataset along with the query biological sequences concerned. Based on the benchmark dataset, Pse-Analysis will automatically construct an ideal predictor, followed by yielding the predicted results for the submitted query samples. All the aforementioned tedious jobs can be automatically done by the computer. Moreover, the multiprocessing technique was adopted to enhance computational speed by about 6 folds. The Pse-Analysis Python package is freely accessible to the public at http://bioinformatics.hitsz.edu.cn/Pse-Analysis/, and can be directly run on Windows, Linux, and Unix.

  8. rMotifGen: random motif generator for DNA and protein sequences

    Directory of Open Access Journals (Sweden)

    Hardin C Timothy

    2007-08-01

    Full Text Available Abstract Background Detection of short, subtle conserved motif regions within a set of related DNA or amino acid sequences can lead to discoveries about important regulatory domains such as transcription factor and DNA binding sites as well as conserved protein domains. In order to help assess motif detection algorithms on motifs with varying properties and levels of conservation, we have developed a computational tool, rMotifGen, with the sole purpose of generating a number of random DNA or protein sequences containing short sequence motifs. Each motif consensus can be user-defined, randomly generated, or created from a position-specific scoring matrix (PSSM. Insertions and mutations within these motifs are created according to user-defined parameters and substitution matrices. The resulting sequences can be helpful in mutational simulations and in testing the limits of motif detection algorithms. Results Two implementations of rMotifGen have been created, one providing a graphical user interface (GUI for random motif construction, and the other serving as a command line interface. The second implementation has the added advantages of platform independence and being able to be called in a batch mode. rMotifGen was used to construct sample sets of sequences containing DNA motifs and amino acid motifs that were then tested against the Gibbs sampler and MEME packages. Conclusion rMotifGen provides an efficient and convenient method for creating random DNA or amino acid sequences with a variable number of motifs, where the instance of each motif can be incorporated using a position-specific scoring matrix (PSSM or by creating an instance mutated from its corresponding consensus using an evolutionary model based on substitution matrices. rMotifGen is freely available at: http://bioinformatics.louisville.edu/brg/rMotifGen/.

  9. Usefulness and limitations of dK random graph models to predict interactions and functional homogeneity in biological networks under a pseudo-likelihood parameter estimation approach.

    Science.gov (United States)

    Wang, Wenhui; Nunez-Iglesias, Juan; Luan, Yihui; Sun, Fengzhu

    2009-09-03

    Many aspects of biological functions can be modeled by biological networks, such as protein interaction networks, metabolic networks, and gene coexpression networks. Studying the statistical properties of these networks in turn allows us to infer biological function. Complex statistical network models can potentially more accurately describe the networks, but it is not clear whether such complex models are better suited to find biologically meaningful subnetworks. Recent studies have shown that the degree distribution of the nodes is not an adequate statistic in many molecular networks. We sought to extend this statistic with 2nd and 3rd order degree correlations and developed a pseudo-likelihood approach to estimate the parameters. The approach was used to analyze the MIPS and BIOGRID yeast protein interaction networks, and two yeast coexpression networks. We showed that 2nd order degree correlation information gave better predictions of gene interactions in both protein interaction and gene coexpression networks. However, in the biologically important task of predicting functionally homogeneous modules, degree correlation information performs marginally better in the case of the MIPS and BIOGRID protein interaction networks, but worse in the case of gene coexpression networks. Our use of dK models showed that incorporation of degree correlations could increase predictive power in some contexts, albeit sometimes marginally, but, in all contexts, the use of third-order degree correlations decreased accuracy. However, it is possible that other parameter estimation methods, such as maximum likelihood, will show the usefulness of incorporating 2nd and 3rd degree correlations in predicting functionally homogeneous modules.

  10. Usefulness and limitations of dK random graph models to predict interactions and functional homogeneity in biological networks under a pseudo-likelihood parameter estimation approach

    Directory of Open Access Journals (Sweden)

    Luan Yihui

    2009-09-01

    Full Text Available Abstract Background Many aspects of biological functions can be modeled by biological networks, such as protein interaction networks, metabolic networks, and gene coexpression networks. Studying the statistical properties of these networks in turn allows us to infer biological function. Complex statistical network models can potentially more accurately describe the networks, but it is not clear whether such complex models are better suited to find biologically meaningful subnetworks. Results Recent studies have shown that the degree distribution of the nodes is not an adequate statistic in many molecular networks. We sought to extend this statistic with 2nd and 3rd order degree correlations and developed a pseudo-likelihood approach to estimate the parameters. The approach was used to analyze the MIPS and BIOGRID yeast protein interaction networks, and two yeast coexpression networks. We showed that 2nd order degree correlation information gave better predictions of gene interactions in both protein interaction and gene coexpression networks. However, in the biologically important task of predicting functionally homogeneous modules, degree correlation information performs marginally better in the case of the MIPS and BIOGRID protein interaction networks, but worse in the case of gene coexpression networks. Conclusion Our use of dK models showed that incorporation of degree correlations could increase predictive power in some contexts, albeit sometimes marginally, but, in all contexts, the use of third-order degree correlations decreased accuracy. However, it is possible that other parameter estimation methods, such as maximum likelihood, will show the usefulness of incorporating 2nd and 3rd degree correlations in predicting functionally homogeneous modules.

  11. Change in Job Strain as a Predictor of Change in Insomnia Symptoms: Analyzing Observational Data as a Non-randomized Pseudo-Trial.

    Science.gov (United States)

    Halonen, Jaana I; Lallukka, Tea; Pentti, Jaana; Stenholm, Sari; Rod, Naja H; Virtanen, Marianna; Salo, Paula; Kivimäki, Mika; Vahtera, Jussi

    2017-01-01

    To examine whether change in job strain leads to change in insomnia symptoms. Among 24873 adults (82% women, mean age 44 years) who participated in a minimum of three consecutive study waves (2000-2012), job strain was assessed at the first and second wave and insomnia symptoms at all three waves. We analyzed observational data as a "pseudo-trial" including participants with no job strain in the first wave and no insomnia symptoms in the first and second wave (n = 7354) to examine whether the onset of job strain between the first and second waves predicted the onset of insomnia symptoms in the third wave. We used a corresponding approach, including those with job strain in the first wave and insomnia symptoms in the first and second wave (n = 2332), to examine whether the disappearance of job strain between the first two waves predicted remission of insomnia symptoms in the third wave. The onset of job strain predicted the onset of subsequent insomnia symptoms after adjustment for sex, age, marital status, education, smoking, physical activity, alcohol consumption, body mass index, and comorbidities (odds ratio compared to no onset of job strain 1.32, 95% CI 1.16-1.51). The disappearance of job strain was associated with lower odds of repeated insomnia symptoms (odds ratio compared to no disappearance of job strain 0.78, 95% CI 0.65-0.94). Further adjustment for shift work or sleep apnea did not change these associations. These results suggest that job strain is a modifiable risk factor for insomnia symptoms.

  12. Change in organizational justice as a predictor of insomnia symptoms: longitudinal study analysing observational data as a non-randomized pseudo-trial.

    Science.gov (United States)

    Lallukka, Tea; Halonen, Jaana I; Sivertsen, Børge; Pentti, Jaana; Stenholm, Sari; Virtanen, Marianna; Salo, Paula; Oksanen, Tuula; Elovainio, Marko; Vahtera, Jussi; Kivimäki, Mika

    2017-08-01

    Despite injustice at the workplace being a potential source of sleep problems, longitudinal evidence remains scarce. We examined whether changes in perceived organizational justice predicted changes in insomnia symptoms. Data on 24 287 Finnish public sector employees (82% women), from three consecutive survey waves between 2000 and 2012, were treated as 'pseudo-trials'. Thus, the analysis of unfavourable changes in organizational justice included participants without insomnia symptoms in Waves 1 and 2, with high organizational justice in Wave 1 and high or low justice in Wave 2 (N = 6307). In the analyses of favourable changes in justice, participants had insomnia symptoms in Waves 1 and 2, low justice in Wave 1 and high or low justice in Wave 2 (N = 2903). In both analyses, the outcome was insomnia symptoms in Wave 3. We used generalized estimating equation models to analyse the data. After adjusting for social and health-related covariates in Wave 1, unfavourable changes in relational organizational justice (i.e. fairness of managerial behaviours) were associated with increased odds of developing insomnia symptoms [odds ratio = 1.15; 95% confidence interval (CI) 1.02-1.30]. A favourable change in relational organizational justice was associated with lower odds of persistent insomnia symptoms (odds ratio = 0.83; 95% CI 0.71-0.96). Changes in procedural justice (i.e. the fairness of decision-making procedures) were not associated with insomnia symptoms. These data suggest that changes in perceived relational justice may affect employees' sleep quality. Decreases in the fairness of managerial behaviours were linked to increases in insomnia symptoms, whereas rises in fairness were associated with reduced insomnia symptoms.

  13. The Effect of Interference on Temporal Order Memory for Random and Fixed Sequences in Nondemented Older Adults

    Science.gov (United States)

    Tolentino, Jerlyn C.; Pirogovsky, Eva; Luu, Trinh; Toner, Chelsea K.; Gilbert, Paul E.

    2012-01-01

    Two experiments tested the effect of temporal interference on order memory for fixed and random sequences in young adults and nondemented older adults. The results demonstrate that temporal order memory for fixed and random sequences is impaired in nondemented older adults, particularly when temporal interference is high. However, temporal order…

  14. Quantum Pseudo-Telepathy

    Science.gov (United States)

    Brassard, Gilles; Broadbent, Anne; Tapp, Alain

    2005-11-01

    Quantum information processing is at the crossroads of physics, mathematics and computer science. It is concerned with that we can and cannot do with quantum information that goes beyond the abilities of classical information processing devices. Communication complexity is an area of classical computer science that aims at quantifying the amount of communication necessary to solve distributed computational problems. Quantum communication complexity uses quantum mechanics to reduce the amount of communication that would be classically required. Pseudo-telepathy is a surprising application of quantum information processing to communication complexity. Thanks to entanglement, perhaps the most nonclassical manifestation of quantum mechanics, two or more quantum players can accomplish a distributed task with no need for communication whatsoever, which would be an impossible feat for classical players. After a detailed overview of the principle and purpose of pseudo-telepathy, we present a survey of recent and no-so-recent work on the subject. In particular, we describe and analyse all the pseudo-telepathy games currently known to the authors.

  15. A novel pseudo-complementary PNA G-C base pair

    DEFF Research Database (Denmark)

    Olsen, Anne G.; Dahl, Otto; Petersen, Asger Bjørn

    2011-01-01

    Pseudo-complementary oligonucleotide analogues and mimics provide novel opportunities for targeting duplex structures in RNA and DNA. Previously, a pseudo-complementary A-T base pair has been introduced. Towards sequence unrestricted targeting, a pseudo-complementary G-C base pair consisting...... of the unnatural nucleobases n6-methoxy-2,6-diaminopurine (previously described in a DNA context) and N4-benzoylcytosine is now presented for design of pseudo-complementary PNA oligomers (pcPNAs)....

  16. PseudoBase++: an extension of PseudoBase for easy searching, formatting and visualization of pseudoknots.

    Science.gov (United States)

    Taufer, Michela; Licon, Abel; Araiza, Roberto; Mireles, David; van Batenburg, F H D; Gultyaev, Alexander P; Leung, Ming-Ying

    2009-01-01

    Pseudoknots have been recognized to be an important type of RNA secondary structures responsible for many biological functions. PseudoBase, a widely used database of pseudoknot secondary structures developed at Leiden University, contains over 250 records of pseudoknots obtained in the past 25 years through crystallography, NMR, mutational experiments and sequence comparisons. To promptly address the growing analysis requests of the researchers on RNA structures and bring together information from multiple sources across the Internet to a single platform, we designed and implemented PseudoBase++, an extension of PseudoBase for easy searching, formatting and visualization of pseudoknots. PseudoBase++ (http://pseudobaseplusplus.utep.edu) maps the PseudoBase dataset into a searchable relational database including additional functionalities such as pseudoknot type. PseudoBase++ links each pseudoknot in PseudoBase to the GenBank record of the corresponding nucleotide sequence and allows scientists to automatically visualize RNA secondary structures with PseudoViewer. It also includes the capabilities of fine-grained reference searching and collecting new pseudoknot information.

  17. Expressed sequence tags of randomly selected cDNA clones from Eucalyptus globulus-Pisolithus tinctorius ectomycorrhiza.

    Science.gov (United States)

    Tagu, D; Martin, F

    1995-01-01

    Random sequencing of cDNA clones from Eucalyptus globulus-Pisolithus tinctorius ectomycorrhizal tissues was carried out to generate expressed sequence tags (ESTs). Database comparisons revealed that 42% of the cDNAs corresponded to previously sequenced genes. These ESTs represent efficient molecular markers to analyze changes in gene expression during the formation of the ectomycorrhizal symbiosis.

  18. NullSeq: A Tool for Generating Random Coding Sequences with Desired Amino Acid and GC Contents.

    Directory of Open Access Journals (Sweden)

    Sophia S Liu

    2016-11-01

    Full Text Available The existence of over- and under-represented sequence motifs in genomes provides evidence of selective evolutionary pressures on biological mechanisms such as transcription, translation, ligand-substrate binding, and host immunity. In order to accurately identify motifs and other genome-scale patterns of interest, it is essential to be able to generate accurate null models that are appropriate for the sequences under study. While many tools have been developed to create random nucleotide sequences, protein coding sequences are subject to a unique set of constraints that complicates the process of generating appropriate null models. There are currently no tools available that allow users to create random coding sequences with specified amino acid composition and GC content for the purpose of hypothesis testing. Using the principle of maximum entropy, we developed a method that generates unbiased random sequences with pre-specified amino acid and GC content, which we have developed into a python package. Our method is the simplest way to obtain maximally unbiased random sequences that are subject to GC usage and primary amino acid sequence constraints. Furthermore, this approach can easily be expanded to create unbiased random sequences that incorporate more complicated constraints such as individual nucleotide usage or even di-nucleotide frequencies. The ability to generate correctly specified null models will allow researchers to accurately identify sequence motifs which will lead to a better understanding of biological processes as well as more effective engineering of biological systems.

  19. No evidence that mRNAs have lower folding free energies than random sequences with the same dinucleotide distribution

    DEFF Research Database (Denmark)

    Workman, Christopher; Krogh, Anders Stærmose

    1999-01-01

    This work investigates whether mRNA has a lower estimated folding free energy than random sequences. The free energy estimates are calculated by the mfold program for prediction of RNA secondary structures. For a set of 46 mRNAs it is shown that the predicted free energy is not significantly...... different from random sequences with the same dinucleotide distribution. For random sequences with the same mononucleotide distribution it has previously been shown that the native mRNA sequences have a lower predicted free energy, which indicates a more stable structure than random sequences. However......, dinucleotide content is important when assessing the significance of predicted free energy as the physical stability of RNA secondary structure is known to depend on dinucleotide base stacking energies. Even known RNA secondary structures, like tRNAs, can be shown to have predicted free energies...

  20. A sequence-based method to predict the impact of regulatory variants using random forest.

    Science.gov (United States)

    Liu, Qiao; Gan, Mingxin; Jiang, Rui

    2017-03-14

    Most disease-associated variants identified by genome-wide association studies (GWAS) exist in noncoding regions. In spite of the common agreement that such variants may disrupt biological functions of their hosting regulatory elements, it remains a great challenge to characterize the risk of a genetic variant within the implicated genome sequence. Therefore, it is essential to develop an effective computational model that is not only capable of predicting the potential risk of a genetic variant but also valid in interpreting how the function of the genome is affected with the occurrence of the variant. We developed a method named kmerForest that used a random forest classifier with k-mer counts to predict accessible chromatin regions purely based on DNA sequences. We demonstrated that our method outperforms existing methods in distinguishing known accessible chromatin regions from random genomic sequences. Furthermore, the performance of our method can further be improved with the incorporation of sequence conservation features. Based on this model, we assessed importance of the k-mer features by a series of permutation experiments, and we characterized the risk of a single nucleotide polymorphism (SNP) on the function of the genome using the difference between the importance of the k-mer features affected by the occurrence of the SNP. We conducted a series of experiments and showed that our model can well discriminate between pathogenic and normal SNPs. Particularly, our model correctly prioritized SNPs that are proved to be enriched for the binding sites of FOXA1 in breast cancer cell lines from previous studies. We presented a novel method to interpret functional genetic variants purely base on DNA sequences. The proposed k-mer based score offers an effective means of measuring the impact of SNPs on the function of the genome, and thus shedding light on the identification of genetic risk factors underlying complex traits and diseases.

  1. Random amino acid mutations and protein misfolding lead to Shannon limit in sequence-structure communication.

    Directory of Open Access Journals (Sweden)

    Andreas Martin Lisewski

    2008-09-01

    Full Text Available The transmission of genomic information from coding sequence to protein structure during protein synthesis is subject to stochastic errors. To analyze transmission limits in the presence of spurious errors, Shannon's noisy channel theorem is applied to a communication channel between amino acid sequences and their structures established from a large-scale statistical analysis of protein atomic coordinates. While Shannon's theorem confirms that in close to native conformations information is transmitted with limited error probability, additional random errors in sequence (amino acid substitutions and in structure (structural defects trigger a decrease in communication capacity toward a Shannon limit at 0.010 bits per amino acid symbol at which communication breaks down. In several controls, simulated error rates above a critical threshold and models of unfolded structures always produce capacities below this limiting value. Thus an essential biological system can be realistically modeled as a digital communication channel that is (a sensitive to random errors and (b restricted by a Shannon error limit. This forms a novel basis for predictions consistent with observed rates of defective ribosomal products during protein synthesis, and with the estimated excess of mutual information in protein contact potentials.

  2. Random amino acid mutations and protein misfolding lead to Shannon limit in sequence-structure communication.

    Science.gov (United States)

    Lisewski, Andreas Martin

    2008-09-01

    The transmission of genomic information from coding sequence to protein structure during protein synthesis is subject to stochastic errors. To analyze transmission limits in the presence of spurious errors, Shannon's noisy channel theorem is applied to a communication channel between amino acid sequences and their structures established from a large-scale statistical analysis of protein atomic coordinates. While Shannon's theorem confirms that in close to native conformations information is transmitted with limited error probability, additional random errors in sequence (amino acid substitutions) and in structure (structural defects) trigger a decrease in communication capacity toward a Shannon limit at 0.010 bits per amino acid symbol at which communication breaks down. In several controls, simulated error rates above a critical threshold and models of unfolded structures always produce capacities below this limiting value. Thus an essential biological system can be realistically modeled as a digital communication channel that is (a) sensitive to random errors and (b) restricted by a Shannon error limit. This forms a novel basis for predictions consistent with observed rates of defective ribosomal products during protein synthesis, and with the estimated excess of mutual information in protein contact potentials.

  3. PSEUDO-CODEWORD LANDSCAPE

    Energy Technology Data Exchange (ETDEWEB)

    CHERTKOV, MICHAEL [Los Alamos National Laboratory; STEPANOV, MIKHAIL [Los Alamos National Laboratory

    2007-01-10

    The authors discuss performance of Low-Density-Parity-Check (LDPC) codes decoded by Linear Programming (LP) decoding at moderate and large Signal-to-Noise-Ratios (SNR). Frame-Error-Rate (FER) dependence on SNR and the noise space landscape of the coding/decoding scheme are analyzed by a combination of the previously introduced instanton/pseudo-codeword-search method and a new 'dendro' trick. To reduce complexity of the LP decoding for a code with high-degree checks, {ge} 5, they introduce its dendro-LDPC counterpart, that is the code performing identifically to the original one under Maximum-A-Posteriori (MAP) decoding but having reduced (down to three) check connectivity degree. Analyzing number of popular LDPC codes and their dendro versions performing over the Additive-White-Gaussian-Noise (AWGN) channel, they observed two qualitatively different regimes: (i) error-floor sets early, at relatively low SNR, and (ii) FER decays with SNR increase faster at moderate SNR than at the largest SNR. They explain these regimes in terms of the pseudo-codeword spectra of the codes.

  4. Partial summations of stationary sequences of non-Gaussian random variables

    DEFF Research Database (Denmark)

    Mohr, Gunnar; Ditlevsen, Ove Dalager

    1996-01-01

    The distribution of the sum of a finite number of identically distributed random variables is in many cases easily determined given that the variables are independent. The moments of any order of the sum can always be expressed by the moments of the single term without computational problems...... of convergence of the distribution of a sum (or an integral) of mutually dependent random variables to the Gaussian distribution. The paper is closely related to the work in Ditlevsen el al. [Ditlevsen, O., Mohr, G. & Hoffmeyer, P. Integration of non-Gaussian fields. Prob. Engng Mech 11 (1996) 15-23](2)........ However, in the case of dependency between the terms even calculation of a few of the first moments of the sum presents serious computational problems. By use of computerized symbol manipulations it is practicable to obtain exact moments of partial sums of stationary sequences of mutually dependent...

  5. The evolution of proteins from random amino acid sequences: II. Evidence from the statistical distributions of the lengths of modern protein sequences.

    Science.gov (United States)

    White, S H

    1994-04-01

    This paper continues an examination of the hypothesis that modern proteins evolved from random heteropeptide sequences. In support of the hypothesis, White and Jacobs (1993, J Mol Evol 36:79-95) have shown that any sequence chosen randomly from a large collection of nonhomologous proteins has a 90% or better chance of having a lengthwise distribution of amino acids that is indistinguishable from the random expectation regardless of amino acid type. The goal of the present study was to investigate the possibility that the random-origin hypothesis could explain the lengths of modern protein sequences without invoking specific mechanisms such as gene duplication or exon splicing. The sets of sequences examined were taken from the 1989 PIR database and consisted of 1,792 "super-family" proteins selected to have little sequence identity, 623 E. coli sequences, and 398 human sequences. The length distributions of the proteins could be described with high significance by either of two closely related probability density functions: The gamma distribution with parameter 2 or the distribution for the sum of two exponential random independent variables. A simple theory for the distributions was developed which assumes that (1) protoprotein sequences had exponentially distributed random independent lengths, (2) the length dependence of protein stability determined which of these protoproteins could fold into compact primitive proteins and thereby attain the potential for biochemical activity, (3) the useful protein sequences were preserved by the primitive genome, and (4) the resulting distribution of sequence lengths is reflected by modern proteins. The theory successfully predicts the two observed distributions which can be distinguished by the functional form of the dependence of protein stability on length. The theory leads to three interesting conclusions. First, it predicts that a tetra-nucleotide was the signal for primitive translation termination. This prediction is

  6. A Comparison of mRNA Sequencing with Random Primed and 3'-Directed Libraries.

    Science.gov (United States)

    Xiong, Yuguang; Soumillon, Magali; Wu, Jie; Hansen, Jens; Hu, Bin; van Hasselt, Johan G C; Jayaraman, Gomathi; Lim, Ryan; Bouhaddou, Mehdi; Ornelas, Loren; Bochicchio, Jim; Lenaeus, Lindsay; Stocksdale, Jennifer; Shim, Jaehee; Gomez, Emilda; Sareen, Dhruv; Svendsen, Clive; Thompson, Leslie M; Mahajan, Milind; Iyengar, Ravi; Sobie, Eric A; Azeloglu, Evren U; Birtwistle, Marc R

    2017-11-07

    Creating a cDNA library for deep mRNA sequencing (mRNAseq) is generally done by random priming, creating multiple sequencing fragments along each transcript. A 3'-end-focused library approach cannot detect differential splicing, but has potentially higher throughput at a lower cost, along with the ability to improve quantification by using transcript molecule counting with unique molecular identifiers (UMI) that correct PCR bias. Here, we compare an implementation of such a 3'-digital gene expression (3'-DGE) approach with "conventional" random primed mRNAseq. Given our particular datasets on cultured human cardiomyocyte cell lines, we find that, while conventional mRNAseq detects ~15% more genes and needs ~500,000 fewer reads per sample for equivalent statistical power, the resulting differentially expressed genes, biological conclusions, and gene signatures are highly concordant between two techniques. We also find good quantitative agreement at the level of individual genes between two techniques for both read counts and fold changes between given conditions. We conclude that, for high-throughput applications, the potential cost savings associated with 3'-DGE approach are likely a reasonable tradeoff for modest reduction in sensitivity and inability to observe alternative splicing, and should enable many larger scale studies focusing on not only differential expression analysis, but also quantitative transcriptome profiling.

  7. RSARF: Prediction of residue solvent accessibility from protein sequence using random forest method

    KAUST Repository

    Ganesan, Pugalenthi

    2012-01-01

    Prediction of protein structure from its amino acid sequence is still a challenging problem. The complete physicochemical understanding of protein folding is essential for the accurate structure prediction. Knowledge of residue solvent accessibility gives useful insights into protein structure prediction and function prediction. In this work, we propose a random forest method, RSARF, to predict residue accessible surface area from protein sequence information. The training and testing was performed using 120 proteins containing 22006 residues. For each residue, buried and exposed state was computed using five thresholds (0%, 5%, 10%, 25%, and 50%). The prediction accuracy for 0%, 5%, 10%, 25%, and 50% thresholds are 72.9%, 78.25%, 78.12%, 77.57% and 72.07% respectively. Further, comparison of RSARF with other methods using a benchmark dataset containing 20 proteins shows that our approach is useful for prediction of residue solvent accessibility from protein sequence without using structural information. The RSARF program, datasets and supplementary data are available at http://caps.ncbs.res.in/download/pugal/RSARF/. - See more at: http://www.eurekaselect.com/89216/article#sthash.pwVGFUjq.dpuf

  8. Rapid selection of accessible and cleavable sites in RNA by Escherichia coli RNase P and random external guide sequences

    OpenAIRE

    Lundblad, Eirik W.; Xiao, Gaoping; Ko, Jae-hyeong; Altman, Sidney

    2008-01-01

    A method of inhibiting the expression of particular genes by using external guide sequences (EGSs) has been improved in its rapidity and specificity. Random EGSs that have 14-nt random sequences are used in the selection procedure for an EGS that attacks the mRNA for a gene in a particular location. A mixture of the random EGSs, the particular target RNA, and RNase P is used in the diagnostic procedure, which, after completion, is analyzed in a gel with suitable control lanes. Within a few ho...

  9. LigandRFs: random forest ensemble to identify ligand-binding residues from sequence information alone

    KAUST Repository

    Chen, Peng

    2014-12-03

    Background Protein-ligand binding is important for some proteins to perform their functions. Protein-ligand binding sites are the residues of proteins that physically bind to ligands. Despite of the recent advances in computational prediction for protein-ligand binding sites, the state-of-the-art methods search for similar, known structures of the query and predict the binding sites based on the solved structures. However, such structural information is not commonly available. Results In this paper, we propose a sequence-based approach to identify protein-ligand binding residues. We propose a combination technique to reduce the effects of different sliding residue windows in the process of encoding input feature vectors. Moreover, due to the highly imbalanced samples between the ligand-binding sites and non ligand-binding sites, we construct several balanced data sets, for each of which a random forest (RF)-based classifier is trained. The ensemble of these RF classifiers forms a sequence-based protein-ligand binding site predictor. Conclusions Experimental results on CASP9 and CASP8 data sets demonstrate that our method compares favorably with the state-of-the-art protein-ligand binding site prediction methods.

  10. AQUa: An Adaptive Framework for Compression of Sequencing Quality Scores with Random Access Functionality.

    Science.gov (United States)

    Paridaens, Tom; Van Wallendael, Glenn; De Neve, Wesley; Lambert, Peter

    2017-09-25

    The past decade has seen the introduction of new technologies that significantly lowered the cost of genome sequencing. As a result, the amount of genomic data that must be stored and transmitted is increasing exponentially. To mitigate storage and transmission issues, we introduce a framework for lossless compression of quality scores. This paper proposes AQUa, an adaptive framework for lossless compression of quality scores. To compress these quality scores, AQUa makes use of a configurable set of coding tools, extended with a Context-Adaptive Binary Arithmetic Coding scheme (CABAC). When benchmarking AQUa against generic single-pass compressors, file sizes are reduced by up to 38.49% when comparing with GNU Gzip and by up to 6.48% when comparing with 7-Zip at the Ultra Setting, while still providing support for random access. When comparing AQUa with the purpose-built, single-pass, and state-of-the-art compressor SCALCE, which does not support random access, file sizes are reduced by up to 21.14%. When comparing AQUa with the purpose-built, dual-pass, and state-of-the-art compressor QVZ, which does not support random access, file sizes are larger by 6.42% to 33.47%. However, for one test file, the file size is 0.38% smaller, illustrating the strength of our single-pass compression framework. This work has been spurred by the current activity on genomic information representation (MPEG-G) within the ISO/IEC SC29/WG11 technical committee. The software is available on Github: https://github.com/tparidae/AQUa. Tom Paridaens (tom.paridaens@ugent.be).

  11. Rapid selection of accessible and cleavable sites in RNA by Escherichia coli RNase P and random external guide sequences.

    Science.gov (United States)

    Lundblad, Eirik W; Xiao, Gaoping; Ko, Jae-Hyeong; Altman, Sidney

    2008-02-19

    A method of inhibiting the expression of particular genes by using external guide sequences (EGSs) has been improved in its rapidity and specificity. Random EGSs that have 14-nt random sequences are used in the selection procedure for an EGS that attacks the mRNA for a gene in a particular location. A mixture of the random EGSs, the particular target RNA, and RNase P is used in the diagnostic procedure, which, after completion, is analyzed in a gel with suitable control lanes. Within a few hours, the procedure is complete. The action of EGSs designed by an older method is compared with EGSs designed by the random EGS method on mRNAs from two bacterial pathogens.

  12. Fully Automatic Myocardial Segmentation of Contrast Echocardiography Sequence Using Random Forests Guided by Shape Model.

    Science.gov (United States)

    Li, Yuanwei; Ho, Chin Pang; Toulemonde, Matthieu; Chahal, Navtej; Senior, Roxy; Tang, Meng-Xing

    2017-09-26

    Myocardial contrast echocardiography (MCE) is an imaging technique that assesses left ventricle function and myocardial perfusion for the detection of coronary artery diseases. Automatic MCE perfusion quantification is challenging and requires accurate segmentation of the myocardium from noisy and time-varying images. Random forests (RF) have been successfully applied to many medical image segmentation tasks. However, the pixel-wise RF classifier ignores contextual relationships between label outputs of individual pixels. RF which only utilizes local appearance features is also susceptible to data suffering from large intensity variations. In this paper, we demonstrate how to overcome the above limitations of classic RF by presenting a fully automatic segmentation pipeline for myocardial segmentation in full-cycle 2D MCE data. Specifically, a statistical shape model is used to provide shape prior information that guide the RF segmentation in two ways. First, a novel shape model (SM) feature is incorporated into the RF framework to generate a more accurate RF probability map. Second, the shape model is fitted to the RF probability map to refine and constrain the final segmentation to plausible myocardial shapes. We further improve the performance by introducing a bounding box detection algorithm as a preprocessing step in the segmentation pipeline. Our approach on 2D image is further extended to 2D+t sequences which ensures temporal consistency in the final sequence segmentations. When evaluated on clinical MCE datasets, our proposed method achieves notable improvement in segmentation accuracy and outperforms other state-of-the-art methods including the classic RF and its variants, active shape model and image registration.

  13. Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees

    Directory of Open Access Journals (Sweden)

    von Reumont Björn M

    2010-03-01

    Full Text Available Abstract Background Methods of alignment masking, which refers to the technique of excluding alignment blocks prior to tree reconstructions, have been successful in improving the signal-to-noise ratio in sequence alignments. However, the lack of formally well defined methods to identify randomness in sequence alignments has prevented a routine application of alignment masking. In this study, we compared the effects on tree reconstructions of the most commonly used profiling method (GBLOCKS which uses a predefined set of rules in combination with alignment masking, with a new profiling approach (ALISCORE based on Monte Carlo resampling within a sliding window, using different data sets and alignment methods. While the GBLOCKS approach excludes variable sections above a certain threshold which choice is left arbitrary, the ALISCORE algorithm is free of a priori rating of parameter space and therefore more objective. Results ALISCORE was successfully extended to amino acids using a proportional model and empirical substitution matrices to score randomness in multiple sequence alignments. A complex bootstrap resampling leads to an even distribution of scores of randomly similar sequences to assess randomness of the observed sequence similarity. Testing performance on real data, both masking methods, GBLOCKS and ALISCORE, helped to improve tree resolution. The sliding window approach was less sensitive to different alignments of identical data sets and performed equally well on all data sets. Concurrently, ALISCORE is capable of dealing with different substitution patterns and heterogeneous base composition. ALISCORE and the most relaxed GBLOCKS gap parameter setting performed best on all data sets. Correspondingly, Neighbor-Net analyses showed the most decrease in conflict. Conclusions Alignment masking improves signal-to-noise ratio in multiple sequence alignments prior to phylogenetic reconstruction. Given the robust performance of alignment

  14. Controlled random sequences: methods of convex analysis and problems with functional constraints

    Science.gov (United States)

    Piunovskii, A. B.

    1998-12-01

    ContentsIntroduction § 1. Controlled random sequences: main definitions and traditional approaches § 1.1. Description of the mathematical model § 1.2. Models with integral functionals § 1.3. Homogeneous Markov decision processes with average cost criteria § 2. Application of methods of convex analysis § 2.1. Properties of the space \\mathcal D § 2.2. Existence of optimal policies § 2.3. Sufficiency of selectors § 2.4. Preliminary results. The notion of an occupation measure § 2.5. Markov decision processes with total cost criteria and occupation measures § 2.6. Discounted costs and the corresponding occupation measures § 2.7. Average costs and ergodic occupation measures § 3. Problems with functional constraints § 3.1. General results § 3.2. Preliminary conclusions § 3.3. Markov decision processes with total cost criteria § 3.4. Homogeneous Markov decision processes with discounting § 3.5. Homogeneous Markov decision processes with average cost criteria § 3.6. Other constrained problems, related topics, and future prospectsConclusionAppendix. Elements of convex analysis and measure theory Bibliography

  15. Estados de pseudo-Cushing

    OpenAIRE

    Romanholi, Daniella J.P.C.; SALGADO, Luiz Roberto

    2007-01-01

    Síndromes de pseudo-Cushing são um grupo heterogêneo de doenças, incluindo alcoolismo, anorexia nervosa, obesidade visceral e depressão, que compartilham muitas das características clínicas e bioquímicas da síndrome de Cushing. Os mecanismos responsáveis para a gênese da síndrome de pseudo-Cushing são fracamente compreendidos. Tem sido sugerido que o hipercortisolismo da síndrome de pseudo-Cushing pode ser resultante do aumento da secreção do hormônio liberador de corticotrofina (CRH) hipotal...

  16. Introduction to fractional and pseudo-differential equations with singular symbols

    CERN Document Server

    Umarov, Sabir

    2015-01-01

    The book systematically presents the theories of pseudo-differential operators with symbols singular in dual variables, fractional order derivatives, distributed and variable order fractional derivatives, random walk approximants, and applications of these theories to various initial and multi-point boundary value problems for pseudo-differential equations. Fractional Fokker-Planck-Kolmogorov equations associated with a large class of stochastic processes are presented. A complex version of the theory of pseudo-differential operators with meromorphic symbols based on the recently introduced complex Fourier transform is developed and applied for initial and boundary value problems for systems of complex differential and pseudo-differential equations.

  17. Two-Level Adaptive Algebraic Multigrid for a Sequence of Problems with Slowly Varying Random Coefficients [Adaptive Algebraic Multigrid for Sequence of Problems with Slowly Varying Random Coefficients

    Energy Technology Data Exchange (ETDEWEB)

    Kalchev, D. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Ketelsen, C. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Vassilevski, P. S. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2013-11-07

    Our paper proposes an adaptive strategy for reusing a previously constructed coarse space by algebraic multigrid to construct a two-level solver for a problem with nearby characteristics. Furthermore, a main target application is the solution of the linear problems that appear throughout a sequence of Markov chain Monte Carlo simulations of subsurface flow with uncertain permeability field. We demonstrate the efficacy of the method with extensive set of numerical experiments.

  18. Development and evaluation of a non-ribosomal random PCR and next-generation sequencing based assay for detection and sequencing of hand, foot and mouth disease pathogens.

    Science.gov (United States)

    Nguyen, Anh To; Tran, Thanh Tan; Hoang, Van Minh Tu; Nghiem, Ngoc My; Le, Nhu Nguyen Truc; Le, Thanh Thi My; Phan, Qui Tu; Truong, Khanh Huu; Le, Nhan Nguyen Thanh; Ho, Viet Lu; Do, Viet Chau; Ha, Tuan Manh; Nguyen, Hung Thanh; Nguyen, Chau Van Vinh; Thwaites, Guy; van Doorn, H Rogier; Le, Tan Van

    2016-07-07

    Hand, foot and mouth disease (HFMD) has become a major public health problem across the Asia-Pacific region, and is commonly caused by enterovirus A71 (EV-A71) and coxsackievirus A6 (CV-A6), CV-A10 and CV-A16. Generating pathogen whole-genome sequences is essential for understanding their evolutionary biology. The frequent replacements among EV serotypes and a limited numbers of available whole-genome sequences hinder the development of overlapping PCRs for whole-genome sequencing. We developed and evaluated a non-ribosomal random PCR (rPCR) and next-generation sequencing based assay for sequence-independent whole-genome amplification and sequencing of HFMD pathogens. A total of 16 EV-A71/CV-A6/CV-A10/CV-A16 PCR positive rectal/throat swabs (Cp values: 20.9-33.3) were used for assay evaluation. Our assay evidently outperformed the conventional rPCR in terms of the total number of EV-A71 reads and the percentage of EV-A71 reads: 2.6 % (1275/50,000 reads) vs. 0.1 % (31/50,000) and 6 % (3008/50,000) vs. 0.9 % (433/50,000) for two samples with Cp values of 30 and 26, respectively. Additionally the assay could generate genome sequences with the percentages of coverage of 94-100 % of 4 different enterovirus serotypes in 73 % of the tested samples, representing the first whole-genome sequences of CV-A6/10/16 from Vietnam, and could assign correctly serotyping results in 100 % of 24 tested specimens. In all but three the obtained consensuses of two replicates from the same sample were 100 % identical, suggesting that our assay is highly reproducible. In conclusion, we have successfully developed a non-ribosomal rPCR and next-generation sequencing based assay for sensitive detection and direct whole-genome sequencing of HFMD pathogens from clinical samples.

  19. Pseudo-Weak-R0 Algebras

    Directory of Open Access Journals (Sweden)

    Yong Lin Liu

    2014-01-01

    Full Text Available A positive answer to the open problem of Iorgulescu on extending weak-R0 algebras and R0-algebras to the noncommutative forms is given. We show that pseudo-weak-R0 algebras are categorically isomorphic to pseudo-IMTL algebras and that pseudo-R0 algebras are categorically isomorphic to pseudo-NM algebras. Some properties, the noncommutative forms of the properties in weak-R0 algebras and R0-algebras, are investigated. The simplified axiom systems of pseudo-weak-R0 algebras and pseudo-R0 algebras are obtained.

  20. Exending pseudo-arcs in odd characteristic

    OpenAIRE

    Penttila, Tim; Van de Voorde, Geertrui

    2015-01-01

    A {\\em pseudo-arc} in $\\mathrm{PG}(3n-1,q)$ is a set of $(n-1)$-spaces such that any three of them span the whole space. A pseudo-arc of size $q^n+1$ is a {\\em pseudo-oval}. If a pseudo-oval $\\mathcal{O}$ is obtained by applying field reduction to a conic in $\\mathrm{PG}(2,q^n)$, then $\\mathcal{O}$ is called a {\\em pseudo-conic}. We first explain the connection of (pseudo-)arcs with Laguerre planes, orthogonal arrays and generalised quadrangles. In particular, we prove that the Ahrens-Szekere...

  1. Protein Ordered Sequences are Formed by Random Joining of Amino Acids in Protein 0th-Order Structure, Followed by Evolutionary Process

    Science.gov (United States)

    Ikehara, Kenji

    2014-12-01

    Only random processes should occur on the primitive Earth. In contrast, many ordered sequences are synthesized according to genetic information on the present Earth. In this communication, I have proposed an idea that protein 0th-order structures or specific amino acid compositions would mediate the transfer from random process to formation of ordered sequences, after formation of double-stranded genes.

  2. A novel whole genome amplification method using type IIS restriction enzymes to create overhangs with random sequences.

    Science.gov (United States)

    Pan, Xiaoming; Wan, Baihui; Li, Chunchuan; Liu, Yu; Wang, Jing; Mou, Haijin; Liang, Xingguo

    2014-08-20

    Ligation-mediated polymerase chain reaction (LM-PCR) is a whole genome amplification (WGA) method, for which genomic DNA is cleaved into numerous fragments and then all of the fragments are amplified by PCR after attaching a universal end sequence. However, the self-ligation of these fragments could happen and may cause biased amplification and restriction of its application. To decrease the self-ligation probability, here we use type IIS restriction enzymes to digest genomic DNA into fragments with 4-5nt long overhangs with random sequences. After ligation to an adapter with random end sequences to above fragments, PCR is carried out and almost all present DNA sequences are amplified. In this study, whole genome of Vibrio parahaemolyticus was amplified and the amplification efficiency was evaluated by quantitative PCR. The results suggested that our approach could provide sufficient genomic DNA with good quality to meet requirements of various genetic analyses. Copyright © 2014. Published by Elsevier B.V.

  3. A Method for Large-Scale Screening of Random Sequence Libraries to Determine the Function of Unstructured Regions from Essential Proteins.

    Science.gov (United States)

    Millau, Jean-François; Guillemette, Benoit; Gaudreau, Luc

    2017-01-01

    In this chapter we present a method allowing the screening of random sequences to discover essential aspects of unstructured protein regions in yeast. The approach can be applied to any protein with unstructured peptide sequences for which functions are difficult to decipher, for example the N-terminal tails of histones. The protocol first describes the building and preparation of a large library of random peptides in fusion with a protein of interest. Recent technical advances in oligonucleotide synthesis allow the construction of long random sequences up to 35 residues long. The protocol details the screening of the library in yeast for sequences that can functionally replace an unstructured domain in an essential protein in vivo. Our method typically identifies sequences that, while being totally different from the wild type, retain essential features allowing yeast to live. This collection of proteins with functional synthetic sequences can subsequently be used in phenotypic tests or genetic screens in order to discover genetic interaction.

  4. Random Tagging Genotyping by Sequencing (rtGBS, an Unbiased Approach to Locate Restriction Enzyme Sites across the Target Genome.

    Directory of Open Access Journals (Sweden)

    Elena Hilario

    Full Text Available Genotyping by sequencing (GBS is a restriction enzyme based targeted approach developed to reduce the genome complexity and discover genetic markers when a priori sequence information is unavailable. Sufficient coverage at each locus is essential to distinguish heterozygous from homozygous sites accurately. The number of GBS samples able to be pooled in one sequencing lane is limited by the number of restriction sites present in the genome and the read depth required at each site per sample for accurate calling of single-nucleotide polymorphisms. Loci bias was observed using a slight modification of the Elshire et al.some restriction enzyme sites were represented in higher proportions while others were poorly represented or absent. This bias could be due to the quality of genomic DNA, the endonuclease and ligase reaction efficiency, the distance between restriction sites, the preferential amplification of small library restriction fragments, or bias towards cluster formation of small amplicons during the sequencing process. To overcome these issues, we have developed a GBS method based on randomly tagging genomic DNA (rtGBS. By randomly landing on the genome, we can, with less bias, find restriction sites that are far apart, and undetected by the standard GBS (stdGBS method. The study comprises two types of biological replicates: six different kiwifruit plants and two independent DNA extractions per plant; and three types of technical replicates: four samples of each DNA extraction, stdGBS vs. rtGBS methods, and two independent library amplifications, each sequenced in separate lanes. A statistically significant unbiased distribution of restriction fragment size by rtGBS showed that this method targeted 49% (39,145 of BamH I sites shared with the reference genome, compared to only 14% (11,513 by stdGBS.

  5. Pseudo-Reference-Based Assembly of Vertebrate Transcriptomes

    Directory of Open Access Journals (Sweden)

    Kyoungwoo Nam

    2016-02-01

    Full Text Available High-throughput RNA sequencing (RNA-seq provides a comprehensive picture of the transcriptome, including the identity, structure, quantity, and variability of expressed transcripts in cells, through the assembly of sequenced short RNA-seq reads. Although the reference-based approach guarantees the high quality of the resulting transcriptome, this approach is only applicable when the relevant reference genome is present. Here, we developed a pseudo-reference-based assembly (PRA that reconstructs a transcriptome based on a linear regression function of the optimized mapping parameters and genetic distances of the closest species. Using the linear model, we reconstructed transcriptomes of four different aves, the white leg horn, turkey, duck, and zebra finch, with the Gallus gallus genome as a pseudo-reference, and of three primates, the chimpanzee, gorilla, and macaque, with the human genome as a pseudo-reference. The resulting transcriptomes show that the PRAs outperformed the de novo approach for species with within about 10% mutation rate among orthologous transcriptomes, enough to cover distantly related species as far as chicken and duck. Taken together, we suggest that the PRA method can be used as a tool for reconstructing transcriptome maps of vertebrates whose genomes have not yet been sequenced.

  6. KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily

    DEFF Research Database (Denmark)

    Pons, Tirso; Vazquez, Miguel; Matey-Hernandez, María Luisa

    2016-01-01

    remains challenging: cells tolerate most genomic alterations and only a minor fraction disrupt molecular function sufficiently and drive disease. Results: KinMutRF is a novel random-forest method to automatically identify pathogenic variants in human kinases. Twenty six decision trees implemented......Background: The association between aberrant signal processing by protein kinases and human diseases such as cancer was established long time ago. However, understanding the link between sequence variants in the protein kinase superfamily and the mechanistic complex traits at the molecular level...... as a random forest ponder a battery of features that characterize the variants: a) at the gene level, including membership to a Kinbase group and Gene Ontology terms; b) at the PFAM domain level; and c) at the residue level, the types of amino acids involved, changes in biochemical properties, functional...

  7. A specific brushing sequence and plaque removal efficacy : a randomized split-mouth design

    NARCIS (Netherlands)

    van der Sluijs, E.; Slot, D.E.; Hennequin-Hoenderdos, N.L.; van der Weijden, G.A.

    2018-01-01

    Aim: It has been propagated by the dental care professionals to start toothbrushing the lingual aspect of teeth first. In general, it is assumed that these surfaces of teeth are more difficult to clean. The evidence to support this recommendation is sparse. Method: In this randomized controlled

  8. Exact distribution of a pattern in a set of random sequences generated by a Markov source: applications to biological data

    Directory of Open Access Journals (Sweden)

    Regad Leslie

    2010-01-01

    Full Text Available Abstract Background In bioinformatics it is common to search for a pattern of interest in a potentially large set of rather short sequences (upstream gene regions, proteins, exons, etc.. Although many methodological approaches allow practitioners to compute the distribution of a pattern count in a random sequence generated by a Markov source, no specific developments have taken into account the counting of occurrences in a set of independent sequences. We aim to address this problem by deriving efficient approaches and algorithms to perform these computations both for low and high complexity patterns in the framework of homogeneous or heterogeneous Markov models. Results The latest advances in the field allowed us to use a technique of optimal Markov chain embedding based on deterministic finite automata to introduce three innovative algorithms. Algorithm 1 is the only one able to deal with heterogeneous models. It also permits to avoid any product of convolution of the pattern distribution in individual sequences. When working with homogeneous models, Algorithm 2 yields a dramatic reduction in the complexity by taking advantage of previous computations to obtain moment generating functions efficiently. In the particular case of low or moderate complexity patterns, Algorithm 3 exploits power computation and binary decomposition to further reduce the time complexity to a logarithmic scale. All these algorithms and their relative interest in comparison with existing ones were then tested and discussed on a toy-example and three biological data sets: structural patterns in protein loop structures, PROSITE signatures in a bacterial proteome, and transcription factors in upstream gene regions. On these data sets, we also compared our exact approaches to the tempting approximation that consists in concatenating the sequences in the data set into a single sequence. Conclusions Our algorithms prove to be effective and able to handle real data sets with

  9. Exact distribution of a pattern in a set of random sequences generated by a Markov source: applications to biological data

    Science.gov (United States)

    2010-01-01

    Background In bioinformatics it is common to search for a pattern of interest in a potentially large set of rather short sequences (upstream gene regions, proteins, exons, etc.). Although many methodological approaches allow practitioners to compute the distribution of a pattern count in a random sequence generated by a Markov source, no specific developments have taken into account the counting of occurrences in a set of independent sequences. We aim to address this problem by deriving efficient approaches and algorithms to perform these computations both for low and high complexity patterns in the framework of homogeneous or heterogeneous Markov models. Results The latest advances in the field allowed us to use a technique of optimal Markov chain embedding based on deterministic finite automata to introduce three innovative algorithms. Algorithm 1 is the only one able to deal with heterogeneous models. It also permits to avoid any product of convolution of the pattern distribution in individual sequences. When working with homogeneous models, Algorithm 2 yields a dramatic reduction in the complexity by taking advantage of previous computations to obtain moment generating functions efficiently. In the particular case of low or moderate complexity patterns, Algorithm 3 exploits power computation and binary decomposition to further reduce the time complexity to a logarithmic scale. All these algorithms and their relative interest in comparison with existing ones were then tested and discussed on a toy-example and three biological data sets: structural patterns in protein loop structures, PROSITE signatures in a bacterial proteome, and transcription factors in upstream gene regions. On these data sets, we also compared our exact approaches to the tempting approximation that consists in concatenating the sequences in the data set into a single sequence. Conclusions Our algorithms prove to be effective and able to handle real data sets with multiple sequences, as well

  10. Genetic alterations of hepatocellular carcinoma by random amplified polymorphic DNA analysis and cloning sequencing of tumor differential DNA fragment

    Science.gov (United States)

    Xian, Zhi-Hong; Cong, Wen-Ming; Zhang, Shu-Hui; Wu, Meng-Chao

    2005-01-01

    AIM: To study the genetic alterations and their association with clinicopathological characteristics of hepatocellular carcinoma (HCC), and to find the tumor related DNA fragments. METHODS: DNA isolated from tumors and corresponding noncancerous liver tissues of 56 HCC patients was amplified by random amplified polymorphic DNA (RAPD) with 10 random 10-mer arbitrary primers. The RAPD bands showing obvious differences in tumor tissue DNA corresponding to that of normal tissue were separated, purified, cloned and sequenced. DNA sequences were analyzed and compared with GenBank data. RESULTS: A total of 56 cases of HCC were demonstrated to have genetic alterations, which were detected by at least one primer. The detestability of genetic alterations ranged from 20% to 70% in each case, and 17.9% to 50% in each primer. Serum HBV infection, tumor size, histological grade, tumor capsule, as well as tumor intrahepatic metastasis, might be correlated with genetic alterations on certain primers. A band with a higher intensity of 480 bp or so amplified fragments in tumor DNA relative to normal DNA could be seen in 27 of 56 tumor samples using primer 4. Sequence analysis of these fragments showed 91% homology with Homo sapiens double homeobox protein DUX10 gene. CONCLUSION: Genetic alterations are a frequent event in HCC, and tumor related DNA fragments have been found in this study, which may be associated with hepatocarcin-ogenesis. RAPD is an effective method for the identification and analysis of genetic alterations in HCC, and may provide new information for further evaluating the molecular mechanism of hepatocarcinogenesis. PMID:15996039

  11. Pseudo-complex general relativity

    CERN Document Server

    Hess, Peter O; Greiner, Walter

    2016-01-01

    This volume presents an pseudo-complex extension of General Relativity which addresses these issues and presents proposals for experimental examinations in strong fields near a large mass. General Relativity is a beautiful and well tested theory of gravitation. Nevertheless, it implies conceptual problems like the creation of singularities (Black Holes) as a result of the collapse of large masses, or the appearance of event horizons which exclude parts of the space-time from the observation of external observers. The mathematical and geometrical foundations of this extension are displayed in detail, and applications including orbits and accretion disks around large central masses, neutron stars or cosmological models are introduced. Calculations both for classical and extended applications are often executed in the form of problems with extensive solutions, which makes this volume also a valuable resource for any student of General Relativity.

  12. Acroangiodermatitis (Pseudo-Kaposi sarcoma

    Directory of Open Access Journals (Sweden)

    Satyendra Kumar Singh

    2014-01-01

    Full Text Available Acroangiodermatitis or Pseudo-Kaposi sarcoma is a rare angioproliferative entity, related to chronic venous insufficiency or certain other vascular anomalies. It is often associated with chronic venous insufficiency, arteriovenous malformation of the legs, chronic renal failure treated with dialysis, paralyzed legs and amputation stumps. We hereby describe a case of 45 year old female presenting with pitting pedal edema, multiple ulcers over bilateral lower limbs with irregular margins with erythema and hyperpigmentation of the surrounding skin. Color Doppler study of bilateral lower limbs was normal. Histopathological examination from one of the lesions showed hyperplastic epidermis, proliferation of capillaries in dermis, hemosiderin deposits and lymphocytic infiltrate. These features thus confirmed the diagnosis of Acroangiodermatitis.

  13. Superconducting states in pseudo-Landau-levels of strained graphene.

    Science.gov (United States)

    Uchoa, Bruno; Barlas, Yafis

    2013-07-26

    We describe the formation of superconducting states in graphene in the presence of pseudo-Landau-levels induced by strain, when time reversal symmetry is preserved. We show that superconductivity in strained graphene is quantum critical when the pseudo-Landau-levels are completely filled, whereas at partial fillings superconductivity survives at weak coupling. In the weak coupling limit, the critical temperature scales linearly with the coupling strength and shows a sequence of quantum critical points as a function of the filling factor that can be accessed experimentally. We argue that superconductivity can be induced by electron-phonon coupling and that the transition temperature can be controlled with the amount of strain and with the filling fraction of the Landau levels.

  14. POPULATION DYNAMICS OF PSEUDO-NITZSCHIA SPECIES ...

    African Journals Online (AJOL)

    nb

    ABSTRACT. The genus Pseudo-nitzschia is a chain-forming diatom comprising about 30 species some of which are known to produce domoic acid (DA) that causes amnesic shellfish poisoning (ASP). The current study aimed at assessing the population dynamics of Pseudo-nitzschia in the near shore waters of Dar es ...

  15. Population dynamics of Pseudo-nitzschia species ...

    African Journals Online (AJOL)

    The genus Pseudo-nitzschia is a chain-forming diatom comprising about 30 species some of which are known to produce domoic acid (DA) that causes amnesic shellfish poisoning (ASP). The current study aimed at assessing the population dynamics of Pseudo-nitzschia in the near shore waters of Dar es Salaam. Samples ...

  16. Subadditive functions and their (pseudo-)inverses

    DEFF Research Database (Denmark)

    Østerdal, Lars Peter

    2006-01-01

    The paper considers non-negative increasing functions on intervals with left endpoint closed at zero and investigates the duality between subadditivity and superadditivity via the inverse function and pseudo-inverses......The paper considers non-negative increasing functions on intervals with left endpoint closed at zero and investigates the duality between subadditivity and superadditivity via the inverse function and pseudo-inverses...

  17. Genotypic detection of rifampicin and isoniazid resistant Mycobacterium tuberculosis strains by DNA sequencing: a randomized trial

    Directory of Open Access Journals (Sweden)

    El mashad Noha

    2009-01-01

    Full Text Available Abstract Background Tuberculosis is a growing international health concern. It is the biggest killer among the infectious diseases in the world today. Early detection of drug resistance allows starting of an appropriate treatment. Resistance to drugs is due to particular genomic mutations in specific genes of Mycobacterium tuberculosis(MTB. The aim of this study was to identify the presence of Isoniazid (INH and Rifampicin(RIF drug resistance in new and previously treated tuberculosis (TB cases using DNA sequencing. Methods This study was carried out on 153 tuberculous patients with positive Bactec 460 culture for acid fast bacilli. Results Of the 153 patients, 105 (68.6% were new cases and 48 (31.4% were previously treated cases. Drug susceptibility testing on Bactec revealed 50 resistant cases for one or more of the first line antituberculous. Genotypic analysis was done only for rifampicin resistant specimens (23 cases and INH resistant specimens (26 cases to detect mutations responsible for drug resistance by PCR amplification of rpoB gene for rifampicin resistant cases and KatG gene for isoniazid resistant cases. Finally, DNA sequencing was done for detection of mutation within rpoB and KatG genes. Genotypic analysis of RIF resistant cases revealed that 20/23 cases (86.9% of RIF resistance were having rpoB gene mutation versus 3 cases (13.1% having no mutation with a high statistical significant difference between them (P Conclusion We can conclude that rifampicin resistance could be used as a useful surrogate marker for estimation of multidrug resistance. In addition, Genotypic method was superior to that of the traditional phenotypic method which is time-consuming taking several weeks or longer.

  18. Folded Proteins Occur Frequently in Libraries of Random Amino Acid Sequences

    Science.gov (United States)

    Davidson, Alan R.; Sauer, Robert T.

    1994-03-01

    A library of synthetic genes encoding 80- to 100-residue proteins composed mainly of random combinations of glutamine (Q), leucine (L), and arginine (R) has been expressed in Escherichia coli. These genes also encode an epitope tag and six carboxyl-terminal histidines. Screening of this library by immunoblotting showed that 5% of these QLR proteins are expressed at readily detectable levels. Three well-expressed QLR proteins were purified and characterized. Each of these proteins has significant α-helical content, is largely resistant to degradation by Pronase, and has a distinct oligomeric structure. In addition, one protein unfolds in a highly cooperative manner. These properties of the QLR proteins demonstrate that they possess folded structures with some native-like properties. The QLR proteins differ from most natural proteins, however, in being remarkably resistant to denaturant-induced and thermal-induced unfolding and in being relatively insoluble in the absence of denaturants.

  19. Fire detection system using random forest classification for image sequences of complex background

    Science.gov (United States)

    Kim, Onecue; Kang, Dong-Joong

    2013-06-01

    We present a fire alarm system based on image processing that detects fire accidents in various environments. To reduce false alarms that frequently appeared in earlier systems, we combined image features including color, motion, and blinking information. We specifically define the color conditions of fires in hue, saturation and value, and RGB color space. Fire features are represented as intensity variation, color mean and variance, motion, and image differences. Moreover, blinking fire features are modeled by using crossing patches. We propose an algorithm that classifies patches into fire or nonfire areas by using random forest supervised learning. We design an embedded surveillance device made with acrylonitrile butadiene styrene housing for stable fire detection in outdoor environments. The experimental results show that our algorithm works robustly in complex environments and is able to detect fires in real time.

  20. The sequencing of adverbial clauses of time in academic English: Random forest modelling

    Directory of Open Access Journals (Sweden)

    Abbas Ali Rezaee

    2016-12-01

    Full Text Available Adverbial clauses of time are positioned either before or after their associated main clauses. This study aims to assess the importance of discourse-pragmatics and processing-related constraints on the positioning of adverbial clauses of time in research articles of applied linguistics written by authors for whom English is considered a native language. Previous research has revealed that the ordering is co-determined by various factors from the domains of semantics and discourse-pragmatics (bridging, iconicity, and subordinator and language processing (deranking, length, and complexity. This research conducts a multifactorial analysis on the motivators of the positioning of adverbial clauses of time in 100 research articles of applied linguistics. The study will use a random forest of conditional inference trees as the statistical technique to measure the weights of the aforementioned variables. It was found that iconicity and bridging, which are factors associated with discourse and semantics, are the two most salient predictors of clause ordering.

  1. Probability distribution of intersymbol distances in random symbolic sequences: Applications to improving detection of keywords in texts and of amino acid clustering in proteins.

    Science.gov (United States)

    Carpena, Pedro; Bernaola-Galván, Pedro A; Carretero-Campos, Concepción; Coronado, Ana V

    2016-11-01

    Symbolic sequences have been extensively investigated in the past few years within the framework of statistical physics. Paradigmatic examples of such sequences are written texts, and deoxyribonucleic acid (DNA) and protein sequences. In these examples, the spatial distribution of a given symbol (a word, a DNA motif, an amino acid) is a key property usually related to the symbol importance in the sequence: The more uneven and far from random the symbol distribution, the higher the relevance of the symbol to the sequence. Thus, many techniques of analysis measure in some way the deviation of the symbol spatial distribution with respect to the random expectation. The problem is then to know the spatial distribution corresponding to randomness, which is typically considered to be either the geometric or the exponential distribution. However, these distributions are only valid for very large symbolic sequences and for many occurrences of the analyzed symbol. Here, we obtain analytically the exact, randomly expected spatial distribution valid for any sequence length and any symbol frequency, and we study its main properties. The knowledge of the distribution allows us to define a measure able to properly quantify the deviation from randomness of the symbol distribution, especially for short sequences and low symbol frequency. We apply the measure to the problem of keyword detection in written texts and to study amino acid clustering in protein sequences. In texts, we show how the results improve with respect to previous methods when short texts are analyzed. In proteins, which are typically short, we show how the measure quantifies unambiguously the amino acid clustering and characterize its spatial distribution.

  2. Molecular Analysis of Date Palm Genetic Diversity Using Random Amplified Polymorphic DNA (RAPD) and Inter-Simple Sequence Repeats (ISSRs).

    Science.gov (United States)

    El Sharabasy, Sherif F; Soliman, Khaled A

    2017-01-01

    The date palm is an ancient domesticated plant with great diversity and has been cultivated in the Middle East and North Africa for at last 5000 years. Date palm cultivars are classified based on the fruit moisture content, as dry, semidry, and soft dates. There are a number of biochemical and molecular techniques available for characterization of the date palm variation. This chapter focuses on the DNA-based markers random amplified polymorphic DNA (RAPD) and inter-simple sequence repeats (ISSR) techniques, in addition to biochemical markers based on isozyme analysis. These techniques coupled with appropriate statistical tools proved useful for determining phylogenetic relationships among date palm cultivars and provide information resources for date palm gene banks.

  3. Cooperation of deterministic dynamics and random noise in production of complex syntactical avian song sequences: a neural network model

    Directory of Open Access Journals (Sweden)

    Yuichi eYamashita

    2011-04-01

    Full Text Available How the brain learns and generates temporal sequences is a fundamental issue in neuroscience. The production of birdsongs, a process which involves complex learned sequences, provides researchers with an excellent biological model for this topic. The Bengalese finch in particular learns a highly complex song with syntactical structure. The nucleus HVC (HVC, a premotor nucleus within the avian song system, plays a key role in generating the temporal structures of their songs. From lesion studies, the nucleus interfacialis (NIf projecting to the HVC is considered one of the essential regions that contribute to the complexity of their songs. However, the types of interaction between the HVC and the NIf that can produce complex syntactical songs remain unclear. In order to investigate the function of interactions between the HVC and NIf, we have proposed a neural network model based on previous biological evidence. The HVC is modeled by a recurrent neural network (RNN that learns to generate temporal patterns of songs. The NIf is modeled as a mechanism that provides auditory feedback to the HVC and generates random noise that feeds into the HVC. The model showed that complex syntactical songs can be replicated by simple interactions between deterministic dynamics of the RNN and random noise. In the current study, the plausibility of the model is tested by the comparison between the changes in the songs of actual birds induced by pharmacological inhibition of the NIf and the changes in the songs produced by the model resulting from modification of parameters representing NIf functions. The efficacy of the model demonstrates that the changes of songs induced by pharmacological inhibition of the NIf can be interpreted as a trade-off between the effects of noise and the effects of feedback on the dynamics of the RNN of the HVC. These facts suggest that the current model provides a convincing hypothesis for the functional role of NIf-HVC interaction.

  4. Sequence-Based Prediction of RNA-Binding Proteins Using Random Forest with Minimum Redundancy Maximum Relevance Feature Selection

    Directory of Open Access Journals (Sweden)

    Xin Ma

    2015-01-01

    Full Text Available The prediction of RNA-binding proteins is one of the most challenging problems in computation biology. Although some studies have investigated this problem, the accuracy of prediction is still not sufficient. In this study, a highly accurate method was developed to predict RNA-binding proteins from amino acid sequences using random forests with the minimum redundancy maximum relevance (mRMR method, followed by incremental feature selection (IFS. We incorporated features of conjoint triad features and three novel features: binding propensity (BP, nonbinding propensity (NBP, and evolutionary information combined with physicochemical properties (EIPP. The results showed that these novel features have important roles in improving the performance of the predictor. Using the mRMR-IFS method, our predictor achieved the best performance (86.62% accuracy and 0.737 Matthews correlation coefficient. High prediction accuracy and successful prediction performance suggested that our method can be a useful approach to identify RNA-binding proteins from sequence information.

  5. Pseudo-Haptic Feedback in Teleoperation.

    Science.gov (United States)

    Neupert, Carsten; Matich, Sebastian; Scherping, Nick; Kupnik, Mario; Werthschutzky, Roland; Hatzfeld, Christian

    2016-01-01

    In this paper, we develop possible realizations of pseudo-haptic feedback in teleoperation systems based on existing works for pseudo-haptic feedback in virtual reality and the intended applications. We derive four potential factors affecting the performance of haptic feedback (calculation operator, maximum displacement, offset force, and scaling factor), which are analyzed in three compliance identification experiments. First, we analyze the principle usability of pseudo-haptic feedback by comparing information transfer measures for teleoperation and direct interaction. Pseudo-haptic interaction yields well above-chance performance, while direct interaction performs almost perfectly. In order to optimize pseudo-haptic feedback, in the second study we perform a full-factorial experimental design with 36 subjects performing 6,480 trials with 36 different treatments. Information transfer ranges from 0.68 bit to 1.72 bit in a task with a theoretical maximum of 2.6 bit, with a predominant effect of the calculation operator and a minor effect of the maximum displacement. In a third study, short- and long-term learning effects are analyzed. Learning effects regarding the performance of pseudo-haptic feedback cannot be observed for single-day experiments. Tests over 10 days show a maximum increase in information transfer of 0.8 bit. The results show the feasibility of pseudo-haptic feedback for teleoperation and can be used as design basis for task-specific systems.

  6. Automatic sequences

    CERN Document Server

    Haeseler, Friedrich

    2003-01-01

    Automatic sequences are sequences which are produced by a finite automaton. Although they are not random they may look as being random. They are complicated, in the sense of not being not ultimately periodic, they may look rather complicated, in the sense that it may not be easy to name the rule by which the sequence is generated, however there exists a rule which generates the sequence. The concept automatic sequences has special applications in algebra, number theory, finite automata and formal languages, combinatorics on words. The text deals with different aspects of automatic sequences, in particular:· a general introduction to automatic sequences· the basic (combinatorial) properties of automatic sequences· the algebraic approach to automatic sequences· geometric objects related to automatic sequences.

  7. Families of quasi-pseudo-metrics generated by probabilistic quasi-pseudo-metric spaces

    Directory of Open Access Journals (Sweden)

    Mariusz T. Grabiec

    2008-03-01

    Full Text Available This paper contains a study of families of quasi-pseudo-metrics (the concept of a quasi-pseudo-metric was introduced by Wilson (1931 , Albert (1941 and Kelly (1963 generated by probabilistic quasi-pseudo-metric-spaces which are generalization of probabilistic metric space (PM-space shortly [2, 3, 4, 6]. The idea of PM-spaces was introduced by Menger (1942, 1951, Schweizer and Sklar (1983 and Serstnev (1965. Families of pseudo-metrics generated by PM-spaces and those generalizing PM-spaces have been described by Stevens (1968 and Nishiure (1970.

  8. Difference in muscle activation patterns during high-speed versus standard-speed yoga: A randomized sequence crossover study.

    Science.gov (United States)

    Potiaumpai, Melanie; Martins, Maria Carolina Massoni; Wong, Claudia; Desai, Trusha; Rodriguez, Roberto; Mooney, Kiersten; Signorile, Joseph F

    2017-02-01

    To compare the difference in muscle activation between high-speed yoga and standard-speed yoga and to compare muscle activation of the transitions between poses and the held phases of a yoga pose. Randomized sequence crossover trial SETTING: A laboratory of neuromuscular research and active aging Interventions: Eight minutes of continuous Sun Salutation B was performed, at a high speed versus a standard-speed, separately. Electromyography was used to quantify normalized muscle activation patterns of eight upper and lower body muscles (pectoralis major, medial deltoids, lateral head of the triceps, middle fibers of the trapezius, vastus medialis, medial gastrocnemius, thoracic extensor spinae, and external obliques) during the high-speed and standard-speed yoga protocols. Difference in normalized muscle activation between high-speed yoga and standard-speed yoga. Normalized muscle activity signals were significantly higher in all eight muscles during the transition phases of poses compared to the held phases (pyoga across the entire session. Our results show that transitions from one held phase of a pose to another produces higher normalized muscle activity than the held phases of the poses and that overall activity is greater during highspeed yoga than standard-speed yoga. Therefore, the transition speed and associated number of poses should be considered when targeting specific improvements in performance. Copyright © 2016 Elsevier Ltd. All rights reserved.

  9. Pseudo-capacitor device for aqueous electrolytes

    Science.gov (United States)

    Prakash, J.; Thackeray, M.M.; Dees, D.W.; Vissers, D.R.; Myles, K.M.

    1998-11-24

    A pseudo-capacitor having a high energy storage capacity develops a double layer capacitance as well as a Faradaic or battery-like redox reaction, also referred to as pseudo-capacitance. The Faradaic reaction gives rise to a capacitance much greater than that of the typical ruthenate oxide ultracapacitor which develops only charge separation-based double layer capacitance. The capacitor employs a lead and/or bismuth/ruthenate and/or iridium system having the formula A{sub 2}[B{sub 2{minus}x}Pb{sub x}]O{sub 7{minus}y}, where A=Pb, Bi, and B=Ru, Ir, and Opseudo-capacitance, affords high energy/power density in the pseudo-capacitor. The amount of expensive ruthenate and iridium can be substantially reduced in the pseudo-capacitor by increasing the lead content while improving energy storage capacity. 8 figs.

  10. Aerodynamics of the pseudo-glottis.

    Science.gov (United States)

    Kotby, M N; Hegazi, M A; Kamal, I; Gamal El Dien, N; Nassar, J

    2009-01-01

    The aim of this work is to study the hitherto unclear aerodynamic parameters of the pseudo-glottis following total laryngectomy. These parameters include airflow rate, sub-pseudo-glottic pressure (SubPsG), efficiency and resistance, as well as sound pressure level (SPL). Eighteen male patients who have undergone total laryngectomy, with an age range from 54 to 72 years, were investigated in this study. All tested patients were fluent esophageal 'voice' speakers utilizing tracheo-esophageal prosthesis. The airflow rate, SubPsG and SPL were measured. The results showed that the mean value of the airflow rate was 53 ml/s, the SubPsG pressure was 13 cm H(2)O, while the SPL was 66 dB. The normative data obtained from the true glottis in healthy age-matched subjects are 89 ml/s, 7.9 cm H(2)O and 70 dB, respectively. Other aerodynamic indices were calculated and compared to the data obtained from the true glottis. Such a comparison of the pseudo-glottic aerodynamic data to the data of the true glottis gives an insight into the mechanism of action of the pseudo-glottis. The data obtained suggests possible clinical applications in pseudo-voice training. Copyright 2009 S. Karger AG, Basel.

  11. SEARCHING FOR LOW WEIGHT PSEUDO-CODEWORDS

    Energy Technology Data Exchange (ETDEWEB)

    CHERTKOV, MICHAEL [Los Alamos National Laboratory; STEPANOV, MIKHAIL [Los Alamos National Laboratory

    2007-01-23

    Belief Propagation (BP) and Linear Programming (LP) decodings of LDPC codes are discussed. The authors summarize results of instanton/pseudo-codeword approach developed for analysis of the error-floor domain of the codes. Instantons are special, code and decoding specific, configurations of the channel noise contributing most to the Frame-Error-Rate (FER). Instantons are decoded into pseudo-codewords. Instanton/pseudo-codeword with the lowest weight describes the largest Signal-to-Noise-Ratio (SNR) asymptotic of FER, while the whole spectra of the low weight instantons is descriptive of the FER vs. SNR profile in the extended error-floor domain. First, they describe a general optimization method that allows to find the instantons for any coding/decoding. Second, they introduce LP-specific pseudo-codeword search algorithm that allows efficient calculations of the pseudo-codeword spectra. Finally, they discuss results of combined BP/LP error-floor exploration experiments for two mode codes.

  12. KinMutRF: a random forest classifier of sequence variants in the human protein kinase superfamily.

    Science.gov (United States)

    Pons, Tirso; Vazquez, Miguel; Matey-Hernandez, María Luisa; Brunak, Søren; Valencia, Alfonso; Izarzugaza, Jose Mg

    2016-06-23

    The association between aberrant signal processing by protein kinases and human diseases such as cancer was established long time ago. However, understanding the link between sequence variants in the protein kinase superfamily and the mechanistic complex traits at the molecular level remains challenging: cells tolerate most genomic alterations and only a minor fraction disrupt molecular function sufficiently and drive disease. KinMutRF is a novel random-forest method to automatically identify pathogenic variants in human kinases. Twenty six decision trees implemented as a random forest ponder a battery of features that characterize the variants: a) at the gene level, including membership to a Kinbase group and Gene Ontology terms; b) at the PFAM domain level; and c) at the residue level, the types of amino acids involved, changes in biochemical properties, functional annotations from UniProt, Phospho.ELM and FireDB. KinMutRF identifies disease-associated variants satisfactorily (Acc: 0.88, Prec:0.82, Rec:0.75, F-score:0.78, MCC:0.68) when trained and cross-validated with the 3689 human kinase variants from UniProt that have been annotated as neutral or pathogenic. All unclassified variants were excluded from the training set. Furthermore, KinMutRF is discussed with respect to two independent kinase-specific sets of mutations no included in the training and testing, Kin-Driver (643 variants) and Pon-BTK (1495 variants). Moreover, we provide predictions for the 848 protein kinase variants in UniProt that remained unclassified. A public implementation of KinMutRF, including documentation and examples, is available online ( http://kinmut2.bioinfo.cnio.es ). The source code for local installation is released under a GPL version 3 license, and can be downloaded from https://github.com/Rbbt-Workflows/KinMut2 . KinMutRF is capable of classifying kinase variation with good performance. Predictions by KinMutRF compare favorably in a benchmark with other state

  13. Potential for Increasing Soil Nutrient Availability via Soil Organic Matter Improvement Using Pseudo Panel Data

    NARCIS (Netherlands)

    Chavez Clemente, M.D.; Berentsen, P.B.M.; Oenema, O.; Oude Lansink, A.G.J.M.

    2014-01-01

    Fixed and random effect models were applied to a pseudo-panel data built of soil analysis reports from tobacco farms to analyze relationships between soil characteristics like soil organic matter (SOM) and soil nitrogen (N), phosphorous (P) and potassium (K) and to explore the potential for

  14. Pseudo exchange bias due to rotational anisotropy

    Energy Technology Data Exchange (ETDEWEB)

    Ehrmann, A., E-mail: andrea.ehrmann@fh-bielefeld.de [Faculty of Engineering and Mathematics, Bielefeld University of Applied Sciences, 33619 Bielefeld (Germany); Komraus, S.; Blachowicz, T.; Domino, K. [Institute of Physics – Center for Science and Education, Silesian University of Technology, 44-100 Gliwice (Poland); Nees, M.K.; Jakobs, P.J.; Leiste, H. [Karlsruhe Nano Micro Facility (KNMF), Karlsruhe Institute of Technology (KIT), 76344 Eggenstein-Leopoldshafen (Germany); Mathes, M.; Schaarschmidt, M. [ACCESS e. V., 57072 Aachen (Germany)

    2016-08-15

    Ferromagnetic nanostructure arrays with particle dimensions between 160 nm and 400 nm were created by electron-beam lithography. The permalloy structures consist of rectangular-shaped walls around a square open space. While measuring their magnetic properties using the Magneto-Optical Kerr Effect (MOKE), in some angular regions an exchange bias (EB) seemed to appear. This paper gives an overview of possible reasons for this “pseudo exchange bias” and shows experimentally and by means of micromagnetic simulations that this effect can be attributed to unintentionally measuring minor loops. - Highlights: • Pseudo exchange bias can be found in square Py nanorings of different dimensions. • Pseudo exchange bias stems from unintentionally measuring minor loops. • New approach in explaining “real” exchange bias effect in coupled FM/AFM systems. • Theoretical base to explain other measurements of a rotational anisotropy.

  15. Web Platform vs In-Person Genetic Counselor for Return of Carrier Results From Exome Sequencing: A Randomized Clinical Trial.

    Science.gov (United States)

    Biesecker, Barbara B; Lewis, Katie L; Umstead, Kendall L; Johnston, Jennifer J; Turbitt, Erin; Fishler, Kristen P; Patton, John H; Miller, Ilana M; Heidlebaugh, Alexis R; Biesecker, Leslie G

    2018-01-22

    A critical bottleneck in clinical genomics is the mismatch between large volumes of results and the availability of knowledgeable professionals to return them. To test whether a web-based platform is noninferior to a genetic counselor for educating patients about their carrier results from exome sequencing. A randomized noninferiority trial conducted in a longitudinal sequencing cohort at the National Institutes of Health from February 5, 2014, to December 16, 2016, was used to compare the web-based platform with a genetic counselor. Among the 571 eligible participants, 1 to 7 heterozygous variants were identified in genes that cause a phenotype that is recessively inherited. Surveys were administered after cohort enrollment, immediately following trial education, and 1 month and 6 months later to primarily healthy postreproductive participants who expressed interest in learning their carrier results. Both intention-to-treat and per-protocol analyses were applied. A web-based platform that integrated education on carrier results with personal test results was designed to directly parallel disclosure education by a genetic counselor. The sessions took a mean (SD) time of 21 (10.6), and 27 (9.3) minutes, respectively. The primary outcomes and noninferiority margins (δNI) were knowledge (0 to 8, δNI = -1), test-specific distress (0 to 30, δNI = +1), and decisional conflict (15 to 75, δNI = +6). After 462 participants (80.9%) provided consent and were randomized, all but 3 participants (n = 459) completed surveys following education and counseling; 398 (86.1%) completed 1-month surveys and 392 (84.8%) completed 6-month surveys. Participants were predominantly well-educated, non-Hispanic white, married parents; mean (SD) age was 63 (63.1) years and 246 (53.6%) were men. The web platform was noninferior to the genetic counselor on outcomes assessed at 1 and 6 months: knowledge (mean group difference, -0.18; lower limit of 97.5% CI, -0.63;

  16. The optimal sequence for bronchial brushing and forceps biopsy in lung cancer diagnosis: a random control study.

    Science.gov (United States)

    Hou, Gang; Miao, Yuan; Hu, Xue-Jun; Wang, Wei; Wang, Qiu-Yue; Wu, Guang-Ping; Wang, En-Hua; Kang, Jian

    2016-03-01

    Optimizing basic techniques in diagnostic bronchoscopy is important for improving medical services in developing countries. In this study, the optimal sequence of bronchial brushing relative to bronchial biopsy for lung cancer diagnosis was evaluated. A total of 420 patients with visible endobronchial tumors were prospectively and randomly enrolled in two groups: a pre-biopsy brushing group, receiving two brushings before biopsy; two brushings which performed afterwards; were set as self-control and compared with the pre-biopsy brushings as the intra-group comparison; and a post-biopsy brushing group, only receiving two brushings after biopsy, which were compared with the pre-biopsy brushings as the inter-group comparison. Diagnostic yield of brushing was compared before and after biopsy, and as well as for different tumor pathologies and bronchoscopic morphologies. The occurrence of treated bleeding which defined as bleeding needed further intervention with argon plasma coagulation and/or anti-coagulation drugs in two groups was also compared. Only patients with a definitive cytological or histological diagnosis of lung cancer based on bronchoscopy or other confirmatory techniques were included. Patients were excluded if they had submucosal lesions, extrinsic compressions, pulmonary metastasis of extrapulmonary malignancies or uncommon non-small cell lung carcinoma (NSCLC). A total of 362 patients who met the inclusion criteria were analyzed. Diagnostic yield for pre-biopsy brushing (49.2%, 88/179) was significantly higher than for post-biopsy brushing within the same pre-biopsy brushing group (31.8%, 57/179) (P=0.007) as the intra-group comparison, and significantly higher than for post-biopsy brushing in the post group (30.6%, 56/183) (Pcancer. In cases of endobronchial exophytic tumors, pre-biopsy brushing appears to be superior to post-biopsy brushing.

  17. A pseudo-matched filter for chaos

    OpenAIRE

    Cohen, Seth D.; Gauthier, Daniel J.

    2012-01-01

    A matched filter maximizes the signal-to-noise ratio of a signal. In the recent work of Corron et al. [Chaos 20, 023123 (2010)], a matched filter is derived for the chaotic waveforms produced by a piecewise-linear system. Motivated by these results, we describe a pseudo-matched filter, which removes noise from the same chaotic signal. It consists of a notch filter followed by a first-order, low-pass filter. We compare quantitatively the matched filter's performance to that of our pseudo-match...

  18. A case of Pseudo-Bartter syndrome

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Ik; Choi, Bo Whan; Lee, Yul; Chung, Soo Young [College of Medicine, Hallym University, Seoul (Korea, Republic of)

    1994-10-15

    Pseudo-Bartter Syndrome is a rare medical disease of the kidney characterized by normal blood pressure, hypokalemic metabolic alkalosis, hyperreninemia and hyperaldosteronism with drug history of diuretics. We report US, CT and MRI findings of a patients with clinically proved Pseudo-Bartter syndrome. The patient was a 37 year old woman with a history of long term ingestion of the diuretics(furosemide) for 20 years. Renal US revealed hyperechoic renal medulla at both kidneys. The resistive index(RI), calculated from the duplex doppler waveform is 0.61. Unenhanced CT revealed faint high attenuation along the medulla. T1-weighted MRI revealed indistinct corticomedullary differentiation.

  19. Convergence theorems of fixed points for Lipschitz pseudo-contractions in Hilbert spaces

    Science.gov (United States)

    Zhou, Haiyun

    2008-07-01

    Let C be a closed convex subset of a real Hilbert space H and assume that T is a [kappa]-strict pseudo-contraction on C. Consider Mann's iteration algorithm given by It is proved that if the control sequence {[alpha]n} is chosen so that [kappa]Rhoades [B.E. Rhoades, Fixed point iterations using infinite matrices, Trans. Amer. Math. Soc. 196 (1974) 162-176] and of Marino and Xu [G. Marino, H.-K. Xu, Weak and strong convergence theorems for strict pseudo-contractions in Hilbert spaces, J. Math. Anal. Appl. 329 (1) (2007) 336-346].

  20. Some Properties of Weighted Pseudo almost Periodic Functions

    Directory of Open Access Journals (Sweden)

    Zhe-Ming Zheng

    2013-01-01

    Full Text Available Several interesting and new properties of weighted pseudo almost periodic functions are established. Firstly, we obtain an equivalent definition for weighted pseudo almost periodic functions, which shows a close relationship between asymptotically almost periodic functions and weighted pseudo almost periodic functions; secondly, we prove that the space of asymptotically almost periodic functions is always a proper subspace of the space of weighted pseudo almost periodic functions; thirdly, we show that under some cases, the space of weighted pseudo almost periodic functions equals the classical space of pseudo almost periodic functions.

  1. Anomalous stress diffusion, Omori's law and Continuous Time Random Walk in the 2010 Efpalion aftershock sequence (Corinth rift, Greece)

    Science.gov (United States)

    Michas, Georgios; Vallianatos, Filippos; Karakostas, Vassilios; Papadimitriou, Eleftheria; Sammonds, Peter

    2014-05-01

    Efpalion aftershock sequence occurred in January 2010, when an M=5.5 earthquake was followed four days later by another strong event (M=5.4) and numerous aftershocks (Karakostas et al., 2012). This activity interrupted a 15 years period of low to moderate earthquake occurrence in Corinth rift, where the last major event was the 1995 Aigion earthquake (M=6.2). Coulomb stress analysis performed in previous studies (Karakostas et al., 2012; Sokos et al., 2012; Ganas et al., 2013) indicated that the second major event and most of the aftershocks were triggered due to stress transfer. The aftershocks production rate decays as a power-law with time according to the modified Omori law (Utsu et al., 1995) with an exponent larger than one for the first four days, while after the occurrence of the second strong event the exponent turns to unity. We consider the earthquake sequence as a point process in time and space and study its spatiotemporal evolution considering a Continuous Time Random Walk (CTRW) model with a joint probability density function of inter-event times and jumps between the successive earthquakes (Metzler and Klafter, 2000). Jump length distribution exhibits finite variance, whereas inter-event times scale as a q-generalized gamma distribution (Michas et al., 2013) with a long power-law tail. These properties are indicative of a subdiffusive process in terms of CTRW. Additionally, the mean square displacement of aftershocks is constant with time after the occurrence of the first event, while it changes to a power-law with exponent close to 0.15 after the second major event, illustrating a slow diffusive process. During the first four days aftershocks cluster around the epicentral area of the second major event, while after that and taking as a reference the second event, the aftershock zone is migrating slowly with time to the west near the epicentral area of the first event. This process is much slower from what would be expected from normal diffusion, a

  2. OP-Triplet-ELM: Identification of real and pseudo microRNA precursors using extreme learning machine with optimal features.

    Science.gov (United States)

    Pian, Cong; Zhang, Jin; Chen, Yuan-Yuan; Chen, Zhi; Li, Qin; Li, Qiang; Zhang, Liang-Yun

    2016-02-01

    MicroRNAs (miRNAs) are a set of short (21-24 nt) non-coding RNAs that play significant regulatory roles in the cells. Triplet-SVM-classifier and MiPred (random forest, RF) can identify the real pre-miRNAs from other hairpin sequences with similar stem-loop (pseudo pre-miRNAs). However, the 32-dimensional local contiguous structure-sequence can induce a great information redundancy. Therefore, it is essential to develop a method to reduce the dimension of feature space. In this paper, we propose optimal features of local contiguous structure-sequences (OP-Triplet). These features can avoid the information redundancy effectively and decrease the dimension of the feature vector from 32 to 8. Meanwhile, a hybrid feature can be formed by combining minimum free energy (MFE) and structural diversity. We also introduce a neural network algorithm called extreme learning machine (ELM). The results show that the specificity ([Formula: see text])and sensitivity ([Formula: see text]) of our method are 92.4% and 91.0%, respectively. Compared with Triplet-SVM-classifier, the total accuracy (ACC) of our ELM method increases by 5%. Compared with MiPred (RF) and miRANN, the total accuracy (ACC) of our ELM method increases nearly by 2%. What is more, our method commendably reduces the dimension of the feature space and the training time.

  3. Pseudo--Normals for Signed Distance Computation

    DEFF Research Database (Denmark)

    Aanæs, Henrik; Bærentzen, Jakob Andreas

    2003-01-01

    undertake showing that the angle weighted pseudo--normal has an important property, namely that it allows us to discriminate between points that are inside and points that are outside the mesh. This result is used for proposing a simple and efficient algorithm for computing the signed distance field from...

  4. POPULATION DYNAMICS OF PSEUDO-NITZSCHIA SPECIES ...

    African Journals Online (AJOL)

    nb

    coastal waters of the Western Indian Ocean has been reported before (Bryceson ... Ocean. There is however no study, which has analyzed the seasonal distribution of. Pseudo-nitzschia species along the. Tanzanian coastal waters as well as factors regulating such ... cleaned plastic vials and immediately kept cool on ice for ...

  5. A pseudo-matched filter for chaos.

    Science.gov (United States)

    Cohen, Seth D; Gauthier, Daniel J

    2012-09-01

    A matched filter maximizes the signal-to-noise ratio of a signal. In the recent work of Corron et al. [Chaos 20, 023123 (2010)], a matched filter is derived for the chaotic waveforms produced by a piecewise-linear system. This system produces a readily available binary symbolic dynamics that can be used to perform correlations in the presence of large amounts of noise using the matched filter. Motivated by these results, we describe a pseudo-matched filter, which operates similarly to the original matched filter. It consists of a notch filter followed by a first-order, low-pass filter. We compare quantitatively the matched filter's performance to that of our pseudo-matched filter using correlation functions. On average, the pseudo-matched filter performs with a correlation signal-to-noise ratio that is 2.0 dB below that of the matched filter. Our pseudo-matched filter, though somewhat inferior in comparison to the matched filter, is easily realizable at high speed (>1 GHz) for potential radar applications.

  6. Pseudo-Canonical Formulae are Classical

    Directory of Open Access Journals (Sweden)

    Caminati Marco B.

    2015-02-01

    Full Text Available An original result about Hilbert Positive Propositional Calculus introduced in [11] is proven. That is, it is shown that the pseudo-canonical formulae of that calculus (and hence also the canonical ones, see [17] are a subset of the classical tautologies.

  7. Pseudo-observations in survival analysis

    DEFF Research Database (Denmark)

    Andersen, Per Kragh; Perme, Maja Pohar

    2010-01-01

    -state models, e.g. the competing risks cumulative incidence function. Graphical and numerical methods for assessing goodness-of-fit for hazard regression models and for the Fine-Gray model in competing risks studies based on pseudo-observations are also reviewed. Sensitivity to covariate-dependent censoring...... is studied. The methods are illustrated using a data set from bone marrow transplantation....

  8. Detection of thin beds with the pseudo-acoustic impedance section

    Energy Technology Data Exchange (ETDEWEB)

    Szulyovszky, I.

    1987-03-01

    The conventional seismic response of a thin bed approximates the time derivative of the incident wavelet, whereas the pseudo-impedance response approximates the incident wavelet. Consequently the pseudo-impedance response of a geological sequence composed of thin beds is simpler and easier to interpret than the conventional response. By calibrating the sonic log data with check-shot data and performing zero-phase seismic processing, the fit of the sonic log and pseudo-velocity section is improved. Discrepancies in amplitude and phase, however, generally remain. A five-step processing and interpretation procedure, which benefits from multichannel interpretation along the model seismic section generated from the sonic logs, is described. The method has been tested with field data. In the test the detection of thin beds and the estimation of the natural gas content was more reliable with the proposed procedure than with the conventional method.

  9. Information Encoding on a Pseudo Random Noise Radar Waveform

    Science.gov (United States)

    2013-03-01

    antenna under test AWG arbitrary waveform generator AWGN additive white Gaussian noise BPSK binary phase shift keying CDMA code division multiple...focused on the orthogonal frequency-division multiplexing (OFDM) and code division multiple access ( CDMA ) waveforms. The Ohio State University has...components into a single unit allows for a more mobile compact platform. The plan is diagrammed in Figure 3.5. Figure 3.5: Planned modifications to

  10. Primary palpebral and orbital ossification in pseudo-pseudohypoparathyroidism

    DEFF Research Database (Denmark)

    Klauber, S.; Heegaard, S.; Prause, J.U.

    2002-01-01

    ophthalmology, Albright's heriditary osteodystrophy, ossification, pseudo-pseudohypoparathyroidism, pseodohypoparathyroidism, hypothyroidism, GNAS1 gene, history, eyelid, orbit......ophthalmology, Albright's heriditary osteodystrophy, ossification, pseudo-pseudohypoparathyroidism, pseodohypoparathyroidism, hypothyroidism, GNAS1 gene, history, eyelid, orbit...

  11. Analisis Teoritis dan Empiris Uji Craps dari Diehard Battery of Randomness Test untuk Pengujian Pembangkit Bilangan Acaksemu

    Directory of Open Access Journals (Sweden)

    Sari Agustini Hafman

    2013-05-01

    Full Text Available According to Kerchoffs (1883, the security system should only rely on cryptographic keys which is used in that system. Generally, the key sequences are generated by a Pseudo Random Number Generator (PRNG or Random Number Generator (RNG. There are three types of randomness sequences that generated by the RNG and PRNG i.e. pseudorandom sequence, cryptographically secure pseudorandom sequences, and real random sequences. Several statistical tests, including diehard battery of tests of randomness, is used to check the type of randomness sequences that generated by PRNG or RNG. Due to its purpose, the principle on taking the testing parameters and the test statistic are associated with the validity of the conclusion produced by a statistical test, then the theoretical analysis is performed by applying a variety of statistical theory to evaluate craps test, one of the test included in the diehard battery of randomness tests. Craps test, inspired by craps game, aims to examine whether a PRNG produces an independent and identically distributed (iid pseudorandom sequences. To demonstrate the process to produce a test statistics equation and to show how craps games applied on that test, will be carried out theoretical analysis by applying a variety of statistical theory. Furthermore, empirical observations will be done by applying craps test on a PRNG in order to check the test effectiveness in detecting the distribution and independency of sequences which produced by PRNG

  12. Use of molecular diversity of Mycoplasma gallisepticum by gene-targeted sequencing (GTS) and random amplified polymorphic DNA (RAPD) analysis for epidemiological studies.

    Science.gov (United States)

    Ferguson, Naola M; Hepp, Diego; Sun, Shulei; Ikuta, Nilo; Levisohn, Sharon; Kleven, Stanley H; García, Maricarmen

    2005-06-01

    A total of 67 Mycoplasma gallisepticum field isolates from the USA, Israel and Australia, and 10 reference strains, were characterized by gene-targeted sequencing (GTS) analysis of portions of the putative cytadhesin pvpA gene, the cytadhesin gapA gene, the cytadhesin mgc2 gene, and an uncharacterized hypothetical surface lipoprotein-encoding gene designated genome coding DNA sequence (CDS) MGA_0319. The regions of the surface-protein-encoding genes targeted in this analysis were found to be stable within a strain, after sequencing different in vitro passages of M. gallisepticum reference strains. Gene sequences were first analysed on the basis of gene size polymorphism. The pvpA and mgc2 genes are characterized by the presence of different nucleotide insertions/deletions. However, differentiation of isolates based solely on pvpA/mgc2 PCR size polymorphism was not found to be a reliable method to differentiate among M. gallisepticum isolates. On the other hand, GTS analysis based on the nucleotide sequence identities of individual and multiple genes correlated with epidemiologically linked isolates and with random amplified polymorphic DNA (RAPD) analysis. GTS analysis of individual genes, gapA, MGA_0319, mgc2 and pvpA, identified 17, 16, 20 and 22 sequence types, respectively. GTS analysis using multiple gene sequences mgc2/pvpa and gapA/MGA_0319/mgc2/pvpA identified 38 and 40 sequence types, respectively. GTS of multiple surface-protein-encoding genes showed better discriminatory power than RAPD analysis, which identified 36 pattern types from the same panel of M. gallisepticum strains. These results are believed to provide the first evidence that typing of M. gallisepticum isolates by GTS analysis of surface-protein genes is a sensitive and reproducible typing method and will allow rapid global comparisons between laboratories.

  13. DS/LPI autocorrelation detection in noise plus random-tone interference. [Direct Sequence Low-Probabilty of Intercept

    Science.gov (United States)

    Hinedi, S.; Polydoros, A.

    1988-01-01

    The authors present and analyze a frequency-noncoherent two-lag autocorrelation statistic for the wideband detection of random BPSK signals in noise-plus-random-multitone interference. It is shown that this detector is quite robust to the presence or absence of interference and its specific parameter values, contrary to the case of an energy detector. The rule assumes knowledge of the data rate and the active scenario under H0. It is concluded that the real-time autocorrelation domain and its samples (lags) are a viable approach for detecting random signals in dense environments.

  14. Wavefield extrapolation in pseudo-depth domain

    KAUST Repository

    Ma, Xuxin

    2012-01-01

    Extrapolating seismic waves in Cartesian coordinate is prone to uneven spatial sampling, because the seismic wavelength tends to grow with depth, as velocity increase. We transform the vertical depth axis to a pseudo one using a velocity weighted mapping, which can effectively mitigate this wavelength variation. We derive acoustic wave equations in this new domain based on the direct transformation of the Laplacian derivatives, which admits solutions that are more accurate and stable than those derived from the kinematic transformation. The anisotropic versions of these equations allow us to isolate the vertical velocity influence and reduce its impact on modeling and imaging. The major benefit of extrapolating wavefields in pseudo-depth space is its near uniform wavelength as opposed to the normally dramatic change of wavelength with the conventional approach. Time wavefield extrapolation on a complex velocity shows some of the features of this approach.

  15. Pseudo-differential operators and generalized functions

    CERN Document Server

    Toft, Joachim

    2015-01-01

    This book gathers peer-reviewed contributions representing modern trends in the theory of generalized functions and pseudo-differential operators. It is dedicated to Professor Michael Oberguggenberger (Innsbruck University, Austria) in honour of his 60th birthday. The topics covered were suggested by the ISAAC Group in Generalized Functions (GF) and the ISAAC Group in Pseudo-Differential Operators (IGPDO), which met at the 9th ISAAC congress in Krakow, Poland in August 2013. Topics include Columbeau algebras, ultra-distributions, partial differential equations, micro-local analysis, harmonic analysis, global analysis, geometry, quantization, mathematical physics, and time-frequency analysis. Featuring both essays and research articles, the book will be of great interest to graduate students and researchers working in analysis, PDE and mathematical physics, while also offering a valuable complement to the volumes on this topic previously published in the OT series.

  16. An On-Demand Optical Quantum Random Number Generator with In-Future Action and Ultra-Fast Response.

    Science.gov (United States)

    Stipčević, Mario; Ursin, Rupert

    2015-06-09

    Random numbers are essential for our modern information based society e.g. in cryptography. Unlike frequently used pseudo-random generators, physical random number generators do not depend on complex algorithms but rather on a physical process to provide true randomness. Quantum random number generators (QRNG) do rely on a process, which can be described by a probabilistic theory only, even in principle. Here we present a conceptually simple implementation, which offers a 100% efficiency of producing a random bit upon a request and simultaneously exhibits an ultra low latency. A careful technical and statistical analysis demonstrates its robustness against imperfections of the actual implemented technology and enables to quickly estimate randomness of very long sequences. Generated random numbers pass standard statistical tests without any post-processing. The setup described, as well as the theory presented here, demonstrate the maturity and overall understanding of the technology.

  17. Inflation and pseudo-Goldstone Higgs boson

    DEFF Research Database (Denmark)

    Alanne, Tommi; Sannino, Francesco; Tenkanen, Tommi

    2017-01-01

    We consider inflation within a model framework where the Higgs boson arises as a pseudo-Goldstone boson associated with the breaking of a global symmetry at a scale significantly larger than the electroweak one. We show that in such a model the scalar self-couplings can be parametrically suppressed...... field. Our model therefore suggests that inflation and low energy particle phenomenology may be more entwined than assumed so far....

  18. Sequence correction of random coil chemical shifts: correlation between neighbor correction factors and changes in the Ramachandran distribution

    DEFF Research Database (Denmark)

    Kjærgaard, Magnus; Poulsen, Flemming Martin

    2011-01-01

    . The contributions from the neighboring residues are typically removed by using neighbor correction factors determined based on each residue's effect on glycine chemical shifts. Due to its unusual conformational freedom, glycine may be particularly unrepresentative for the remaining residue types. In this study, we......Random coil chemical shifts are necessary for secondary chemical shift analysis, which is the main NMR method for identification of secondary structure in proteins. One of the largest challenges in the determination of random coil chemical shifts is accounting for the effect of neighboring residues...... use random coil peptides containing glutamine instead of glycine to determine the random coil chemical shifts and the neighbor correction factors. The resulting correction factors correlate to changes in the populations of the major wells in the Ramachandran plot, which demonstrates that changes...

  19. Effects of regularity on the processing of sound omission in a tone sequence in musicians and non-musicians.

    Science.gov (United States)

    Ono, Kentaro; Matsuhashi, Masao; Mima, Tatsuya; Fukuyama, Hidenao; Altmann, Christian F

    2013-09-01

    Numerous studies have reported that perceptual grouping affects the pre-attentive processing of sound omission in a sequence of tones. However, it remains unclear whether or not the perceptual grouping and musical experience affect the attentive processing of sound omission. To this end, we created a sequence of loud (L) and soft (S) tones grouped as 'LLSLLS…' and a random sequence of the L and S tones. The omission of the L tones was inserted pseudo-randomly in the random sequence, and there were two positions at which it was inserted. For within-group omission, the omission was after the first L tone within the 'LLS' pattern. For between-group omission, the omission was inserted between the patterns. The brain response to the omission in musicians and non-musicians was measured using magnetoencephalography. During the magnetoencephalography measurement, the subjects' performance in a task to detect the omission was faster in the random sequence than in the group sequence. Source analysis showed that the omission in the random sequence caused greater activity than that in the group sequence. The increase was found in the right inferior parietal lobe in musicians, whereas it was found in the left superior temporal gyrus in non-musicians. These results suggest that the attentive processing of perceptual grouping might implicate the left superior temporal gyrus or right inferior parietal lobe, depending on musical experience. © 2013 Federation of European Neuroscience Societies and John Wiley & Sons Ltd.

  20. Random Numbers and Quantum Computers

    Science.gov (United States)

    McCartney, Mark; Glass, David

    2002-01-01

    The topic of random numbers is investigated in such a way as to illustrate links between mathematics, physics and computer science. First, the generation of random numbers by a classical computer using the linear congruential generator and logistic map is considered. It is noted that these procedures yield only pseudo-random numbers since…

  1. Random-effects linear modeling and sample size tables for two special crossover designs of average bioequivalence studies: the four-period, two-sequence, two-formulation and six-period, three-sequence, three-formulation designs.

    Science.gov (United States)

    Diaz, Francisco J; Berg, Michel J; Krebill, Ron; Welty, Timothy; Gidal, Barry E; Alloway, Rita; Privitera, Michael

    2013-12-01

    Due to concern and debate in the epilepsy medical community and to the current interest of the US Food and Drug Administration (FDA) in revising approaches to the approval of generic drugs, the FDA is currently supporting ongoing bioequivalence studies of antiepileptic drugs, the EQUIGEN studies. During the design of these crossover studies, the researchers could not find commercial or non-commercial statistical software that quickly allowed computation of sample sizes for their designs, particularly software implementing the FDA requirement of using random-effects linear models for the analyses of bioequivalence studies. This article presents tables for sample-size evaluations of average bioequivalence studies based on the two crossover designs used in the EQUIGEN studies: the four-period, two-sequence, two-formulation design, and the six-period, three-sequence, three-formulation design. Sample-size computations assume that random-effects linear models are used in bioequivalence analyses with crossover designs. Random-effects linear models have been traditionally viewed by many pharmacologists and clinical researchers as just mathematical devices to analyze repeated-measures data. In contrast, a modern view of these models attributes an important mathematical role in theoretical formulations in personalized medicine to them, because these models not only have parameters that represent average patients, but also have parameters that represent individual patients. Moreover, the notation and language of random-effects linear models have evolved over the years. Thus, another goal of this article is to provide a presentation of the statistical modeling of data from bioequivalence studies that highlights the modern view of these models, with special emphasis on power analyses and sample-size computations.

  2. Pseudo-spin Winding Number in Hydrogenated Graphene

    Science.gov (United States)

    Bennaceur, Keyan; Guillemette, Jonathan; Lévesque, Pierre L.; Mahvash, Farzaneh; Proust, Cyril; Siaj, Mohamed; Martel, Richard; Gervais, Guillaume; Szkopek, Thomas

    2014-03-01

    The quantum Hall effect (QHE) has been previously observed in highly resistive hydrogenated graphene, with an estimated hydrogen coverage up to 0.1% that is sufficient to impart strongly insulating behaviour in zero magnetic field. The opening of an impurity induced gap in graphene upon hydrogenation is anticipated to break local sub-lattice symmetry, and it may thus alter the Berry phase of Shubnikov-de Haas (SdH) oscillations and lead to a different Landau level (LL) sequence. Here we report the observation of SdH oscillations in a magnetic field up to 55 Tesla in graphene samples hydrogenated to different degree. The low temperature electron mobility ranges from ~1 cm2 / V . s to ~1000 cm2 / V . s . Analysis of SdH oscillation frequency in 1/B indicates that the LL sequence remains four-fold degenerate. We also observe the ν = 2 Hall plateau in all samples. We therefore conclude that the topological part of the Berry phase, meaning the pseudo-spin winding number that determines the LL sequence, is preserved in hydrogenated graphene.

  3. Wavefield Extrapolation in Pseudo-depth Domain

    KAUST Repository

    Ma, Xuxin

    2011-12-11

    Wave-equation based seismic migration and inversion tools are widely used by the energy industry to explore hydrocarbon and mineral resources. By design, most of these techniques simulate wave propagation in a space domain with the vertical axis being depth measured from the surface. Vertical depth is popular because it is a straightforward mapping of the subsurface space. It is, however, not computationally cost-effective because the wavelength changes with local elastic wave velocity, which in general increases with depth in the Earth. As a result, the sampling per wavelength also increases with depth. To avoid spatial aliasing in deep fast media, the seismic wave is oversampled in shallow slow media and therefore increase the total computation cost. This issue is effectively tackled by using the vertical time axis instead of vertical depth. This is because in a vertical time representation, the "wavelength" is essentially time period for vertical rays. This thesis extends the vertical time axis to the pseudo-depth axis, which features distance unit while preserving the properties of the vertical time representation. To explore the potentials of doing wave-equation based imaging in the pseudo-depth domain, a Partial Differential Equation (PDE) is derived to describe acoustic wave in this new domain. This new PDE is inherently anisotropic because the use of a constant vertical velocity to convert between depth and vertical time. Such anisotropy results in lower reflection coefficients compared with conventional space domain modeling results. This feature is helpful to suppress the low wavenumber artifacts in reverse-time migration images, which are caused by the widely used cross-correlation imaging condition. This thesis illustrates modeling acoustic waves in both conventional space domain and pseudo-depth domain. The numerical tool used to model acoustic waves is built based on the lowrank approximation of Fourier integral operators. To investigate the potential

  4. Variation in the abundance of Pseudo-nitzschia and domoic acid with surf zone type.

    Science.gov (United States)

    Shanks, Alan L; Morgan, Steven G; MacMahan, Jamie; Reniers, Ad J H M; Kudela, Raphael; Jarvis, Marley; Brown, Jenna; Fujimura, Atsushi; Ziccarelli, Lisa; Griesemer, Chris

    2016-05-01

    Most harmful algal blooms (HAB) originate away from the shore and, for them to endanger human health, they must be first transported to shore after which they must enter the surf zone where they can be feed upon by filter feeders. The last step in this sequence, entrance into the surf zone, depends on surf zone hydrodynamics. During two 30-day periods, we sampled Pseudo-nitzschia and particulate domoic acid (pDA) in and offshore of a more dissipative surf zone at Sand City, California (2010) and sampled Pseudo-nitzschia in and out of reflective surf zones at a beach and rocky shores at Carmel River State Beach, California (2011). At Sand City, we measured domoic acid in sand crabs, Emerita analoga. In the more dissipative surf zone, concentrations of Pseudo-nitzschia and pDA were an order of magnitude higher in samples from a rip current than in samples collected just seaward of the surf zone and were 1000 times more abundant than in samples from the shoals separating rip currents. Domoic acid was present in all the Emerita samples and varied directly with the concentration of pDA and Pseudo-nitzschia in the rip current. In the more reflective surf zones, Pseudo-nitzschia concentrations were 1-2 orders of magnitude lower than in samples from 125 and 20m from shore. Surf zone hydrodynamics affects the ingress of Pseudo-nitzschia into surf zones and the exposure of intertidal organisms to HABs on the inner shelf. Copyright © 2016 Elsevier B.V. All rights reserved.

  5. Pseudo-spin band in the odd-odd nucleus {sup 172}Lu

    Energy Technology Data Exchange (ETDEWEB)

    Venkova, T. [Institut fuer Kernphysik, Forschungszentrum Juelich, D-52425, Juelich (Germany); Institute of Nuclear Research and Nuclear Energy, Bulgarian Academy of Sciences, BG-1784, Sofia (Bulgaria); Lieder, R.M.; Gast, W.; Podsvirova, E.; Jaeger, H.M.; Mihailescu, L. [Institut fuer Kernphysik, Forschungszentrum Juelich, D-52425, Juelich (Germany); Bazzacco, D.; Menegazzo, R.; Lunardi, S.; Alvarez, C. Rossi; Ur, C.; Martinez, T. [Dipartimento di Fisica dell' Universita and Istituto Nazionale di Fisica Nucleare, Sezione di Padova, I-35131, Padova (Italy); Angelis, G. de; Axiotis, M.; Napoli, D. [Laboratori Nazionali di Legnaro, Istituto Nazionale di Fisica Nucleare, I-35020, Legnaro (Italy); Urban, W.; Rzaca-Urban, T. [Institute of Experimental Physics, University of Warsaw, PL-00-681, Warszawa (Poland); Frauendorf, S. [Department of Physics, University of Notre Dame, Notre Dame, IN (United States)

    2003-09-01

    High-spin states in the odd-odd nucleus {sup 172}Lu have been populated in a {sup 170}Er({sup 7}Li,5n) reaction and the emitted {gamma}-radiation was detected with the GASP array. Two sequences of a new identical band have been observed with the transition energies in the favoured and unfavoured sequences being identical within {approx}3 keV at low spins and {approx}1 keV at high spins over the whole observed spin range. An interpretation as a pseudo-spin singlet band of {pi}1/2{sup -} [541] x {nu}1/2{sup -} [420] configuration is proposed. It represents the best example of a pseudo-spin singlet band in normal deformed nuclei known until now. (orig.)

  6. Development and comparison of algorithms for generating a scan sequence for a random access scanner. [ZAP (and flow charts for ZIP and SCAN), in FORTRAN for DEC-10

    Energy Technology Data Exchange (ETDEWEB)

    Eason, R. O.

    1980-09-01

    Many data acquisition systems incorporate high-speed scanners to convert analog signals into digital format for further processing. Some systems multiplex many channels into a single scanner. A random access scanner whose scan sequence is specified by a table in random access memory will permit different scan rates on different channels. Generation of this scan table can be a tedious manual task when there are many channels (e.g. 50), when there are more than a few scan rates (e.g. 5), and/or when the ratio of the highest scan rate to the lowest scan rate becomes large (e.g. 100:1). An algorithm is developed which will generate these scan sequences for the random access scanner and implements the algorithm on a digital computer. Application of number theory to the mathematical statement of the problem led to development of several algorithms which were implemented in FORTRAN. The most efficient of these algorithms operates by partitioning the problem into a set of subproblems. Through recursion they solve each subproblem by partitioning it repeatedly into even smaller parts, continuing until a set of simple problems is created. From this process, a pictorial representation or wheel diagram of the problem can be constructed. From the wheel diagram and a description of the original problem, a scan table can be constructed. In addition, the wheel diagram can be used as a method of storing the scan sequence in a smaller amount of memory. The most efficient partitioning algorithm solved most scan table problems in less than a second of CPU time. Some types of problems, however, required as much as a few minutes of CPU time. 26 figures, 2 tables.

  7. Determining Phylogenetic Relationships Among Date Palm Cultivars Using Random Amplified Polymorphic DNA (RAPD) and Inter-Simple Sequence Repeat (ISSR) Markers.

    Science.gov (United States)

    Haider, Nadia

    2017-01-01

    Investigation of genetic variation and phylogenetic relationships among date palm (Phoenix dactylifera L.) cultivars is useful for their conservation and genetic improvement. Various molecular markers such as restriction fragment length polymorphisms (RFLPs), simple sequence repeat (SSR), representational difference analysis (RDA), and amplified fragment length polymorphism (AFLP) have been developed to molecularly characterize date palm cultivars. PCR-based markers random amplified polymorphic DNA (RAPD) and inter-simple sequence repeat (ISSR) are powerful tools to determine the relatedness of date palm cultivars that are difficult to distinguish morphologically. In this chapter, the principles, materials, and methods of RAPD and ISSR techniques are presented. Analysis of data generated from these two techniques and the use of these data to reveal phylogenetic relationships among date palm cultivars are also discussed.

  8. Pseudo-nitzschia challenged with co-occurring viral communities display diverse infection phenotypes

    Directory of Open Access Journals (Sweden)

    Michael Curtis Grier Carlson

    2016-04-01

    Full Text Available Viruses are catalysts of biogeochemical cycling, architects of microbial community structure, and terminators of phytoplankton blooms. Viral lysis of diatoms, a key group of eukaryotic phytoplankton, has the potential to impact carbon export and marine food webs. However, the impact of viruses on diatom abundance and community composition is unknown. Diatom-virus dynamics were explored by sampling every month at 2 coastal and estuarine locations in Washington state, USA resulting in 41 new isolates of the pennate diatom Pseudo-nitzschia and 20 environmental virus samples. We conducted a total of 820 pair-wise crosses of the Pseudo-nitzschia isolates and viral communities. Viral communities infected Pseudo-nitzschia isolates in 8% of the crosses overall and 16% of crosses when the host and viral communities were isolated from the same sample. Isolates ranged in their permissivity to infection with some isolates not infected by any viral samples and others infected by up to 10 viral communities. Isolates that were infected by the most viral communities also had the highest maximum observed viral titers (as high as 16000 infectious units ml-1. Titers of the viral communities were host dependent, as titers for one viral sample on 8 different hosts spanned 4 orders of magnitude. Sequencing of the Pseudo-nitzschia Internal Transcribed Spacer 1 (ITS1 of the revealed multiple subgroups of hosts with 100% ITS1 identity that were infected by different viral communities. Indeed, we repeatedly isolated groups of isolates with identical ITS1 sequences from the same water sample that displayed different viral infection phenotypes. The interactions between Pseudo-nitzschia and the viral communities highlight the diversity of diatoms and emphasize the complexity and variability of diatom-virus dynamics in the ocean.

  9. Generation of pseudo-CT from a single MRI for PET/MR attenuation correction purposes

    Energy Technology Data Exchange (ETDEWEB)

    Monnier, Florian; Fayad, Hadi; Bert, Julian; Lapuyade-Lahorgue, Jerome; Hatt, Mathieu [INSERM UMR 1101, LaTIM, Brest (France); Veit-Haibach, Patrick; Delso, Gaspar [Nuclear Medicine Department, University Hospital Zurich (Switzerland); Visvikis, Dimitris [INSERM UMR 1101, LaTIM, Brest (France)

    2014-07-29

    Current MR attenuation correction (AC) approaches suffer from the lack of precision in the detection of bone and the assigned attenuation coefficients. In general, no unique transformation of MR image intensities into attenuation coefficients exists. The purpose of this work is to derive attenuation coefficient maps from a single MR sequence through the generation of a pseudo-CT map using a derived MRI intensity - CT Hounsfield Units (HU) relationship.

  10. Bladder rupture causing pseudo acute renal failure

    Directory of Open Access Journals (Sweden)

    Luciana Andrea Avena Smeili

    2011-09-01

    Full Text Available Bladder rupture is a rare condition associated with significant morbidityand mortality. It is classified into traumatic, nontraumatic or idiopathic andspontaneous. The nonspecific initial clinical presentation is followed bydiscomfort in the lower abdomen, oliguria, hematuria and ascitis. Laboratoryabnormalities simulate the picture of acute renal failure and occurs by amechanism called auto reverse dialysis, with absorption of excreta throughthe peritoneal membrane. The authors describe a case of bladder rupturein morphologically and functionally normal urinary bladder associated withalcohol intake in young healthy man, manifested by abdominal discomfort,pseudo renal failure and massive ascitis. The diagnosis was made by anabdominal multidetector computed tomography confirmed by the finding of7 cm laceration at laparotomy.

  11. Pseudo ventricular tachycardia: a case report.

    LENUS (Irish Health Repository)

    Riaz, A

    2012-02-01

    BACKGROUND: Dramatic artifacts of pseudo flutter have been reported in the past secondary to various factors including tremor (Handwerker and Raptopoulos in N Engl J Med 356:503, 2007) and dialysis machines (Kostis et al. in J Electrocardiol 40(4):316-318, 2007). METHODS: We present this unusual case where the artifact, produced by tremor, was so pronounced to be misdiagnosed and treated as ventricular tachycardia. CONCLUSION: This case highlights the importance of correlating ECG findings with history and clinical examination and of using 12 lead ECGs for rhythm interpretation especially to confirm consistence of arrhythmias in all leads.

  12. Pseudo-communication vs Quasi-communication

    Directory of Open Access Journals (Sweden)

    Елена Константиновна Черничкина

    2016-12-01

    Full Text Available The article is devoted to the analysis of such specific forms of human interaction as quasi- and pseudo-communication. The authors specify the terms which sometimes are used interchangeably. The aim of the conducted research is to find out and demonstrate existing differences and similarities of these communicative phenomena on the basis of theoretical and empirical analysis of the research material in the Russian and English languages. The authors describe communicative features of these phenomena and consider the reasons for such forms of communication and their increased use at present. The research material is represented fiction extracts, film scripts, jokes, print media, a collection of oral speech records both in Russian and English. The authors make use of the following research methods: definitional analysis (to define the terminology of the research, the method of linguistic observation and introspection (to select the communicative situations, the descriptive-analytical method and the method of comparative analysis (to identify similarities and differences of the target phenomena, and the conversational analysis method (to view productivity and effectiveness of a dialogue, etc. The classification of possible forms of their existence in different discourses is suggested. The authors assume that both pseudo- and quasi-communication are characterized as fictitious forms of human interaction with some noticeable violation of the basic communicative model. Pseudo-communication suffers from the discrepancy of the meaning of a coded and decoded message. The authors put forward the main parameters of scientific classification of it as follows: adequate understanding, intentionality, and the stage of communicative action where the failure takes place. At the same time they stress the necessity to distinguish the cases of pseudo talks from phatic and indirect communication. Quasi-communcation is marked by the lack of a real partner and hence

  13. Evolution towards ergodic behavior of stationary fractal random processes with memory: application to the study of long-range correlations of nucleotide sequences in DNA

    Science.gov (United States)

    Vlad, Marcel Ovidiu; Schönfisch, Birgitt; Mackey, Michael C.

    1996-02-01

    The possible occurrence of ergodic behavior for large times is investigated in the case of stationary random processes with memory. It is shown that for finite times the time average of a state function is generally a random variable and thus two types of cumulants can be introduced: for the time average and for the statistical ensemble, respectively. In the limit of infinite time a transition from the random to the deterministic behavior of the time average may occur, resulting in an ergodic behavior. The conditions of occurrence of this transition are investigated by analyzing the scaling behavior of the cumulants of the time average. A general approach for the computation of these cumulants is developed; explicit computations are presented both for short and long memory in the particular case of separable stationary processes for which the cumulants of a statistical ensemble can be factorized into products of functions depending on binary time differences. In both cases the ergodic behavior emerges for large times provided that the cumulants of a statistical ensemble decrease to zero as the time differences increase to infinity. The analysis leads to the surprising conclusion that the scaling behavior of the cumulants of the time average is relatively insensitive to the type of memory considered: both for short and long memory the cumulants of the time average obey inverse different from zero for large time differences, then the time averaage is random even as the length of the total time interval tends to infinity and the ergodic behavior no longer holds. The theory is applied to the study of long range correlations of nucleotide sequences in DNA; in this case the length t of a sequence of nucleotides plays the role of the time variable. A proportionality relationship is established between the cumulants of the pyrimidine excess in a sequence of length t and the cumulants of the time (length) average of the probability of occurrence of a pyrimidine. It is shown

  14. Assessing the amount of quadruplex structures present within G₂-tract synthetic random-sequence DNA libraries.

    Directory of Open Access Journals (Sweden)

    Simon A McManus

    Full Text Available The process of in vitro selection has led to the discovery of many aptamers with potential to be developed into inhibitors and biosensors, but problems in isolating aptamers against certain targets with desired affinity and specificity still remain. One possible improvement is to use libraries enhanced for motifs repeatedly isolated in aptamer molecules. One such frequently observed motif is the two-tiered guanine quadruplex. In this study we investigated whether DNA libraries could be designed to contain a large fraction of molecules capable of folding into two-tiered guanine quadruplexes. Using comprehensive circular dichroism analysis, we found that DNA libraries could be designed to contain a large proportion of sequences that adopt guanine quadruplex structures. Analysis of individual sequences from a small library revealed a mixture of quadruplexes of different topologies providing the diversity desired for an in vitro selection. We also found that primer-binding sites are detrimental to quadruplex formation and devised a method for post-selection amplification of primer-less quadruplex libraries. With the development of guanine quadruplex enriched DNA libraries, it should be possible to improve the chances of isolating aptamers that utilize a quadruplex scaffold and enhance the success of in vitro selection experiments.

  15. Scaphoid pseudo-arthrosis: Frequency, pathogenesis and course

    Energy Technology Data Exchange (ETDEWEB)

    Schunk, K.; Teifke, A.; Benning, R.; Dahm, M.; Thelen, R.; Schild, H.

    1989-06-01

    Eighty-three scaphoid pseudo-arthroses were found amongst 1.104 scaphoid examinations. Sixtyseven were present at the first examination and 16 pseudo-arthroses developed amongst 252 scaphoid fractures. Men were affected predominantly, particularly in the 20 to 40-year old group. Fractures in the proximal third of the scaphoid and vertical oblique fractures had a particular tendency to pseudo-arthrosis formation. The operative treatment of choice is a Matti-Russe bone graft. Only one patient in seven with definite scaphoid pseudo-arthrosis showed firm fusion. (orig.).

  16. iRSpot-TNCPseAAC: Identify Recombination Spots with Trinucleotide Composition and Pseudo Amino Acid Components

    Directory of Open Access Journals (Sweden)

    Wang-Ren Qiu

    2014-01-01

    Full Text Available Meiosis and recombination are the two opposite aspects that coexist in a DNA system. As a driving force for evolution by generating natural genetic variations, meiotic recombination plays a very important role in the formation of eggs and sperm. Interestingly, the recombination does not occur randomly across a genome, but with higher probability in some genomic regions called “hotspots”, while with lower probability in so-called “coldspots”. With the ever-increasing amount of genome sequence data in the postgenomic era, computational methods for effectively identifying the hotspots and coldspots have become urgent as they can timely provide us with useful insights into the mechanism of meiotic recombination and the process of genome evolution as well. To meet the need, we developed a new predictor called “iRSpot-TNCPseAAC”, in which a DNA sample was formulated by combining its trinucleotide composition (TNC and the pseudo amino acid components (PseAAC of the protein translated from the DNA sample according to its genetic codes. The former was used to incorporate its local or short-rage sequence order information; while the latter, its global and long-range one. Compared with the best existing predictor in this area, iRSpot-TNCPseAAC achieved higher rates in accuracy, Mathew’s correlation coefficient, and sensitivity, indicating that the new predictor may become a useful tool for identifying the recombination hotspots and coldspots, or, at least, become a complementary tool to the existing methods. It has not escaped our notice that the aforementioned novel approach to incorporate the DNA sequence order information into a discrete model may also be used for many other genome analysis problems. The web-server for iRSpot-TNCPseAAC is available at http://www.jci-bioinfo.cn/iRSpot-TNCPseAAC. Furthermore, for the convenience of the vast majority of experimental scientists, a step-by-step guide is provided on how to use the current web

  17. Theoretical study of polymeric mixtures with different sequence statistics. II. Brazovskii class: Linear random copolymers with diblock copolymers

    Energy Technology Data Exchange (ETDEWEB)

    Qi, Shuyan [Department of Chemical Engineering, Department of Chemistry, and Materials Science Division, Lawrence Berkeley National Laboratory, University of California, Berkeley, California 94720 (United States); Chakraborty, Arup K. [Department of Chemical Engineering, Department of Chemistry, and Materials Science Division, Lawrence Berkeley National Laboratory, University of California, Berkeley, California 94720 (United States)

    2000-01-15

    We use a Landau theory to study the instability of the homogeneous state of a mixture of linear random copolymers and diblock copolymers. Interesting features of the calculated structure factors for different components of the mixture are found, which can be directly compared with scattering experiments with selectively deuterated samples. We also investigate the least stable concentration fluctuations and find four different types of segregation modes at the spinodal depending upon the characteristics of the mixture (e.g., average compositions, statistical correlation lengths and volume fractions). The different segregation modes are also indicative of the kinetic pathways leading to the formation of ordered microstructures. Experiments probing these pathways are suggested. (c) 2000 American Institute of Physics.

  18. A large-scale study of the random variability of a coding sequence: a study on the CFTR gene.

    Science.gov (United States)

    Modiano, Guido; Bombieri, Cristina; Ciminelli, Bianca Maria; Belpinati, Francesca; Giorgi, Silvia; Georges, Marie des; Scotet, Virginie; Pompei, Fiorenza; Ciccacci, Cinzia; Guittard, Caroline; Audrézet, Marie Pierre; Begnini, Angela; Toepfer, Michael; Macek, Milan; Ferec, Claude; Claustres, Mireille; Pignatti, Pier Franco

    2005-02-01

    Coding single nucleotide substitutions (cSNSs) have been studied on hundreds of genes using small samples (n(g) approximately 100-150 genes). In the present investigation, a large random European population sample (average n(g) approximately 1500) was studied for a single gene, the CFTR (Cystic Fibrosis Transmembrane conductance Regulator). The nonsynonymous (NS) substitutions exhibited, in accordance with previous reports, a mean probability of being polymorphic (q > 0.005), much lower than that of the synonymous (S) substitutions, but they showed a similar rate of subpolymorphic (q < 0.005) variability. This indicates that, in autosomal genes that may have harmful recessive alleles (nonduplicated genes with important functions), genetic drift overwhelms selection in the subpolymorphic range of variability, making disadvantageous alleles behave as neutral. These results imply that the majority of the subpolymorphic nonsynonymous alleles of these genes are selectively negative or even pathogenic.

  19. PseKNC: a flexible web server for generating pseudo K-tuple nucleotide composition.

    Science.gov (United States)

    Chen, Wei; Lei, Tian-Yu; Jin, Dian-Chuan; Lin, Hao; Chou, Kuo-Chen

    2014-07-01

    The pseudo oligonucleotide composition, or pseudo K-tuple nucleotide composition (PseKNC), can be used to represent a DNA or RNA sequence with a discrete model or vector yet still keep considerable sequence order information, particularly the global or long-range sequence order information, via the physicochemical properties of its constituent oligonucleotides. Therefore, the PseKNC approach may hold very high potential for enhancing the power in dealing with many problems in computational genomics and genome sequence analysis. However, dealing with different DNA or RNA problems may need different kinds of PseKNC. Here, we present a flexible and user-friendly web server for PseKNC (at http://lin.uestc.edu.cn/pseknc/default.aspx) by which users can easily generate many different modes of PseKNC according to their need by selecting various parameters and physicochemical properties. Furthermore, for the convenience of the vast majority of experimental scientists, a step-by-step guide is provided on how to use the current web server to generate their desired PseKNC without the need to follow the complicated mathematical equations, which are presented in this article just for the integrity of PseKNC formulation and its development. It is anticipated that the PseKNC web server will become a very useful tool in computational genomics and genome sequence analysis. Copyright © 2014 Elsevier Inc. All rights reserved.

  20. Pseudo-Observables in Higgs decays

    CERN Multimedia

    CERN. Geneva

    2015-01-01

    In view of future high-statistics data, it is useful to define a framework for precise determinations of the properties of the Higgs particle valid in generic extensions of the Standard Model. For Higgs decays, this goal can be achieved with a limited set of "Pseudo-Observables" (PO). The PO provides a systematic generalization of the "kappa-framework" so far adopted by the LHC experiments and provide a useful bridge between data and theory predictions. I discuss how the PO are defined, with particular attention to the h->4f decays, and how they can be used to test various dynamical and symmetry hypotheses about the Higgs sector. The relation between PO and EFT couplings is also discussed.

  1. Flights in a pseudo-chaotic system.

    Science.gov (United States)

    Lowenstein, J H; Vivaldi, F

    2011-09-01

    We consider the problem of transport in a one-parameter family of piecewise rotations of the torus, for rotation number approaching 1∕4. This is a zero-entropy system which in this limit exhibits a divided phase space, with island chains immersed in a "pseudo-chaotic" region. We identify a novel mechanism for long-range transport, namely the adiabatic destruction of accelerator-mode islands. This process originates from the approximate translational invariance of the phase space and leads to long flights of linear motion, for a significant measure of initial conditions. We show that the asymptotic probability distribution of the flight lengths is determined by the geometric properties of a partition of the accelerator-mode island associated with the flight. We establish the existence of flights travelling distances of order O(1) in phase space. We provide evidence for the existence of a scattering process that connects flights travelling in opposite directions.

  2. Analysis of genetic diversity of Sclerotinia sclerotiorum from eggplant by mycelial compatibility, random amplification of polymorphic DNA (RAPD and simple sequence repeat (SSR analyses

    Directory of Open Access Journals (Sweden)

    Fatih Mehmet Tok

    2016-09-01

    Full Text Available The genetic diversity and pathogenicity/virulence among 60 eggplant Sclerotinia sclerotiorum isolates collected from six different geographic regions of Turkey were analysed using mycelial compatibility groupings (MCGs, random amplified polymorphic DNA (RAPD and simple sequence repeat (SSR polymorphism. By MCG tests, the isolates were classified into 22 groups. Out of 22 MCGs, 36% were represented each by a single isolate. The isolates showed great variability for virulence regardless of MCG and geographic origin. Based on the results of RAPD and SSR analyses, 60 S. sclerotiorum isolates representing 22 MCGs were grouped in 2 and 3 distinct clusters, respectively. Analyses using RAPD and SSR markers illustrated that cluster groupings or genetic distance of S. sclerotiorum populations from eggplant were not distinctly relative to the MCG, geographical origin and virulence diversity. The patterns obtained revealed a high heterogeneity of genetic composition and suggested the occurrence of clonal and sexual reproduction of S. sclerotiorum on eggplant in the areas surveyed.

  3. Syngeneic AAV pseudo-vectors potentiates full vector transduction

    Science.gov (United States)

    An excessive amount of empty capsids are generated during regular AAV vector production process. These pseudo-vectors often remain in final vectors used for animal studies or clinical trials. The potential effects of these pseudo-vectors on AAV transduction have been a major concern. In the current ...

  4. Solutions of selected pseudo loop equations in water distribution ...

    African Journals Online (AJOL)

    This paper demonstrated the use of Microsoft Excel Solver (a computer package) in solving selected pseudo loop equations in pipe network analysis problems. Two pipe networks with pumps and overhead tanks were used to demonstrate the use of Microsoft Excel Solver in solving pseudo loops (open loops; networks with ...

  5. Fast and cost-effective single nucleotide polymorphism (SNP) detection in the absence of a reference genome using semideep next-generation Random Amplicon Sequencing (RAMseq).

    Science.gov (United States)

    Bayerl, Helmut; Kraus, Robert H S; Nowak, Carsten; Foerster, Daniel W; Fickel, Joerns; Kuehn, Ralph

    2017-09-15

    Biodiversity has suffered a dramatic global decline during the past decades, and monitoring tools are urgently needed providing data for the development and evaluation of conservation efforts both on a species and on a genetic level. However, in wild species, the assessment of genetic diversity is often hampered by the lack of suitable genetic markers. In this article, we present Random Amplicon Sequencing (RAMseq), a novel approach for fast and cost-effective detection of single nucleotide polymorphisms (SNPs) in nonmodel species by semideep sequencing of random amplicons. By applying RAMseq to the Eurasian otter (Lutra lutra), we identified 238 putative SNPs after quality filtering of all candidate loci and were able to validate 32 of 77 loci tested. In a second step, we evaluated the genotyping performance of these SNP loci in noninvasive samples, one of the most challenging genotyping applications, by comparing it with genotyping results of the same faecal samples at microsatellite markers. We compared (i) polymerase chain reaction (PCR) success rate, (ii) genotyping errors and (iii) Mendelian inheritance (population parameters). SNPs produced a significantly higher PCR success rate (75.5% vs. 65.1%) and lower mean allelic error rate (8.8% vs. 13.3%) than microsatellites, but showed a higher allelic dropout rate (29.7% vs. 19.8%). Genotyping results showed no deviations from Mendelian inheritance in any of the SNP loci. Hence, RAMseq appears to be a valuable tool for the detection of genetic markers in nonmodel species, which is a common challenge in conservation genetic studies. © 2017 John Wiley & Sons Ltd.

  6. Pseudo-populations a basic concept in statistical surveys

    CERN Document Server

    Quatember, Andreas

    2015-01-01

    This book emphasizes that artificial or pseudo-populations play an important role in statistical surveys from finite universes in two manners: firstly, the concept of pseudo-populations may substantially improve users’ understanding of various aspects in the sampling theory and survey methodology; an example of this scenario is the Horvitz-Thompson estimator. Secondly, statistical procedures exist in which pseudo-populations actually have to be generated. An example of such a scenario can be found in simulation studies in the field of survey sampling, where close-to-reality pseudo-populations are generated from known sample and population data to form the basis for the simulation process. The chapters focus on estimation methods, sampling techniques, nonresponse, questioning designs and statistical disclosure control.This book is a valuable reference in understanding the importance of the pseudo-population concept and applying it in teaching and research.

  7. A Developmental and Sequenced One-to-One Educational Intervention (DS1-EI for autism spectrum disorder: a randomized single-blind controlled trial.

    Directory of Open Access Journals (Sweden)

    TANET Antoine

    2016-09-01

    Full Text Available Introduction: Individuals with Autism Spectrum Disorder (ASD who also exhibit severe to moderate ranges of intellectual disability (ID still face many challenges (i.e. less evidence-based trials, less inclusion in school with peers.Methods: We implemented a novel model called the Developmental and Sequenced One-to-One Educational Intervention (DS1-EI in 5-9-year-old children with co-occurring ASD and ID. The treatment protocol was adapted for school implementation by designing it using an educational agenda. The intervention was based on intensity, regular assessments, updating objectives, encouraging spontaneous communication, promoting skills through play with peers, supporting positive behaviours, providing supervision, capitalizing on teachers’ unique skills, and providing developmental and sequenced learning. Developmental learning implies that the focus of training is what is close to the developmental expectations given a child’s development in a specific domain. Sequenced learning means that the teacher changes the learning activities every 10-15 minutes to maintain the child’s attention in the context of an anticipated time agenda.We selected 11 French institutions in which we implemented the model in small classrooms. Each institution recruited participants per dyads matched by age, sex and developmental quotient. Patients from each dyad were then randomized to a DS1-EI group or a Treatment as usual (TAU group for 36 months. The primary variables – the Childhood Autism Rating scale (CARS and the psychoeducational profile (PEP-3 – will be blindly assessed by independent raters at the 18-month and 36-month follow-up.Discussion and baseline description: We enrolled 75 participants: 38 were randomized to the DS1-EI and 37 to the TAU groups. At enrolment, we found no significant differences in participants’ characteristics between groups. As expected, exposure to school was the only significant difference (9.4 (±4.1 h/week in

  8. Prospective examination of anxiety and depression before and during confirmed and pseudo-exacerbations in patients with Multiple Sclerosis

    Science.gov (United States)

    Burns, Michelle Nicole; Nawacki, Ewa; Siddique, Juned; Pelletier, Daniel; Mohr, David C.

    2012-01-01

    Objective Although some studies have suggested a relationship between MS exacerbations and psychological distress, methodological weaknesses limit their conclusions. This study was aimed to determine whether pseudo- and confirmed MS exacerbations are preceded by or concurrent with increased anxiety or depressive symptoms. Methods This was a secondary analysis of 121 patients with MS who were followed for 48 weeks during a randomized controlled trial. Participants completed monthly self-reports on depressive and anxiety symptoms. Patient-reported exacerbations were assessed through a phone-administered symptom checklist and neurological exam. Results Both pseudo-exacerbations and confirmed exacerbations were associated with concurrent somatic depressive, β = .16 and β = .33, respectively, ps anxiety symptoms, β = .24 and β = .20, ps anxiety symptoms relative to baseline predicted subsequent onset of pseudo-exacerbations, odds ratio [OR] = 1.54, p = .02, while increased somatic depressive symptoms predicted confirmed exacerbations, OR = 1.59, p = .01. Conclusion Patients with MS experiencing pseudo- or confirmed exacerbations should be assessed and monitored for depressive and anxiety symptoms, and confirmed exacerbations are particularly concerning in patients with a history of depression. The psychological or psychiatric antecedents of MS exacerbations generate new hypotheses on etiologies of confirmed and pseudo-exacerbations. Trial Registration ClinicalTrials.gov (NCT00147446). PMID:23197840

  9. La tuberculose abdominale pseudo-tumorale

    Science.gov (United States)

    El Barni, Rachid; Lahkim, Mohamed; Achour, Abdessamad

    2012-01-01

    Introduction L’objectif de ce travail est de rapporter cinq cas de tuberculose abdominale pseudo-tumorale afin d’en souligner les aspects diagnostiques et thérapeutiques. Cinq observations sont colligées dans le service de chirurgie générale de l’hôpital militaire Avicenne de Marrakech au cours de l’année 2007. Les aspects cliniques sont disparates. Ainsi, les auteurs ont noté un syndrome péritonéal dans un cas, une masse épigastrique dans un cas, une lésion suspect du sigmoïde dans un cas, une masse de la fosse iliaque droite dans un cas et une altération de l’état général avec fièvre dans le dernier cas. Un seul patient avaient bénéficié d’une biopsie scano-guidée et les quatre patients restants avaient été opérés. Une masse du méso côlon était notée dans le premier cas. Dans le second cas, l’aspect de la masse épigastrique et son siège avaient orienté vers une tumeur du grand omentum. Une localisation tuberculeuse péritonéale et sigmoïdienne avait été trouvée dans le troisième cas. Le diagnostic d’une tumeur du côlon droit était hautement suspect chez le patient séropositif qui avait présenté une péritonite post-opératoire et décédé à J + 3 dans un tableau de choc septique. Le siège et l’aspect nécrotique des lésions trouvées à la tomodensitométrie chez la seule patiente de l’étude avaient fait discuter en premier un lymphome. Même en l’absence d’antécédents de tuberculose pulmonaire, le diagnostic tuberculose abdominale pseudo-tumorale doit être évoqué surtout dans un pays d’endémie comme le notre et le recours à une laparotomie est justifié chaque fois que persiste un doute diagnostique ou en cas de complication. PMID:23330023

  10. Predicting Consensus Structures for RNA Alignments Via Pseudo-Energy Minimization

    Directory of Open Access Journals (Sweden)

    Junilda Spirollari

    2009-01-01

    Full Text Available Thermodynamic processes with free energy parameters are often used in algorithms that solve the free energy minimization problem to predict secondary structures of single RNA sequences. While results from these algorithms are promising, an observation is that single sequence-based methods have moderate accuracy and more information is needed to improve on RNA secondary structure prediction, such as covariance scores obtained from multiple sequence alignments. We present in this paper a new approach to predicting the consensus secondary structure of a set of aligned RNA sequences via pseudo-energy minimization. Our tool, called RSpredict, takes into account sequence covariation and employs effective heuristics for accuracy improvement. RSpredict accepts, as input data, a multiple sequence alignment in FASTA or ClustalW format and outputs the consensus secondary structure of the input sequences in both the Vienna style Dot Bracket format and the Connectivity Table format. Our method was compared with some widely used tools including KNetFold, Pfold and RNAalifold. A comprehensive test on different datasets including Rfam sequence alignments and a multiple sequence alignment obtained from our study on the Drosophila X chromosome reveals that RSpredict is competitive with the existing tools on the tested datasets. RSpredict is freely available online as a web server and also as a jar file for download at http:// datalab.njit.edu/biology/RSpredict.

  11. The theory of pseudo-rigid bodies

    CERN Document Server

    Cohen, Harley

    1988-01-01

    This monograph concerns the development, analysis, and application of the theory of pseudo-rigid bodies. It collects together our work on that subject over the last five years. While some results have appeared else­ where, much of the work is new. Our objective in writing this mono­ graph has been to present a new theory of the deformation of bodies, one that has not only a firm theoretical basis, but also the simplicity to serve as an effective tool in practical problems. Consequently, the main body of the treatise is a multifaceted development of the theory, from foundations to explicit solutions to linearizations to methods of approximation. The fact that this variety of aspects, each examined in considerable detail, can be collected together in a single, unified treat­ ment gives this theory an elegance that we feel sets it apart from many others. While our goal has always been to give a complete treatment of the theory as it now stands, the work here is not meant to be definitive. Theories are not ent...

  12. Loop-Effects in Pseudo-Supersymmetry

    Energy Technology Data Exchange (ETDEWEB)

    Klein, Matthias

    2002-11-01

    We analyze the transmission of supersymmetry breaking in brane-world models of pseudo-supersymmetry. In these models two branes preserve different halves of the bulk supersymmetry. Thus supersymmetry is broken although each sector of the model is supersymmetric when considered separately. The world-volume theory on one brane feels the breakdown of supersymmetry only through two-loop interactions involving a coupling to fields from the other brane. In a 5D toy model with bulk vectors, we compute the diagrams that contribute to scalar masses on one brane and find that the masses are proportional to the compactification scale up to logarithmic corrections, m{sup 2} {infinity} (2{pi}R){sup -2} (ln(2{pi}R m{sub S}) - 1.1), where m{sub s} is an ultraviolet cutoff. Thus, for large compactification radii, where this result is valid, the brane scalars acquire a positive mass squared. We also compute the three-loop diagrams relevant to the Casimir energy between the two branes and find E {infinity} (2{pi}R){sup -4}((ln(2{pi}R m{sub S}) - 1.7){sup 2} + 0.2). For large radii, this yields a repulsive Casimir force.

  13. Seeing the trees through the forest : sequence-based homo- and heteromeric protein-protein interaction sites prediction using random forest

    NARCIS (Netherlands)

    Hou, Qingzhen; De Geest, Paul F.G.; Vranken, Wim F.; Heringa, Jaap; Feenstra, K. Anton

    2017-01-01

    Motivation: Genome sequencing is producing an ever-increasing amount of associated protein sequences. Few of these sequences have experimentally validated annotations, however, and computational predictions are becoming increasingly successful in producing such annotations. One key challenge remains

  14. Hacerse y volverse como nexos pseudo-copulativos

    OpenAIRE

    Delbecque, Nicole; Van Gorp, Lise

    2013-01-01

    Cette contribution aborde les différences conceptuelles entre les pseudo-copules hacerse et volverse, partant des notions de «réalisation» et de «régression» qui caractérisent leurs emplois lexicaux. Esta contribución aborda las diferencias conceptuales entre las pseudo-cópulas hacerse y volverse, partiendo de las nociones de «realización» y de «regresión» que caracterizan sus empleos léxicos. This contribution tackles the conceptual differences between the pseudo-copulas hacerse and vo...

  15. Pseudo-Supersymmetry and the Domain-Wall/Cosmology Correspondence

    OpenAIRE

    Skenderis, K.; Townsend, P. K.

    2006-01-01

    The correspondence between domain-wall and cosmological solutions of gravity coupled to scalar fields is explained. Any domain wall solution that admits a Killing spinor is shown to correspond to a cosmology that admits a pseudo-Killing spinor: whereas the Killing spinor obeys a Dirac-type equation with hermitian `mass'-matrix, the corresponding pseudo-Killing spinor obeys a Dirac-type equation with a anti-hermitian `mass'-matrix. We comment on some implications of (pseudo)supersymmetry.

  16. Impact of Sequencing Radiation Therapy and Chemotherapy on Long-Term Local Toxicity for Early Breast Cancer: Results of a Randomized Study at 15-Year Follow-Up

    Energy Technology Data Exchange (ETDEWEB)

    Pinnarò, Paola; Giordano, Carolina; Farneti, Alessia [Department of Radiation Oncology, Regina Elena National Cancer Institute, Rome (Italy); Strigari, Lidia; Landoni, Valeria [Department of Physics, Regina Elena National Cancer Institute, Rome (Italy); Marucci, Laura; Petrongari, Maria Grazia [Department of Radiation Oncology, Regina Elena National Cancer Institute, Rome (Italy); Sanguineti, Giuseppe, E-mail: sanguineti@ifo.it [Department of Radiation Oncology, Regina Elena National Cancer Institute, Rome (Italy)

    2016-07-15

    Purpose: To compare long-term late local toxicity after either concomitant or sequential chemoradiation therapy after breast-conserving surgery. Methods and Materials: From 1997 to 2002, women aged 18 to 75 years who underwent breast-conserving surgery and axillary dissection for early breast cancer and in whom CMF (cyclophosphamide, methotrexate, and 5-fluorouracil) chemotherapy was planned were randomized between concomitant and sequential radiation therapy. Radiation therapy was delivered to the whole breast through tangential fields to 50 Gy in 20 fractions over a period of 4 weeks, followed by an electron boost. Surviving patients were tentatively contacted and examined between March and September 2014. Patients in whom progressive disease had developed or who had undergone further breast surgery were excluded. Local toxicity (fibrosis, telangiectasia, and breast atrophy or retraction) was scored blindly to the treatment received. A logistic regression was run to investigate the effect of treatment sequence after correction for several patient-, treatment-, and tumor-related covariates on selected endpoints. The median time to cross-sectional analysis was 15.7 years (range, 12.0-17.8 years). Results: Of 206 patients randomized, 154 (74.8%) were potentially eligible. Of these, 43 (27.9%) refused participation and 4 (2.6%) had been lost to follow-up, and for 5 (3.2%), we could not restore planning data; thus, the final number of analyzed patients was 102. No grade 4 toxicity had been observed, whereas the number of grade 3 toxicity events was low (<8%) for each item, allowing pooling of grade 2 and 3 events for further analysis. Treatment sequence (concomitant vs sequential) was an independent predictor of grade 2 or 3 fibrosis according to both the National Cancer Institute Common Terminology Criteria for Adverse Events (odds ratio [OR], 4.05; 95% confidence interval [CI], 1.34-12.2; P=.013) and the SOMA (Subjective, Objective, Management and Analytic

  17. Pseudo-differential operators groups, geometry and applications

    CERN Document Server

    Zhu, Hongmei

    2017-01-01

    This volume consists of papers inspired by the special session on pseudo-differential operators at the 10th ISAAC Congress held at the University of Macau, August 3-8, 2015 and the mini-symposium on pseudo-differential operators in industries and technologies at the 8th ICIAM held at the National Convention Center in Beijing, August 10-14, 2015. The twelve papers included present cutting-edge trends in pseudo-differential operators and applications from the perspectives of Lie groups (Chapters 1-2), geometry (Chapters 3-5) and applications (Chapters 6-12). Many contributions cover applications in probability, differential equations and time-frequency analysis. A focus on the synergies of pseudo-differential operators with applications, especially real-life applications, enhances understanding of the analysis and the usefulness of these operators.

  18. Pseudo-Goldstone modes in isospin-asymmetric nuclear matter

    Energy Technology Data Exchange (ETDEWEB)

    Cohen, T.D. [Univ. of Washington, Seattle, WA (United States); Broniowski, W. [H. Niewodniczanski Institute of Nuclear Physics, Cracow (Poland)

    1995-01-01

    The authors analyze the chiral limit in dense isospin-asymmetric nuclear matter. It is shown that the pseudo-Goldstone modes in this system are qualitatively different from the case of isospin-symmetric matter.

  19. Pseudo-Goldstone modes in isospin-asymmetric nuclear matter

    Energy Technology Data Exchange (ETDEWEB)

    Cohen, T.D. [Washington Univ., Seattle, WA (United States). Dept. of Physics; Broniowski, W. [Institute of Nuclear Physics, Cracow (Poland)

    1994-12-01

    We analyze the chiral limit in dense isoptin-asymmetric nuclear matter. It is shown that the pseudo-Goldstone modes in this system are qualitatively different from the case of isospin-symmetric matter. (author). 20 refs.

  20. Her-entingen tegen Pseudo Vogelpest (NCD) op 'Het Spelderholt'

    NARCIS (Netherlands)

    Voorst, van A.

    1993-01-01

    Pseudo Vogelpest of NCD is een gevreesde virusziekte, waartegen een entverplichting geldt. Na het uitbreken van de ziekte in het zuiden van Nederland is al het volwassen pluimvee op Het Spelderholt opnieuw geënt.

  1. Pseudo-outbreak of Actinomyces graevenitzii associated with bronchoscopy.

    Science.gov (United States)

    Peaper, David R; Havill, Nancy L; Aniskiewicz, Michael; Callan, Deborah; Pop, Olivia; Towle, Dana; Boyce, John M

    2015-01-01

    Outbreaks and pseudo-outbreaks of infection related to bronchoscopy typically involve Gram-negative bacteria, Mycobacterium species or Legionella species. We report an unusual bronchoscopy-related pseudo-outbreak due to Actinomyces graevenitzii. Extensive epidemiological and microbiological investigation failed to identify a common source. Strain typing revealed that the cluster was comprised of heterogeneous strains of A. graevenitzii. A change in laboratory procedures for Actinomyces cultures was coincident with the emergence of the pseudo-outbreak, and we determined that A. graevenitzii isolates more readily adopted a white, dry, molar tooth appearance on anaerobic colistin nalidixic acid (CNA) agar which likely facilitated its detection and identification in bronchoscopic specimens. This unusual pseudo-outbreak was related to frequent requests of bronchoscopists for Actinomyces cultures combined with a change in microbiology laboratory practices. Copyright © 2015, American Society for Microbiology. All Rights Reserved.

  2. Pseudo-telepathy: input cardinality and Bell-type inequalities

    OpenAIRE

    Gisin, Nicolas; Methot, André; Scarani, Valerio

    2006-01-01

    Pseudo-telepathy is the most recent form of rejection of locality. Many of its properties have already been discovered: for instance, the minimal entanglement, as well as the minimal cardinality of the output sets, have been characterized. This paper contains two main results. First, we prove that no bipartite pseudo-telepathy game exists, in which one of the partners receives only two questions; as a corollary, we show that the minimal "input cardinality", that is, the minimal number of ques...

  3. Maximally entangled states in pseudo-telepathy games

    OpenAIRE

    Mančinska, Laura

    2015-01-01

    A pseudo-telepathy game is a nonlocal game which can be won with probability one using some finite-dimensional quantum strategy but not using a classical one. Our central question is whether there exist two-party pseudo-telepathy games which cannot be won with probability one using a maximally entangled state. Towards answering this question, we develop conditions under which maximally entangled states suffice. In particular, we show that maximally entangled states suffice for weak projection...

  4. On Some (Pseudo) Involutions in the Riordan Group

    Science.gov (United States)

    Cameron, Naiomi T.; Nkwanta, Asamoah

    2005-08-01

    In this paper, we address a question posed by L. Shapiro regarding algebraic and/or combinatorial characterizations of the elements of order 2 in the Riordan group. We present two classes of combinatorial matrices having pseudo-order 2. In one class, we find generalizations of Pascal's triangle and use some special cases to discover and prove interesting identities. In the other class, we find generalizations of Nkwanta's RNA triangle and show that they are pseudo-involutions.

  5. Diagnosis and Treatment of Pseudo-Class III Malocclusion

    OpenAIRE

    Ariel Reyes; Luis Serret; Marcos Peguero; Orlando Tanaka

    2014-01-01

    Pseudo-Class III malocclusion is characterized by the presence of an anterior crossbite due to a forward functional displacement of the mandible; in most cases, the maxillary incisors present some degree of retroclination, and the mandibular incisors are proclined. Various types of appliances have been described in the literature for the early treatment of pseudo-Class III malocclusion. The objectives of this paper are to demonstrate the importance of making the differential diagnosis between...

  6. Study of gray image pseudo-color processing algorithms

    Science.gov (United States)

    Hu, Jinlong; Peng, Xianrong; Xu, Zhiyong

    In gray images which contain abundant information, if the differences between adjacent pixels' intensity are small, the required information can not be extracted by humans, since humans are more sensitive to color images than gray images. If gray images are transformed to pseudo-color images, the details of images will be more explicit, and the target will be recognized more easily. There are two methods (in frequency field and in spatial field) to realize pseudo-color enhancement of gray images. The first method is mainly the filtering in frequency field, and the second is the equal density pseudo-color coding methods which mainly include density segmentation coding, function transformation and complementary pseudo-color coding. Moreover, there are many other methods to realize pseudo-color enhancement, such as pixel's self-transformation based on RGB tri-primary, pseudo-color coding from phase-modulated image based on RGB color model, pseudo-color coding of high gray-resolution image, et al. However, above methods are tailored to a particular situation and transformations are based on RGB color space. In order to improve the visual effect, the method based on RGB color space and pixels' self-transformation is improved in this paper, which is based on HIS color space. Compared with other methods, some gray images with ordinary formats can be processed, and many gray images can be transformed to pseudo-color images with 24 bits. The experiment shows that the processed image has abundant levels, which is consistent with human's perception.

  7. Gastric pseudo-ulcers: membrana angularis and pyloric torus defects.

    Science.gov (United States)

    Peavy, P W; Clements, J L; Weens, H S

    1975-03-01

    The membrana angularis and pyloric torus defects are two physiologic bulges which can simulate ulcerations along the lesser curvature of the stomach. The muscular anatomy of the stomach and the mechanism which produces these pseudo-ulcers are discussed. Both pseudoniches can be seen transiently in normal individuals but occasionally are such prominence as to become diagnostic pitfalls. The features and significance of each pseudo-ulcer are reviewed in an attempt to facilitate recognition on the upper gastrointestinal barium examination.

  8. Pseudo-Hermitian quantum mechanics with unbounded metric operators.

    Science.gov (United States)

    Mostafazadeh, Ali

    2013-04-28

    I extend the formulation of pseudo-Hermitian quantum mechanics to η(+)-pseudo-Hermitian Hamiltonian operators H with an unbounded metric operator η(+). In particular, I give the details of the construction of the physical Hilbert space, observables and equivalent Hermitian Hamiltonian for the case that H has a real and discrete spectrum and its eigenvectors belong to the domain of η(+) and consequently √η(+).

  9. Doubly stochastic (pseudo)gene expression in the regulation of cancer

    Science.gov (United States)

    Petrosyan, K. G.; Hu, Chin-Kun

    2017-08-01

    We extend a model of the regulation of cancer by gene and pseudogene messenger RNAs to take into account cell-to-cell variability. This introduces an additional randomness to the intensity of the intracellular noise. The intracellular stochasticity is modelled via an additive white noise source and the intercellular stochasticity, or randomness, is modelled via a steady-state Γ -distribution for the intracellular noise intensity. The doubly stochastic process is treated numerically and displays a difference compared with the single stochastic (pseudo)gene expression process, which is the randomness-induced shift of the onset of even-odd oscillations in the number of molecules. Similarities to experimental outcomes in the related literature are pointed out.

  10. Intrafamilial, Preferentially Mother-to-Child and Intraspousal, Helicobacter pylori Infection in Japan Determined by Mutilocus Sequence Typing and Random Amplified Polymorphic DNA Fingerprinting.

    Science.gov (United States)

    Yokota, Shin-ichi; Konno, Mutsuko; Fujiwara, Shin-ichi; Toita, Nariaki; Takahashi, Michiko; Yamamoto, Soh; Ogasawara, Noriko; Shiraishi, Tsukasa

    2015-10-01

    The infection route of Helicobacter pylori has been recognized to be mainly intrafamilial, preferentially mother-to-child, especially in developed countries. To determine the transmission route, we examined whether multilocus sequence typing (MLST) was useful for analysis of intrafamilial infection. The possibility of intraspousal infection was also evaluated. Clonal relationships between strains derived from 35 index Japanese pediatric patients, and their family members were analyzed by two genetic typing procedures, MLST and random amplified polymorphic DNA (RAPD) fingerprinting. Mostly coincident results were obtained by MLST and RAPD. By MLST, the allele of loci in the isolates mostly matched between the index child and both the father and mother for 9 (25.7%) of the 35 patients, between the index child and the mother for 25 (60.0%) of the 35 patients. MLST is useful for analyzing the infection route of H. pylori as a highly reproducible method. Intrafamilial, especially mother-to-children and sibling, infection is the dominant transmission route. Intraspousal infection is also thought to occur in about a quarter in the Japanese families. © 2015 John Wiley & Sons Ltd.

  11. "Pseudo" nomenclature in dermatology: What′s in a name?

    Directory of Open Access Journals (Sweden)

    Sangita Ghosh

    2013-01-01

    Full Text Available In the bewildering array of scientific nomenclature in the medical field, it is important to use correct terminology, know their aberrations and the reason behind a specific terminology. This paper is an attempt towards compiling all the pseudo-nomenclatures coined in dermatology, in order to make it easier to retain and recollect these pseudo names, signs, morphology, diseases, and conditions. It is also imperative to know the true entities that these pseudo names masquerade as, so as to understand the explanation for assigning the term ′pseudo′ to these conditions. A total of 52 pseudo-terms have been compiled here in reference to dermatology. Most of these pseudo-nomenclatures were coined due to some clinical or histopathological resemblance to the true conditions, while some were premature conclusions drawn from a flawed understanding of the basic nature of the condition. Clear understanding of each of these terms and the explanation behind them being pseudo will enable a dermatologist to avoid misdiagnosis and needless confusion.

  12. Frame approximation of pseudo-inverse operators

    DEFF Research Database (Denmark)

    Christensen, Ole

    2001-01-01

    Let T denote an operator on a Hilbert space (H, [.,.]), and let {f(i)}(i=1)(infinity) be a frame for the orthogonal complement of the kernel NT. We construct a sequence of operators {Phi (n)} of the form Phi (n) (.) = Sigma (n)(i=1) [., g(t)(n)]f(i) which converges to the psuedo-inverse T+ of T...

  13. Pseudo-spin band in the odd-odd nucleus sup 1 sup 7 sup 2 Lu

    CERN Document Server

    Venkova, T; Gast, W; Podsvirova, E O; Jäger, H M; Mihailescu, L; Bazzacco, D; Menegazzo, R; Lunardi, S; Alvarez, C R; Ur, C; Martínez, T; Angelis, G D; Axiotis, M; Napoli, D; Urban, W; Rzaca-Urban, T; Frauendorf, S

    2003-01-01

    High-spin states in the odd-odd nucleus sup 1 sup 7 sup 2 Lu have been populated in a sup 1 sup 7 sup 0 Er( sup 7 Li,5n) reaction and the emitted gamma-radiation was detected with the GASP array. Two sequences of a new identical band have been observed with the transition energies in the favoured and unfavoured sequences being identical within approx 3 keV at low spins and approx 1 keV at high spins over the whole observed spin range. An interpretation as a pseudo-spin singlet band of pi 1/2 sup - [541] x nu 1/2 sup - [420] configuration is proposed. It represents the best example of a pseudo-spin singlet band in normal deformed nuclei known until now.

  14. Applications of the pseudo-harmonics to the multidimensional kinetics; Aplicacao do metodo dos pseudo-harmonicos a cinetica multidimensional

    Energy Technology Data Exchange (ETDEWEB)

    Lima, Zelmo Rodrigues de; Silva, Fernando Carvalho da; Alvim, Antonio C. Marques [Universidade Federal, Rio de Janeiro, RJ (Brazil). Coordenacao dos Programas de Pos-graduacao de Engenharia. Programa de Engenharia Nuclear]. E-mail: zelmo@con.ufrj.br; fernando@con.ufrj.br; alvim@con.ufrj.br

    2005-07-01

    In this work we propose the application of the pseudo-harmonics in modal methods of spatial kinetics. The pseudo-harmonics, or the pseudo-modes, are the eigenfunctions associated to the leakage+removal operator in each group of energy of the steady-state diffusion equation. This operator is self-adjoint and it is not necessary to calculate the adjoints eigenfunctions. In the present work the pseudo-harmonics will be obtained starting from the equation of diffusion discretized by the coarse-mesh finite difference (CMFD). The modal methods approximate the time-dependent flux for an expansion in functions predetermined, that include the spatial dependence, with unknown expansion coefficients, that include the whole dependent part of the time. The obtaining of the system whose solution they are the coefficients of the modal expansion is done with aid of a function weight. Using the pseudomodes obtained in the steady state calculations, in the modal expansion as been the dependent functions of the space, we will show that the function weight can be chosen as being the own adjoint pseudo-modes. This calculation leads to a linear system of ordinary differential equations with the defined dimension for the number of pseudo-harmonics employed. The solution of the equations is built through the analytical integration of the equations of the precursor of delayed neutron. The proposed method was tested and it present good results, when compared with the direct method. (author)

  15. When Is "Pseudo-Ludwig's Angina" Associated With Coagulopathy Also a "Pseudo" Hemorrhage?

    Science.gov (United States)

    Lovallo, Emily; Patterson, Sarah; Erickson, Mitchel; Chin, Cynthia; Blanc, Paul; Durrani, Timur S

    2013-01-01

    Sublingual hematoma secondary to short-acting anticoagulants such as warfarin has been labeled "pseudo-Ludwig's angina" to distinguish it from the classic syndrome of localized infection and swelling involving the upper airway. Sublingual hematoma with airway compromise secondary to brodifacoum, a common long-acting anticoagulant rodenticide, has only been reported in the veterinary literature. We report a case of massive tongue swelling and impending airway compromise in the context of an intentional long-acting anticoagulant ingestion leading to coagulopathy. The swelling was initially presumed to be due either to infection or hemorrhage, but this was not supported by computed tomography scan imaging. Instead, the patient's clinical course was consistent with corticosteroid-responsive angioedema, temporally associated with the ingested brodifacoum.

  16. Dynamical system modeling to simulate donor T cell response to whole exome sequencing-derived recipient peptides: Understanding randomness in alloreactivity incidence following stem cell transplantation.

    Directory of Open Access Journals (Sweden)

    Vishal Koparde

    Full Text Available Quantitative relationship between the magnitude of variation in minor histocompatibility antigens (mHA and graft versus host disease (GVHD pathophysiology in stem cell transplant (SCT donor-recipient pairs (DRP is not established. In order to elucidate this relationship, whole exome sequencing (WES was performed on 27 HLA matched related (MRD, & 50 unrelated donors (URD, to identify nonsynonymous single nucleotide polymorphisms (SNPs. An average 2,463 SNPs were identified in MRD, and 4,287 in URD DRP (p<0.01; resulting peptide antigens that may be presented on HLA class I molecules in each DRP were derived in silico (NetMHCpan ver2.0 and the tissue expression of proteins these were derived from determined (GTex. MRD DRP had an average 3,670 HLA-binding-alloreactive peptides, putative mHA (pmHA with an IC50 of <500 nM, and URD, had 5,386 (p<0.01. To simulate an alloreactive donor cytotoxic T cell response, the array of pmHA in each patient was considered as an operator matrix modifying a hypothetical cytotoxic T cell clonal vector matrix; each responding T cell clone's proliferation was determined by the logistic equation of growth, accounting for HLA binding affinity and tissue expression of each alloreactive peptide. The resulting simulated organ-specific alloreactive T cell clonal growth revealed marked variability, with the T cell count differences spanning orders of magnitude between different DRP. Despite an estimated, uniform set of constants used in the model for all DRP, and a heterogeneously treated group of patients, higher total and organ-specific T cell counts were associated with cumulative incidence of moderate to severe GVHD in recipients. In conclusion, exome wide sequence differences and the variable alloreactive peptide binding to HLA in each DRP yields a large range of possible alloreactive donor T cell responses. Our findings also help understand the apparent randomness observed in the development of alloimmune responses.

  17. The Impact of Whole-Genome Sequencing on the Primary Care and Outcomes of Healthy Adult Patients: A Pilot Randomized Trial.

    Science.gov (United States)

    Vassy, Jason L; Christensen, Kurt D; Schonman, Erica F; Blout, Carrie L; Robinson, Jill O; Krier, Joel B; Diamond, Pamela M; Lebo, Matthew; Machini, Kalotina; Azzariti, Danielle R; Dukhovny, Dmitry; Bates, David W; MacRae, Calum A; Murray, Michael F; Rehm, Heidi L; McGuire, Amy L; Green, Robert C

    2017-06-27

    Whole-genome sequencing (WGS) in asymptomatic adults might prevent disease but increase health care use without clinical value. To describe the effect on clinical care and outcomes of adding WGS to standardized family history assessment in primary care. Pilot randomized trial. (ClinicalTrials.gov: NCT01736566). Academic primary care practices. 9 primary care physicians (PCPs) and 100 generally healthy patients recruited at ages 40 to 65 years. Patients were randomly assigned to receive a family history report alone (FH group) or in combination with an interpreted WGS report (FH + WGS group), which included monogenic disease risk (MDR) results (associated with Mendelian disorders), carrier variants, pharmacogenomic associations, and polygenic risk estimates for cardiometabolic traits. Each patient met with his or her PCP to discuss the report. Clinical outcomes and health care use through 6 months were obtained from medical records and audio-recorded discussions between PCPs and patients. Patients' health behavior changes were surveyed 6 months after receiving results. A panel of clinician-geneticists rated the appropriateness of how PCPs managed MDR results. Mean age was 55 years; 58% of patients were female. Eleven FH + WGS patients (22% [95% CI, 12% to 36%]) had new MDR results. Only 2 (4% [CI, 0.01% to 15%]) had evidence of the phenotypes predicted by an MDR result (fundus albipunctatus due to RDH5 and variegate porphyria due to PPOX). Primary care physicians recommended new clinical actions for 16% (CI, 8% to 30%) of FH patients and 34% (CI, 22% to 49%) of FH + WGS patients. Thirty percent (CI, 17% to 45%) and 41% (CI, 27% to 56%) of FH and FH + WGS patients, respectively, reported making a health behavior change after 6 months. Geneticists rated PCP management of 8 MDR results (73% [CI, 39% to 99%]) as appropriate and 2 results (18% [CI, 3% to 52%]) as inappropriate. Limited sample size and ancestral and socioeconomic diversity. Adding WGS to primary care

  18. Identification and characterisation of the dominant Pseudo-nitzschia species (Bacillariophyceae along the NE Spanish coast (Catalonia, NW Mediterranean

    Directory of Open Access Journals (Sweden)

    Sonia Quijano-Scheggia

    2008-06-01

    Full Text Available Potentially toxic species of the genus Pseudo-nitzschia were studied along the Spanish NW Mediterranean coast from January 2005 to May 2006. Observation in electron microscopy revealed the presence of Pseudo-nitzschia brasiliana, P. calliantha, P. delicatissima, P. fraudulenta, P. multistriata and P. pungens. Several strains were isolated from coastal waters and their clonal cultures were compared by combined techniques, including light and electron microscopy and internal transcribed spacer (ITS-1, 5.8S and ITS-2 rDNA sequencing. Cultured isolates were submitted to HPLC analysis of pigments to evaluate the possibility of taxonomic discriminations by means of a simple chemotaxonomic approach. The genus Pseudo-nitzschia showed high cell concentrations during most of the year, but the population initiated a sharp decline at all stations in the period between April and May. P. delicatissima with P. calliantha were found at the northern stations between February and April, and at the southern stations between August and November. P. brasiliana and P. multistriata were only occasionally detected in the southern region. None of the environmental variables considered was significant to explain the observed spatial and temporal distributions of Pseudo-nitzschia species in the area studied. Differences in the growth rate and cell yield of the species indicate that biotic factors may play a role in the observed distributional patterns.

  19. Development of a new method for detection and identification of Oenococcus oeni bacteriophages based on endolysin gene sequence and randomly amplified polymorphic DNA.

    Science.gov (United States)

    Doria, Francesca; Napoli, Chiara; Costantini, Antonella; Berta, Graziella; Saiz, Juan-Carlos; Garcia-Moruno, Emilia

    2013-08-01

    Malolactic fermentation (MLF) is a biochemical transformation conducted by lactic acid bacteria (LAB) that occurs in wine at the end of alcoholic fermentation. Oenococcus oeni is the main species responsible for MLF in most wines. As in other fermented foods, where bacteriophages represent a potential risk for the fermentative process, O. oeni bacteriophages have been reported to be a possible cause of unsuccessful MLF in wine. Thus, preparation of commercial starters that take into account the different sensitivities of O. oeni strains to different phages would be advisable. However, currently, no methods have been described to identify phages infecting O. oeni. In this study, two factors are addressed: detection and typing of bacteriophages. First, a simple PCR method was devised targeting a conserved region of the endolysin (lys) gene to detect temperate O. oeni bacteriophages. For this purpose, 37 O. oeni strains isolated from Italian wines during different phases of the vinification process were analyzed by PCR for the presence of the lys gene, and 25 strains gave a band of the expected size (1,160 bp). This is the first method to be developed that allows identification of lysogenic O. oeni strains without the need for time-consuming phage bacterial-lysis induction methods. Moreover, a phylogenetic analysis was conducted to type bacteriophages. After the treatment of bacteria with UV light, lysis was obtained for 15 strains, and the 15 phage DNAs isolated were subjected to two randomly amplified polymorphic DNA (RAPD)-PCRs. By combining the RAPD profiles and lys sequences, 12 different O. oeni phages were clearly distinguished.

  20. Analysis of entropy extraction efficiencies in random number generation systems

    Science.gov (United States)

    Wang, Chao; Wang, Shuang; Chen, Wei; Yin, Zhen-Qiang; Han, Zheng-Fu

    2016-05-01

    Random numbers (RNs) have applications in many areas: lottery games, gambling, computer simulation, and, most importantly, cryptography [N. Gisin et al., Rev. Mod. Phys. 74 (2002) 145]. In cryptography theory, the theoretical security of the system calls for high quality RNs. Therefore, developing methods for producing unpredictable RNs with adequate speed is an attractive topic. Early on, despite the lack of theoretical support, pseudo RNs generated by algorithmic methods performed well and satisfied reasonable statistical requirements. However, as implemented, those pseudorandom sequences were completely determined by mathematical formulas and initial seeds, which cannot introduce extra entropy or information. In these cases, “random” bits are generated that are not at all random. Physical random number generators (RNGs), which, in contrast to algorithmic methods, are based on unpredictable physical random phenomena, have attracted considerable research interest. However, the way that we extract random bits from those physical entropy sources has a large influence on the efficiency and performance of the system. In this manuscript, we will review and discuss several randomness extraction schemes that are based on radiation or photon arrival times. We analyze the robustness, post-processing requirements and, in particular, the extraction efficiency of those methods to aid in the construction of efficient, compact and robust physical RNG systems.

  1. Pseudo-Newtonian planar circular restricted 3-body problem

    Energy Technology Data Exchange (ETDEWEB)

    Dubeibe, F.L., E-mail: fldubeibem@unal.edu.co [Facultad de Ciencias Humanas y de la Educación, Universidad de los Llanos, Villavicencio (Colombia); Grupo de Investigación en Relatividad y Gravitación, Escuela de Física, Universidad Industrial de Santander, A.A. 678, Bucaramanga (Colombia); Lora-Clavijo, F.D., E-mail: fadulora@uis.edu.co [Grupo de Investigación en Relatividad y Gravitación, Escuela de Física, Universidad Industrial de Santander, A.A. 678, Bucaramanga (Colombia); González, Guillermo A., E-mail: guillermo.gonzalez@saber.uis.edu.co [Grupo de Investigación en Relatividad y Gravitación, Escuela de Física, Universidad Industrial de Santander, A.A. 678, Bucaramanga (Colombia)

    2017-02-12

    We study the dynamics of the planar circular restricted three-body problem in the context of a pseudo-Newtonian approximation. By using the Fodor–Hoenselaers–Perjés procedure, we perform an expansion in the mass potential of a static massive spherical source up to the first non-Newtonian term, giving place to a gravitational potential that includes first-order general relativistic effects. With this result, we model a system composed by two pseudo-Newtonian primaries describing circular orbits around their common center of mass, and a test particle orbiting the system in the equatorial plane. The dynamics of the new system of equations is studied in terms of the Poincaré section method and the Lyapunov exponents, where the introduction of a new parameter ϵ, allows us to observe the transition from the Newtonian to the pseudo-Newtonian regime. We show that when the Jacobian constant is fixed, a chaotic orbit in the Newtonian regime can be either chaotic or regular in the pseudo-Newtonian approach. As a general result, we find that most of the pseudo-Newtonian configurations are less stable than their Newtonian equivalent.

  2. Brain MR image segmentation using NAMS in pseudo-color.

    Science.gov (United States)

    Li, Hua; Chen, Chuanbo; Fang, Shaohong; Zhao, Shengrong

    2017-12-01

    Image segmentation plays a crucial role in various biomedical applications. In general, the segmentation of brain Magnetic Resonance (MR) images is mainly used to represent the image with several homogeneous regions instead of pixels for surgical analyzing and planning. This paper proposes a new approach for segmenting MR brain images by using pseudo-color based segmentation with Non-symmetry and Anti-packing Model with Squares (NAMS). First of all, the NAMS model is presented. The model can represent the image with sub-patterns to keep the image content and largely reduce the data redundancy. Second, the key idea is proposed that convert the original gray-scale brain MR image into a pseudo-colored image and then segment the pseudo-colored image with NAMS model. The pseudo-colored image can enhance the color contrast in different tissues in brain MR images, which can improve the precision of segmentation as well as directly visual perceptional distinction. Experimental results indicate that compared with other brain MR image segmentation methods, the proposed NAMS based pseudo-color segmentation method performs more excellent in not only segmenting precisely but also saving storage.

  3. Diagnosis and Treatment of Pseudo-Class III Malocclusion

    Science.gov (United States)

    Reyes, Ariel; Serret, Luis; Peguero, Marcos; Tanaka, Orlando

    2014-01-01

    Pseudo-Class III malocclusion is characterized by the presence of an anterior crossbite due to a forward functional displacement of the mandible; in most cases, the maxillary incisors present some degree of retroclination, and the mandibular incisors are proclined. Various types of appliances have been described in the literature for the early treatment of pseudo-Class III malocclusion. The objectives of this paper are to demonstrate the importance of making the differential diagnosis between a skeletal and a pseudo-Class III malocclusion and to describe the correction of an anterior crossbite. The association of maxillary expansion and a 2 × 4 appliance can successfully be used to correct anterior crossbites. PMID:25525526

  4. Diagnosis and Treatment of Pseudo-Class III Malocclusion

    Directory of Open Access Journals (Sweden)

    Ariel Reyes

    2014-01-01

    Full Text Available Pseudo-Class III malocclusion is characterized by the presence of an anterior crossbite due to a forward functional displacement of the mandible; in most cases, the maxillary incisors present some degree of retroclination, and the mandibular incisors are proclined. Various types of appliances have been described in the literature for the early treatment of pseudo-Class III malocclusion. The objectives of this paper are to demonstrate the importance of making the differential diagnosis between a skeletal and a pseudo-Class III malocclusion and to describe the correction of an anterior crossbite. The association of maxillary expansion and a 2 × 4 appliance can successfully be used to correct anterior crossbites.

  5. Occlusal rehabilitation of pseudo-class III patient.

    Science.gov (United States)

    Cardoso, Antônio Carlos; Ferreira, Cimara Fortes; Oderich, Elisa; Pedroso, Moira Leão; Wicks, Russell

    2015-01-01

    To treat a patient with anterior crossbite, the clinician should first assess if it is a genuine class III or a pseudo-class III malocclusion. Cephalometric analysis is important; however, registering a patient's centric relation (CR) is simple, quick, and costless and can play a decisive role in a differential diagnosis for this type of patient profile. This clinical report depicts a patient clinically diagnosed as class III. After mandible manipulation in CR, it was noted that the patient in question was a pseudo-class III. The treatment was based on the pseudo-class III diagnosis. Therefore, the patient was rehabilitated by occlusal adjustments and conventional and implant-supported prostheses and without the need for invasive orthognathic surgery. © 2014 by the American College of Prosthodontists.

  6. Pseudo-Glassification Material for G-Demption

    Energy Technology Data Exchange (ETDEWEB)

    Casella, Andrew M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Buck, Edgar C. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Gates, Robert O. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Riley, Brian J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2014-09-01

    G-Demption, LLC has requested that PPNL provide design input for a “pseudo-glassification” process associated with their proposed technology for generating gamma irradiation stations from used nuclear fuel. The irradiation design currently consists of an aluminum enclosure designed to allow for proper encapsulation of and heat flow from a used fuel rod while minimally impacting the streaming of gamma rays from the fuel. In order to make their design more robust, G-Demption is investigating the benefits of backfilling this aluminum enclosure with a setting material once the used fuel rod is properly placed. This process has been initially referred to as “pseudo-glassification”, and strives not to impact heat transport or gamma streaming from the used fuel rod while providing increased fuel rod protection and fission gas retention. PNNL has compiled an internal material evaluation and discussion for the “pseudo-glassification” process in this report.

  7. Pseudo-periodic maps and degeneration of Riemann surfaces

    CERN Document Server

    Matsumoto, Yukio

    2011-01-01

    The first part of the book studies pseudo-periodic maps of a closed surface of genus greater than or equal to two. This class of homeomorphisms was originally introduced by J. Nielsen in 1944 as an extension of periodic maps. In this book, the conjugacy classes of the (chiral) pseudo-periodic mapping classes are completely classified, and Nielsen’s incomplete classification is corrected. The second part applies the results of the first part to the topology of degeneration of Riemann surfaces. It is shown that the set of topological types of all the singular fibers appearing in one-parameter holomorphic families of Riemann surfaces is in a bijective correspondence with the set of conjugacy classes of the pseudo-periodic maps of negative twists. The correspondence is given by the topological monodromy.

  8. Optimal Base Encodings for Pseudo-Boolean Constraints

    CERN Document Server

    Codish, Michael; Fuhs, Carsten; Schneider-Kamp, Peter

    2010-01-01

    This paper formalizes the "optimal base problem", presents an algorithm to solve it, and describes its application to the encoding of Pseudo-Boolean constraints to SAT. We demonstrate the impact of integrating our algorithm within the Pseudo-Boolean constraint solver MiniSAT+. Experimentation indicates that our algorithm scales to consider bases involving numbers up to 1,000,000, improving on the restriction in MiniSAT+ to prime numbers up to 17. We show that, while for many examples primes up to 17 do suffice, encoding with respect to arbitrary bases improves the subsequent SAT solving time considerably.

  9. Intestinal pseudo-obstruction: An important diagnostic challenge

    Directory of Open Access Journals (Sweden)

    Carmen Salvador-Coloma

    2015-09-01

    Full Text Available We present the case of a 72-year-old patient admitted on various occasions with symptoms of intestinal pseudo-obstruction. Extensive diagnostic tests eventually found that the patient had small-cell lung cancer associated with high anti-HU antibody titres, which pointed to a probable paraneoplastic intestinal obstruction syndrome associated with small-cell lung cancer. A paraneoplastic syndrome causing abnormal changes in gastrointestinal motility can be the first signs of small cell lung cancer. These syndromes improve with treatment of the underlying disease, as seen in our patient, who stopped having episodes of intestinal pseudo-obstruction after administration of chemotherapy.

  10. Enhancing pseudo-telepathy in the magic square game.

    Directory of Open Access Journals (Sweden)

    Lukasz Pawela

    Full Text Available We study the possibility of reversing an action of a quantum channel. Our principal objective is to find a specific channel that reverses as accurately as possible an action of a given quantum channel. To achieve this goal we use semidefinite programming. We show the benefits of our method using the quantum pseudo-telepathy Magic Square game with noise. Our strategy is to move the pseudo-telepathy region to higher noise values. We show that it is possible to reverse the action of a noise channel using semidefinite programming.

  11. Enhancing pseudo-telepathy in the magic square game.

    Science.gov (United States)

    Pawela, Lukasz; Gawron, Piotr; Puchała, Zbigniew; Sładkowski, Jan

    2013-01-01

    We study the possibility of reversing an action of a quantum channel. Our principal objective is to find a specific channel that reverses as accurately as possible an action of a given quantum channel. To achieve this goal we use semidefinite programming. We show the benefits of our method using the quantum pseudo-telepathy Magic Square game with noise. Our strategy is to move the pseudo-telepathy region to higher noise values. We show that it is possible to reverse the action of a noise channel using semidefinite programming.

  12. Signed Distance Computation using the Angle Weighted Pseudo-normal

    DEFF Research Database (Denmark)

    Bærentzen, Jakob Andreas; Aanæs, Henrik

    2005-01-01

    , the surface is not \\$C\\^1\\$ continuous, hence, the normal is undefined at these loci. In this paper, we undertake to show that the angle weighted pseudo-normal (originally proposed by Thürmer and Wüthrich and independently by Sequin) has the important property that it allows us to discriminate between points...... of the distance computation. Moreover, it provides an additional argument in favour of the angle weighted pseudo-normals being the natural extension of the face normals. Apart from the theoretical results, we also propose a simple and efficient algorithm for computing the signed distance to a closed \\$C\\^0\\$ mesh...

  13. True versus Pseudo-Intestinal Malrotation: Case Series and Review.

    Science.gov (United States)

    Khara, Harshit S; Kothari, Shivangi T; Gruss, Claudia B; Langnas, Alan; Schafer, Daniel F; McCashland, Timothy M

    2013-10-01

    Intestinal malrotation is an anomaly of fetal intestinal rotation that can present with symptoms after birth or in early childhood, but is rarely diagnosed in adults. Patients who have symptomatic presentations require surgery. Other entities may mimic intestinal malrotation and respond to non-surgical management. We present 2 adult cases with the radiological diagnosis of intestinal malrotation: one with true malrotation presenting as a duodenal mass, and another with "pseudo-malrotation" due to altered anatomy. These cases illustrate the importance of recognizing and differentiating these rare adult presentations of true malrotation from "pseudo-malrotation" in regards to their acute management.

  14. "Divine water" in the alchemical writings of pseudo-Democritus.

    Science.gov (United States)

    Martelli, Matteo

    2009-03-01

    The name of the chemical solution (divine water) or (sulfur water) is characterised by semantic ambiguity: the term theion means both "divine" and "sulfur," and Greek alchemists frequently play on this polysemy. This article analyses the use of this and similar expressions in the writings of pseudo-Democritus from both a technical and a philological point of view. A fragment preserved by the alchemists Moses and Synesius shows that pseudo-Democritus knows two different kinds of this "water," the second of which recalls a recipe found in the chemical Leiden Papyrus, and that the composition of the substance determines the form of its name.

  15. Perturbation of sectorial projections of elliptic pseudo-differential operators

    DEFF Research Database (Denmark)

    Booss-Bavnbek, Bernhelm; Chen, Guoyuan; Lesch, Matthias

    2012-01-01

    Over a closed manifold, we consider the sectorial projection of an elliptic pseudo-differential operator A of positive order with two rays of minimal growth. We showthat it depends continuously on A when the space of pseudo-differential operators is equipped with a certain topology whichwe...... explicitly describe. Our main application deals with a continuous curve of arbitrary first order linear elliptic differential operators over a compact manifold with boundary. Under the additional assumption of the weak inner unique continuation property, we derive the continuity of a related curve...

  16. Study of pseudo soldering based on eddy current pulsed thermography

    Science.gov (United States)

    Zhou, Xiuyun; Xue, Yun; Chen, Yaqiu; Lu, Xiaochuan; Liu, Zhen

    2017-09-01

    Pseudo soldering defects can break the electrical and mechanical connection between components and the print circuit board and eventually cause failure of the whole electronic equipment. In this letter, the eddy current pulsed thermography (ECPT) method was used for defect inspection of small-sized solder joints. The identification of defects of solder joints is based on the heat transfer between various component structures. The experimental results indicated that the ECPT method can be effectively used for defect detection and location of the solder joints. In addition, it can distinguish different degrees of pseudo soldering.

  17. Bioequivalence of generic lamotrigine 100-mg tablets in healthy Thai male volunteers: a randomized, single-dose, two-period, two-sequence crossover study.

    Science.gov (United States)

    Srichaiya, Arunee; Longchoopol, Chaowanee; Oo-Puthinan, Sarawut; Sayasathid, Jarun; Sripalakit, Pattana; Viyoch, Jarupa

    2008-10-01

    Lamotrigine is an antiepileptic drug which has been used in the treatment of epilepsy and bipolar disorder. A search of the literature did not find previously published bioequivalence and pharmacokinetic evaluations of lamotrigine in healthy Thai male volunteers. The aim of this study was to compare the pharmacokinetic parameters between 2 brands of lamotrigine in healthy Thai male volunteers. A randomized, single-dose, 2-period, 2-sequence, crossover study design with a 2-week washout period was conducted in healthy Thai males. Subjects were randomized to receive either the test or reference formulation in the first period. All subjects were required to be nonsmokers and without a history of alcohol or drug abuse. Plasma samples were collected over a 120-hour period after 100-mg lamotrigine administration in each period. A validated high-performance liquid chromatography ultraviolet method was used to analyze lamotrigine concentration in plasma. Pharmacokinetic parameters were determined using a noncompartmental method. Bioequivalence between the test and reference products, as defined by the US Food and Drug Administration (FDA), is determined when the ratio for the 90% CIs of the difference in the means of the log-transformed AUC(0-t), AUC(0-infinity), and C(max) of the 2 products are within 0.80 and 1.25. Adverse events were determined by measuring vital signs after dosing. Subjects were also asked if they suffered from undesirable effects such as nausea, vomiting, dizziness, and headache. This bioequivalence study was performed in 24 healthy Thai males (mean [SD] age, 20.5 [1.3] years; range, 19-24 years; weight, 62.5 [7.4] kg; height, 172.8 [6.9] cm; body mass index, 20.9 [2.0] kg/m(2)). The mean (SD) C(max) and T(max) of the test formulation of lamotrigine were 1.7 (0.3) microg/mL and 1.2 (0.9) hours, respectively. The mean (SD) C(max) and T(max) of the reference formulation of lamotrigine were 1.7 (0.3) microg/mL and 1.4 (1.0) hours, respectively. The mean

  18. Sequence based prediction of DNA-binding proteins based on hybrid feature selection using random forest and Gaussian naïve Bayes.

    Directory of Open Access Journals (Sweden)

    Wangchao Lou

    Full Text Available Developing an efficient method for determination of the DNA-binding proteins, due to their vital roles in gene regulation, is becoming highly desired since it would be invaluable to advance our understanding of protein functions. In this study, we proposed a new method for the prediction of the DNA-binding proteins, by performing the feature rank using random forest and the wrapper-based feature selection using forward best-first search strategy. The features comprise information from primary sequence, predicted secondary structure, predicted relative solvent accessibility, and position specific scoring matrix. The proposed method, called DBPPred, used Gaussian naïve Bayes as the underlying classifier since it outperformed five other classifiers, including decision tree, logistic regression, k-nearest neighbor, support vector machine with polynomial kernel, and support vector machine with radial basis function. As a result, the proposed DBPPred yields the highest average accuracy of 0.791 and average MCC of 0.583 according to the five-fold cross validation with ten runs on the training benchmark dataset PDB594. Subsequently, blind tests on the independent dataset PDB186 by the proposed model trained on the entire PDB594 dataset and by other five existing methods (including iDNA-Prot, DNA-Prot, DNAbinder, DNABIND and DBD-Threader were performed, resulting in that the proposed DBPPred yielded the highest accuracy of 0.769, MCC of 0.538, and AUC of 0.790. The independent tests performed by the proposed DBPPred on completely a large non-DNA binding protein dataset and two RNA binding protein datasets also showed improved or comparable quality when compared with the relevant prediction methods. Moreover, we observed that majority of the selected features by the proposed method are statistically significantly different between the mean feature values of the DNA-binding and the non DNA-binding proteins. All of the experimental results indicate that

  19. Bioequivalence of two tablet formulations of clopidogrel in healthy Argentinian volunteers: a single-dose, randomized-sequence, open-label crossover study.

    Science.gov (United States)

    Di Girolamo, Guillermo; Czerniuk, Paola; Bertuola, Roberto; Keller, Guillermo A

    2010-01-01

    Platelet activation is a major component in the pathogenesis of coronary thrombosis and myocardial infarction. Thienopyridines, particularly clopidogrel, are highly effective in reducing in-stent thrombosis and functional inhibition of adenosine diphosphate-induced platelet activation. The aim of this study was to evaluate the bioequivalence of a new generic formulation of clopidogrel 75-mg tablets (test) and the available branded formulation (reference) to meet regulatory criteria for marketing the test product in Argentina. This was a randomized-sequence, open-label, 2-period crossover study conducted in healthy white volunteers in the fasted state. A single oral dose of the test or reference formulation was followed by a 7-day washout period, after which subjects received the alternative formulation. Blood samples were collected at baseline and at 0.25, 0.5, 0.75, 1, 1.25, 1.5, 2, 2.5, 3, 4, 6, 8, and 12 hours after dosing. Clopidogrel concentrations were determined using an LC-MS/MS method. The formulations were considered bioequivalent if the 90% CI of the geometric mean ratios (test:reference) for C(max) and AUC(0-last) were within the range from 80% to 125%. Adverse events were monitored throughout the study based on clinical parameters and patient reports. Twenty-four volunteers (13 male, 11 female; mean [SD] age, 33.7 [5.2] years [range, 21-42 years]; weight, 72.4 [6.83] kg [range, 59-82 kg]) were enrolled in and completed the study. The geometric mean C(max) for the test and reference formulations was 877.76 and 913.49 pg/mL, respectively. The geometric mean AUC(0-t) was 1911.53 and 2053.09 pg . h/mL, and the geometric mean AUC(0-infinity)) was 2021.33 and 2188.25 pg . h/mL. The geometric mean ratios (test:reference) for C(max), AUC(0-t), and AUC(0-infinity)) were 96.09% (90% CI, 90.71-101.78), 93.10% (90% CI, 85.57-101.3), and 92.37% (90% CI, 85.06-100.31), respectively. There were no significant differences in pharmacokinetic parameters between groups

  20. Identification of protein-protein binding sites by incorporating the physicochemical properties and stationary wavelet transforms into pseudo amino acid composition.

    Science.gov (United States)

    Jia, Jianhua; Liu, Zi; Xiao, Xuan; Liu, Bingxiang; Chou, Kuo-Chen

    2016-09-01

    With the explosive growth of protein sequences entering into protein data banks in the post-genomic era, it is highly demanded to develop automated methods for rapidly and effectively identifying the protein-protein binding sites (PPBSs) based on the sequence information alone. To address this problem, we proposed a predictor called iPPBS-PseAAC, in which each amino acid residue site of the proteins concerned was treated as a 15-tuple peptide segment generated by sliding a window along the protein chains with its center aligned with the target residue. The working peptide segment is further formulated by a general form of pseudo amino acid composition via the following procedures: (1) it is converted into a numerical series via the physicochemical properties of amino acids; (2) the numerical series is subsequently converted into a 20-D feature vector by means of the stationary wavelet transform technique. Formed by many individual "Random Forest" classifiers, the operation engine to run prediction is a two-layer ensemble classifier, with the 1st-layer voting out the best training data-set from many bootstrap systems and the 2nd-layer voting out the most relevant one from seven physicochemical properties. Cross-validation tests indicate that the new predictor is very promising, meaning that many important key features, which are deeply hidden in complicated protein sequences, can be extracted via the wavelets transform approach, quite consistent with the facts that many important biological functions of proteins can be elucidated with their low-frequency internal motions. The web server of iPPBS-PseAAC is accessible at http://www.jci-bioinfo.cn/iPPBS-PseAAC , by which users can easily acquire their desired results without the need to follow the complicated mathematical equations involved.

  1. Weighted pseudo almost automorphic and S-asymptotically omega-periodic solutions to fractional difference-differential equation

    Directory of Open Access Journals (Sweden)

    Edgardo Alvarez

    2016-10-01

    Full Text Available We study weighted pseudo almost automorphic solutions for the nonlinear fractional difference equation $$ \\Delta^{\\alpha}u(n=Au(n+1+f(n, u(n,\\quad n\\in \\mathbb{Z}, $$ for $0<\\alpha \\leq 1$, where A is the generator of an $\\alpha$-resolvent sequence $\\{S_{\\alpha}(n\\}_{n\\in\\mathbb{N}_0}$ in $\\mathcal{B}(X$. We prove the existence and uniqueness of a weighted pseudo almost automorphic solution assuming that f(.,. is weighted almost automorphic in the first variable and satisfies a Lipschitz (local and global type condition in the second variable. An analogous result is also proved for $\\mathcal{S}$-asymptotically $\\omega$-periodic solutions.

  2. Fermionic coherent states for pseudo-Hermitian two-level systems

    Energy Technology Data Exchange (ETDEWEB)

    Cherbal, O [Physical Faculty, Theoretical Physics Lab, USTHB, BP 32 El-Alia, Bab Ezzouar, 16111 Algiers (Algeria); Drir, M [Physical Faculty, Theoretical Physics Lab, USTHB, BP 32 El-Alia, Bab Ezzouar, 16111 Algiers (Algeria); Maamache, M [Laboratoire de Physique Quantique et Systemes Dynamiques, Department of Physics, Setif University, Setif 19000 (Algeria); Trifonov, D A [Institute of Nuclear Research, 72 Tzarigradsko Chaussee, 1784 Sofia (Bulgaria)

    2007-02-23

    We introduce creation and annihilation operators of pseudo-Hermitian fermions for two-level systems described by a pseudo-Hermitian Hamiltonian with real eigenvalues. This allows the generalization of the fermionic coherent states approach to such systems. Pseudo-fermionic coherent states are constructed as eigenstates of two pseudo-fermion annihilation operators. These coherent states form a bi-normal and bi-overcomplete system, and their evolution governed by the pseudo-Hermitian Hamiltonian is temporally stable. In terms of the introduced pseudo-fermion operators, the two-level system Hamiltonian takes a factorized form similar to that of a harmonic oscillator.

  3. Pseudo-observations for competing risks with covariate dependent censoring

    DEFF Research Database (Denmark)

    Binder, Nadine; Gerds, Thomas A; Andersen, Per Kragh

    2014-01-01

    that the probability of not being lost to follow-up (un-censored) is independent of the covariates. Modified pseudo-values are proposed which rely on a correctly specified regression model for the censoring times. Bias and efficiency of these methods are compared in a simulation study. Further illustration...

  4. Probing pseudo-Dirac neutrino through detection of neutrino ...

    Indian Academy of Sciences (India)

    The expected secondary muons from such neutrinos that can be detected by a kilometer scale detector such as ICECUBE is calculated and compared with the same in the case of mass-flavour oscillations and for no oscillation cases. The calculated muon yields indicate that to probe such small pseudo-Dirac splittings one ...

  5. Probing pseudo-Dirac neutrino through detection of neutrino ...

    Indian Academy of Sciences (India)

    ~EeV for such neutrinos invoke the likelihood to probe very small pseudo-Dirac splittings. The expected secondary muons from such neutrinos that can be detected by a kilometer scale detector such as ICECUBE is calculated and compared with the same in the case of mass-flavour oscillations and for no oscillation cases.

  6. Production of bioethanol using agricultural waste: banana pseudo stem

    Directory of Open Access Journals (Sweden)

    Snehal Ingale

    2014-09-01

    Full Text Available India is amongst the largest banana (Musa acuminata producing countries and thus banana pseudo stem is commonly available agricultural waste to be used as lignocellulosic substrate. Present study focuses on exploitation of banana pseudo stem as a source for bioethanol production from the sugars released due to different chemical and biological pretreatments. Two fungal strains Aspergillus ellipticus and Aspergillus fumigatus reported to be producing cellulolytic enzymes on sugarcane bagasse were used under co-culture fermentation on banana pseudo stem to degrade holocellulose and facilitate maximum release of reducing sugars. The hydrolysate obtained after alkali and microbial treatments was fermented by Saccharomyces cerevisiae NCIM 3570 to produce ethanol. Fermentation of cellulosic hydrolysate (4.1 g% gave maximum ethanol (17.1 g/L with yield (84% and productivity (0.024 g%/h after 72 h. Some critical aspects of fungal pretreatment for saccharification of cellulosic substrate using A. ellipticus and A. fumigatus for ethanol production by S. cerevisiae NCIM 3570 have been explored in this study. It was observed that pretreated banana pseudo stem can be economically utilized as a cheaper substrate for ethanol production.

  7. Over het specifieke- en pseudo cholinesterasegehalte bij enige ziekten

    NARCIS (Netherlands)

    Strater, Hans

    1948-01-01

    De monographie van Libbrecht,,De arteriele hypertoniën"was voor ons de aanleiding om een onderzoek te doen over het specifieke en pseudo-cholinesterase bij verschillende vormen van hypertensie, myasthenie en asthma bronchiale. ... Zie: Samenvatting

  8. Tropomyosin Ser-283 pseudo-phosphorylation slows myofibril relaxation.

    Science.gov (United States)

    Nixon, Benjamin R; Liu, Bin; Scellini, Beatrice; Tesi, Chiara; Piroddi, Nicoletta; Ogut, Ozgur; Solaro, R John; Ziolo, Mark T; Janssen, Paul M L; Davis, Jonathan P; Poggesi, Corrado; Biesiadecki, Brandon J

    2013-07-01

    Tropomyosin (Tm) is a central protein in the Ca(2+) regulation of striated muscle. The αTm isoform undergoes phosphorylation at serine residue 283. While the biochemical and steady-state muscle function of muscle purified Tm phosphorylation have been explored, the effects of Tm phosphorylation on the dynamic properties of muscle contraction and relaxation are unknown. To investigate the kinetic regulatory role of αTm phosphorylation we expressed and purified native N-terminal acetylated Ser-283 wild-type, S283A phosphorylation null and S283D pseudo-phosphorylation Tm mutants in insect cells. Purified Tm's regulate thin filaments similar to that reported for muscle purified Tm. Steady-state Ca(2+) binding to troponin C (TnC) in reconstituted thin filaments did not differ between the 3 Tm's, however disassociation of Ca(2+) from filaments containing pseudo-phosphorylated Tm was slowed compared to wild-type Tm. Replacement of pseudo-phosphorylated Tm into myofibrils similarly prolonged the slow phase of relaxation and decreased the rate of the fast phase without altering activation kinetics. These data demonstrate that Tm pseudo-phosphorylation slows deactivation of the thin filament and muscle force relaxation dynamics in the absence of dynamic and steady-state effects on muscle activation. This supports a role for Tm as a key protein in the regulation of muscle relaxation dynamics. Copyright © 2012 Elsevier Inc. All rights reserved.

  9. Pseudo-Riemannian geometry, [delta]-invariants and applications

    CERN Document Server

    Chen, Bang-Yen

    2011-01-01

    The first part of this book provides a self-contained and accessible introduction to the subject in the general setting of pseudo-Riemannian manifolds and their non-degenerate submanifolds, only assuming from the reader some basic knowledge about manifold

  10. Production of bioethanol using agricultural waste: banana pseudo stem.

    Science.gov (United States)

    Ingale, Snehal; Joshi, Sanket J; Gupte, Akshaya

    2014-01-01

    India is amongst the largest banana (Musa acuminata) producing countries and thus banana pseudo stem is commonly available agricultural waste to be used as lignocellulosic substrate. Present study focuses on exploitation of banana pseudo stem as a source for bioethanol production from the sugars released due to different chemical and biological pretreatments. Two fungal strains Aspergillus ellipticus and Aspergillus fumigatus reported to be producing cellulolytic enzymes on sugarcane bagasse were used under co-culture fermentation on banana pseudo stem to degrade holocellulose and facilitate maximum release of reducing sugars. The hydrolysate obtained after alkali and microbial treatments was fermented by Saccharomyces cerevisiae NCIM 3570 to produce ethanol. Fermentation of cellulosic hydrolysate (4.1 g%) gave maximum ethanol (17.1 g/L) with yield (84%) and productivity (0.024 g%/h) after 72 h. Some critical aspects of fungal pretreatment for saccharification of cellulosic substrate using A. ellipticus and A. fumigatus for ethanol production by S. cerevisiae NCIM 3570 have been explored in this study. It was observed that pretreated banana pseudo stem can be economically utilized as a cheaper substrate for ethanol production.

  11. Pseudo-homophony in non-native listening

    NARCIS (Netherlands)

    Cutler, A.; Otake, T.

    2004-01-01

    Pseudo-homophony may result when non-native listeners cannot distinguish phonemic contrasts. Thus Dutch listeners have difficulty distinguishing the vowels of English cattle versus kettle, because this contrast is subsumed by a single Dutch vowel category; in consequence, both words may be activated

  12. Empirical pseudo-potential studies on electronic structure of ...

    Indian Academy of Sciences (India)

    Wintec

    and the lowest unoccupied molecular orbital (LUMO) as a function of shape and size of the quantum dots. Our studies explain the ... Keywords. Quantum dots; empirical pseudo-potential; electronic structure; HOMO–LUMO gap. 1. Introduction ...... both the finite and infinite well EMA breaks down and introduces significant ...

  13. Status asthmaticus with pseudo-dextrocardia, complicated by ...

    African Journals Online (AJOL)

    A chest x-ray revealed pseudo-dextrocardia and air trapping (A). She did not respond to inhaled bronchodilator therapy. Intravenous hydrocortisone and magnesium sulphate were administered. The patient deteriorated and was subsequently ventilated and intravenous aminophylline initiated. After intubation and ventilation ...

  14. To avoid operating on pseudo tumoral pulmonary infarctions ...

    African Journals Online (AJOL)

    Pulmonary infarction usually appears as a hump-shaped triangular opacity with its base applied to a pleural surface. In some cases, pulmonary infarctions may appear as a pseudo tumoral opacity mimicking lung cancer. Thoracotomy could be prevented by repeating CT scan in properly selected patients. Pan African ...

  15. Contextuality in multipartite pseudo-telepathy graph games

    OpenAIRE

    Anshu, Anurag; Hoyer, Peter; Mhalla, Mehdi; Perdrix, Simon

    2016-01-01

    Analyzing pseudo-telepathy graph games, we propose a way to build contextuality scenarios exhibiting the quantum supremacy using graph states. We consider the combinatorial structures that generate equivalent scenarios. We introduce a new tool called multipartiteness width to investigate which scenarios are harder to decompose and show that there exist graphs generating scenarios with a linear multipartiteness width.

  16. Pseudo-nitzschia blooms and physical oceanography off ...

    African Journals Online (AJOL)

    During three surveys conducted in early summer 1996, 1997 and 1998, high concentrations of. Pseudo-nitzschia spp. (values of up to 106 cells.l-1, but generally <105 cells.l-1) were present. P. pungens was dominant in 1996, whereas P. pseudodelicatissima was most abundant in 1997 and 1998. A. catenella was rare and ...

  17. A pseudo Lindley distribution and its application | Zeghdoudi | Afrika ...

    African Journals Online (AJOL)

    In this paper, we introduce a new distribution named as the Pseudo Lindley Distribution (PsLD) as a generalization of the Lindley distribution (LD). A full and detailed description are provided in terms of moments, cumulates, characteristic function, failure, rate function, stochastic ordering, distributions of sums, and ...

  18. Mann iteration with errors for strictly pseudo-contractive mappings ...

    African Journals Online (AJOL)

    It is well known that any fixed point of a Lipschitzian strictly pseudo-contractive self mapping of a nonempty closed convex and bounded subset K of a Banach space X is unique [6] and may be norm approximated by an iterative procedure. In this paper, we show that Mann iteration with errors can be used to approximate the ...

  19. Optimalisasi Desain Parameter Lapangan Untuk Data Resistivitas Pseudo 3D

    Directory of Open Access Journals (Sweden)

    . Makhrani

    2013-05-01

    Full Text Available Penelitian yang berjudul Optimalisasi Desain Parameter Lapangan Untuk Data Resistivitas Pseudo 3D dilakukan dengan tujuan memprediksi model geologi dan mengestimasi parameter-parameter geofisika, menentukan sensitivitas dari konfigurasi Wenner-Schlumberger dan Wenner dalam mendeteksi anomali, membuat Pseudo 3D dari profil 2D serta meningkatkan kemampuan dalam memilih parameter survei  yang optimal  berdasarkan perbandingan kekuatan signal yang diharapkan dan kharakteristik dari bising (noise. Proses pengambilan data dilakukan dengan menggunakan metode geolistrik konfigurasi Wenner-Schlumberger dan konfigurasi Wenner. Pengolahan data geolistrik resistivitas dalam penelitian ini diawali dengan pengolahan data sintetik hasil forward modeling. Data ini dapat dijadikan sebagai data masukan pada perangkat lunak Surfer 9 untuk menggambarkan profil 2D. Seluruh hasil inversi dalam bentuk profil 2D akan digabungkan sehingga menjadi profil pseudo 3D, proses ini akan dilakukan dengan menggunakan perangkat lunak Matlab R2008a. Kedua konfigurasi yang digunakan dalam penelitian ini masing-masing memiliki keunggulan dan kelemahan dalam hal sensitivitas, baik konfigurasi Wenner-Schlumberger maupun konfigurasi Wenner. Meskipun kedua konfigurasi mendeteksi anomali yang dibuat, namun konfigurasi Wenner-Schlumberger lebih menonjolkan anomali, baik pada data sintetik maupun pada hasil pengukuran. Selain itu, pembuatan pseudo 3D dari profil 2D dapat membantu dalam menginterpretasi data pada lintasan yang saling berpotongan.

  20. Prediction of survival with alternative modeling techniques using pseudo values

    NARCIS (Netherlands)

    T. van der Ploeg (Tjeerd); F.R. Datema (Frank); R.J. Baatenburg de Jong (Robert Jan); E.W. Steyerberg (Ewout)

    2014-01-01

    textabstractBackground: The use of alternative modeling techniques for predicting patient survival is complicated by the fact that some alternative techniques cannot readily deal with censoring, which is essential for analyzing survival data. In the current study, we aimed to demonstrate that pseudo

  1. Twisted surfaces in the Pseudo-Galilean space

    Directory of Open Access Journals (Sweden)

    Ahmet Kazan

    2017-10-01

    Full Text Available In this paper, we construct the twisted surfaces according to the supporting plane and type of rotations in pseudo-Galilean space G13. Also, we find the Gaussian curvatures and mean curvatures of the different types of these twisted surfaces and draw some figures for these twisted surfaces.

  2. Pseudo-affinity chromatography of rumen microbial cellulase on ...

    African Journals Online (AJOL)

    Pseudo affinity adsorption of bioproducts on Sepharose-cibacron blue F3-GA was subjected to rumen microbial enzyme evaluation through batch binding and column chromatography of cellulase. The results showed that homogenizing method had better performance in the release of enzyme, so that the amount of enzyme ...

  3. Empirical pseudo-potential studies on electronic structure of ...

    Indian Academy of Sciences (India)

    Home; Journals; Bulletin of Materials Science; Volume 31; Issue 3. Empirical pseudo-potential studies on electronic structure of semiconducting quantum dots. Anjali Kshirsagar Neelesh ... Theoretical investigations of electronic structure of quantum dots is of current interest in nanophase materials. Empirical theories such ...

  4. Pseudo-Meig's Syndrome associated with huge Uterine Leiomyoma ...

    African Journals Online (AJOL)

    Background: Pseudo-Meigs syndrome consists of pleural effusion, ascites, and benign tumors of the ovary other than fibromas. These benign tumors include the tumors of fallopian tube or uterus, mature teratomas, struma ovarii, and ovarian leiomyomas. In a postmenopausal woman presence of complex pelvic mass, ...

  5. Pseudo-cryptanalysis of the Original Blue Midnight Wish

    DEFF Research Database (Denmark)

    Thomsen, Søren Steffen

    2010-01-01

    cryptanalysis on the original version of BMW, as submitted to the SHA-3 competition in October 2008. The attacks described are (near-)collision, preimage and second preimage attacks on the BMW compression function. These attacks can also be described as pseudo-attacks on the full hash function, i.e., as attacks...

  6. Computing the Visibility Graph via Pseudo-triangulations

    NARCIS (Netherlands)

    Pocchiola, Michel; Vegter, Gert

    1995-01-01

    We show that the k free bitangents of a collection of n pairwise disjoint convex plane sets can be computed in time O(k + n log n) and O(n) working space. The algorithm uses only one advanced data structure, namely a splittable queue. We introduce (weakly) greedy pseudo-triangulations, whose

  7. Neuropathie optique compressive secondaire à une pseudo-tumeur ...

    African Journals Online (AJOL)

    Neuropathie optique compressive secondaire à une pseudo-tumeur inflammatoire. Wafa Ammari, Olfa Berriche, Olfa Berriche. Abstract. La neuropathie optique regroupe l'ensemble des lésions du nerf optique. Le diagnostic est habituellement clinique: diminution de l'acuité visuelle, altération de la vision des couleurs, ...

  8. Pseudo-obstrucción intestinal crónica Chronic intestinal pseudo-obstruction

    Directory of Open Access Journals (Sweden)

    M. T. Muñoz

    2007-02-01

    Full Text Available El síndrome de pseudo-obstrucción intestinal crónica se caracteriza por la presencia de cuadros clínicos recidivantes que simulan una obstrucción intestinal pero en ausencia de proceso obstructivo anatómico. Es poco frecuente pero determina una alta morbilidad. Se origina como consecuencia de una alteración de la motilidad intestinal que no puede hacer progresar su contenido debido a la afectación de su componente muscular, neurológico o de ambos. Son más frecuentes los casos secundarios a un proceso sistémico pero cada vez se describen más cuadros debidos a la afectación primaria de dichos componentes. El desarrollo de técnicas manométricas e histológicas más específicas ha permitido aclarar la patogenia de algunos de estos síndromes, entre los que se incluyen las manifestaciones paraneoplásicas y las enfermedades mitocondriales. La expresión clínica es variable y depende de la causa y de la localización y extensión de la afectación. El diagnóstico de esta entidad es habitualmente difícil lo que origina que a estos pacientes se les practiquen cirugías innecesarias, se les etiquete como enfermos psiquiátricos y el diagnóstico se realice varios años después del inicio de los síntomas. El tratamiento se dirige a mejorar los síntomas y a mantener su estado nutricional mediante medidas dietético-nutricionales, fármacos y actitudes endoscópico-quirúrgicas. La complejidad de estos enfermos aconseja su seguimiento multidisciplinar.Chronic intestinal pseudo-obstruction (CIPO is a syndrome characterized by the presence of recurrent episodes of clinical intestinal obstruction in the absence of obstructive lesions. Although this syndrome is rare, it causes a high morbidity. It is caused by a disturbance of the intestinal motility, that results in a failure of the progression of the intestinal content. Basically, the failure of the intestinal motility is a consequence of muscular disorder, neurological disorder or both

  9. Method to obtain standard pseudosections from pseudo pole-dipole arrays

    Science.gov (United States)

    Bellmunt, Fabián; Marcuello, Alex

    2011-11-01

    This study deals with electrical resistivity tomography data and it is addressed at obtaining, from linear combinations of data, other datasets not directly measured. The method presented here allows performing the fieldwork systematically, without deciding the type of the more suitable common electrode array (e.g. Wenner, Wenner-Schlumberger, dipole-dipole or multiple-gradient) until or even after the interpretation time. The electrode configuration used by this method is denoted as pseudo pole-dipole array, because it is based on the standard pole-dipole one, but avoiding the disadvantage of locating the remote electrode far away from the profile (to "infinity"). The pseudo pole-dipole datasets can be acquired with common equipment using standard pole-dipole recording sequences. Once the desired datasets have been calculated, they can be inverted using standard interpretation software. The procedure used allows a data quality control to be introduced that is similar to the one based on normal and reciprocal measurements. To assess the method we considered noise-contaminated model responses as well as field data. It has been applied to build dipole-dipole and Wenner-Schlumberger datasets. Results show the suitability of both, the proposed method and the quality control.

  10. Pseudo-hyperelastic model of tendon hysteresis from adaptive recruitment of collagen type I fibrils.

    Science.gov (United States)

    Ciarletta, Pasquale; Dario, Paolo; Micera, Silvestro

    2008-02-01

    Understanding the functional relationship between the viscoelasticity and the morphology of soft collagenous tissues is fundamental for many applications in bioengineering science. This work presents a pseudo-hyperelastic constitutive theory aiming at describing the time-dependant hysteretic response of tendons subjected to uniaxial tensile loads. A macroscopic tendon is modeled as a composite homogeneous tissue with the anisotropic reinforcement of collagen type I fibrils. The tissue microstructure is considered as an adaptive network of fibrillar units connected in temporary junctions. The processes of breakage and reformation of active fibrils are thermally activated, and are occurring at random times. An internal softening variable and a dissipation energy function account for the adaptive arrangement of the fibrillar network in the pseudo-hyperelastic model. Cyclic uniaxial tensile tests have been performed in vitro on porcine flexor digital tendons. The theoretical predictions fit accurately the experimental stress-strain data both for the loading and the unloading processes. The hysteresis behavior reflects the improvement in the efficiency and performance of the motion of the muscle-tendon unit at high strain rates. The results of the model demonstrate the microstructural importance of proteoglycans in determining the functional viscoelastic adaptability of the macroscopic tendon.

  11. Stress-induced phase transformation and pseudo-elastic/pseudo-plastic recovery in intermetallic Ni-Al nanowires.

    Science.gov (United States)

    Sutrakar, Vijay Kumar; Mahapatra, D Roy

    2009-07-22

    Extensive molecular dynamics (MD) simulations have been performed in a B2-NiAl nanowire using an embedded atom method (EAM) potential. We show a stress induced [Formula: see text]-centered-tetragonal (BCT) phase transformation and a novel temperature and cross-section dependent pseudo-elastic/pseudo-plastic recovery from such an unstable BCT phase with a recoverable strain of approximately 30% as compared to 5-8% in polycrystalline materials. Such a temperature and cross-section dependent pseudo-elastic/pseudo-plastic strain recovery can be useful in various interesting applications of shape memory and strain sensing in nanoscale devices. Effects of size, temperature, and strain rate on the structural and mechanical properties have also been analyzed in detail. For a given size of the nanowire the yield stress of both the B2 and the BCT phases is found to decrease with increasing temperature, whereas for a given temperature and strain rate the yield stress of both the B2 and the BCT phase is found to increase with increase in the cross-sectional dimensions of the nanowire. A constant elastic modulus of approximately 80 GPa of the B2 phase is observed in the temperature range of 200-500 K for nanowires of cross-sectional dimensions in the range of 17.22-28.712 A, whereas the elastic modulus of the BCT phase shows a decreasing trend with an increase in the temperature.

  12. Relative bioavailability of levodropropizine 60 mg capsule and syrup formulations in healthy male Korean volunteers: a singledose, randomized-sequence, open-label, two-way crossover study.

    Science.gov (United States)

    Jang, Jae-Won; Seo, Ji-Hyung; Jo, Min-Ho; Lee, Young-Joo; Cho, Young-Wuk; Yim, Sung-Vin; Lee, Kyung-Tae

    2013-02-01

    Levodropropizine is an oral non-opioid anti-tussive drug used in treatment of cough. A new generic 60 mg capsule formulation of levodropropizine has recently been developed. The aim of this study was to assess the pharmacokinetics and bioequivalence of the test (capsule) formulation and reference (syrup) formulation of levodropropizine (60 mg) in healthy, fasted, male Korean volunteers. This was a single-dose, randomized sequence, open-label, 2-period crossover study conducted in healthy male Korean volunteers in the fasted state at Kyung Hee University Medical Center (Seoul, Republic of Korea). A single oral dose of the test or reference formulation was followed by a 1-week washout period, after which subjects received the alternative formulation. Blood samples were collected at 0 (predose), 0.17, 0.33, 0.5, 0.75, 1, 1.5, 2, 3, 4, 6, 8, and 12 hours after study drug administration. Plasma concentration of levodropropizine was determined using a validated liquid chromatography tandem mass spectrometry (LCMS/ MS) method. The formulations were considered bioequivalent if the 90% CIs for C(max), AUC(0-12h) and AUC(0-∞) were within the predetermined bioequivalence range (80 - 125%, according to the guidelines of the Korea Food and Drug Administration (Korea FDA)). Tolerability was evaluated throughout the study based on vital sign measurements, laboratory analysis (blood biochemistry, hematology, hepatic function and urinalysis) and subject interviews concerning adverse events (AEs). A total of 36 male Korean subjects (mean (SD) age, 23.9 (2.4) years (range 19 - 30 years); height, 176.2 (6.1) cm (range 161 - 190 cm); weight, 69.8 (9.1) kg (range 54.0 - 92.2 kg); body mass index, 22.4 (2.1) kg/m2 (range 19.1 - 28.3 kg/m2)) was enrolled and completed the study. The mean values for C(max), t(max), AUC(0-12h), and AUC(0-∞) with the test formulation of levodropropizine were 331.51 ng/ml, 0.60 hours, 784.32 ng×h/ml, and 825.82 ng×h/ml, respectively; for the reference

  13. Pseudo sidescan images from backscatter amplitude data of the Hydrosweep multibean sonar system

    Digital Repository Service at National Institute of Oceanography (India)

    Kodagali, V.N.; Hagen, R.; Schenke, H.W.

    Using the rms (root mean square) backscatter amplitude values, a procedure was evolved to generate pseudo sidescan images. A comparison of the pseudo sidescan image with actual Hydrosweep sidescan image, from an area covering a pear shaped seamount...

  14. Regression analysis of restricted mean survival time based on pseudo-observations

    DEFF Research Database (Denmark)

    Andersen, Per Kragh; Hansen, Mette Gerster; Klein, John P.

    censoring; hazard function; health economics; regression model; survival analysis; mean survival time; restricted mean survival time; pseudo-observations......censoring; hazard function; health economics; regression model; survival analysis; mean survival time; restricted mean survival time; pseudo-observations...

  15. Regression Analysis of Restricted Mean Survival Time Based on Pseudo-Observations

    DEFF Research Database (Denmark)

    Andersen, Per Kragh; Hansen, Mette Gerster; Klein, John P.

    2004-01-01

    censoring; hazard function; health economics; mean survival time; pseudo-observations; regression model; restricted mean survival time; survival analysis......censoring; hazard function; health economics; mean survival time; pseudo-observations; regression model; restricted mean survival time; survival analysis...

  16. INEXTENSIBLE FLOWS OF CURVES IN THE EQUIFORM GEOMETRY OF THE PSEUDO-GALILEAN SPACE G13

    Directory of Open Access Journals (Sweden)

    HANDAN OZTEKIN

    2016-12-01

    Full Text Available In this paper, we study inextensible ows of curves in 3-dimensional pseudo- Galilean space. We give necessary and sucient conditions for inextensible ows of curves according to equiform geometry in pseudo-Galilean space.

  17. Generalised linear models for correlated pseudo-observations, with applications to multi-state models

    DEFF Research Database (Denmark)

    Andersen, Per Kragh; Klein, John P.; Rosthøj, Susanne

    2003-01-01

    Generalised estimating equation; Generalised linear model; Jackknife pseudo-value; Logistic regression; Markov Model; Multi-state model......Generalised estimating equation; Generalised linear model; Jackknife pseudo-value; Logistic regression; Markov Model; Multi-state model...

  18. Computing the Discrete Compactness of Orthogonal Pseudo-Polytopes via Their D-EVM Representation

    Directory of Open Access Journals (Sweden)

    Ricardo Pérez-Aguila

    2010-01-01

    Full Text Available This work is devoted to present a methodology for the computation of Discrete Compactness in -dimensional orthogonal pseudo-polytopes. The proposed procedures take in account compactness' definitions originally presented for the 2D and 3D cases and extend them directly for considering the D case. There are introduced efficient algorithms for computing discrete compactness which are based on an orthogonal polytopes representation scheme known as the Extreme Vertices Model in the -Dimensional Space (D-EVM. It will be shown the potential of the application of Discrete Compactness in higher-dimensional contexts by applying it, through EVM-based algorithms, in the classification of video sequences, associated to the monitoring of a volcano's activity, which are expressed as 4D orthogonal polytopes in the space-color-time geometry.

  19. Stagewise pseudo-value regression for time-varying effects on the cumulative incidence

    DEFF Research Database (Denmark)

    Zöller, Daniela; Schmidtmann, Irene; Weinmann, Arndt

    2016-01-01

    using a pseudo-value approach. For a grid of time points, the possibly unobserved binary event status is replaced by a jackknife pseudo-value based on the Aalen-Johansen method. We combine a stagewise regression technique with the pseudo-value approach to provide variable selection while allowing...

  20. Biharmonic Submanifolds with Parallel Mean Curvature Vector in Pseudo-Euclidean Spaces

    Energy Technology Data Exchange (ETDEWEB)

    Fu, Yu, E-mail: yufudufe@gmail.com [Dongbei University of Finance and Economics, School of Mathematics and Quantitative Economics (China)

    2013-12-15

    In this paper, we investigate biharmonic submanifolds in pseudo-Euclidean spaces with arbitrary index and dimension. We give a complete classification of biharmonic spacelike submanifolds with parallel mean curvature vector in pseudo-Euclidean spaces. We also determine all biharmonic Lorentzian surfaces with parallel mean curvature vector field in pseudo-Euclidean spaces.

  1. Synchronization of random bit generators based on coupled chaotic lasers and application to cryptography.

    Science.gov (United States)

    Kanter, Ido; Butkovski, Maria; Peleg, Yitzhak; Zigzag, Meital; Aviad, Yaara; Reidler, Igor; Rosenbluh, Michael; Kinzel, Wolfgang

    2010-08-16

    Random bit generators (RBGs) constitute an important tool in cryptography, stochastic simulations and secure communications. The later in particular has some difficult requirements: high generation rate of unpredictable bit strings and secure key-exchange protocols over public channels. Deterministic algorithms generate pseudo-random number sequences at high rates, however, their unpredictability is limited by the very nature of their deterministic origin. Recently, physical RBGs based on chaotic semiconductor lasers were shown to exceed Gbit/s rates. Whether secure synchronization of two high rate physical RBGs is possible remains an open question. Here we propose a method, whereby two fast RBGs based on mutually coupled chaotic lasers, are synchronized. Using information theoretic analysis we demonstrate security against a powerful computational eavesdropper, capable of noiseless amplification, where all parameters are publicly known. The method is also extended to secure synchronization of a small network of three RBGs.

  2. Pseudo-nitzschia pungens (Bacillariophyceae): A cosmopolitan species?

    DEFF Research Database (Denmark)

    Casteleyn, G; Chepurnov, VA; Leliaert, F

    2007-01-01

    Abstract Genetic, reproductive and morphological variation were studied in 193 global strains of the marine diatom species Pseudo-nitzschia pungens (Grunow ex Cleve) Hasle to assess potential intraspecific variation and biogeographic distribution patterns. Genetic differentiation between allo- an...... Zealand) and the NE Pacific (Washington State). Clade I thus appears to be globally distributed in temperate coastal areas and provides the first strong evidence to date for the global distribution of a biologically, genetically and morphologically defined diatom species.......Abstract Genetic, reproductive and morphological variation were studied in 193 global strains of the marine diatom species Pseudo-nitzschia pungens (Grunow ex Cleve) Hasle to assess potential intraspecific variation and biogeographic distribution patterns. Genetic differentiation between allo...

  3. International conference Fourier Analysis and Pseudo-Differential Operators

    CERN Document Server

    Turunen, Ville; Fourier Analysis : Pseudo-differential Operators, Time-Frequency Analysis and Partial Differential Equations

    2014-01-01

    This book is devoted to the broad field of Fourier analysis and its applications to several areas of mathematics, including problems in the theory of pseudo-differential operators, partial differential equations, and time-frequency analysis. This collection of 20 refereed articles is based on selected talks given at the international conference “Fourier Analysis and Pseudo-Differential Operators,” June 25–30, 2012, at Aalto University, Finland, and presents the latest advances in the field. The conference was a satellite meeting of the 6th European Congress of Mathematics, which took place in Krakow in July 2012; it was also the 6th meeting in the series “Fourier Analysis and Partial Differential Equations.”

  4. Pseudo natural colour aerial imagery for urban and suburban mapping

    DEFF Research Database (Denmark)

    Knudsen, Thomas

    2005-01-01

    Due to their near-infrared data channel, digital airborne four-channel imagers provide a potentially good discrimination between vegetation and human-made materials, which is very useful in automated mapping. Due to their red, green and blue data channels, they also provide natural colour images......, which are very useful in traditional (manual) mapping. In this paper, an algorithm is described which provides an approximation to the spectral capabilities of the four-channel imagers by using a colour-infrared aerial photo as input. The algorithm is tailored to urban/suburban surroundings, where...... the quality of the generated (pseudo) natural colour images are fully acceptable for manual mapping. This brings the combined availability of near-infrared and (pseudo) natural colours within reach for mapping projects based on traditional photogrammetry, which is valuable since traditional analytical cameras...

  5. Using of "pseudo-second-order model" in adsorption.

    Science.gov (United States)

    Ho, Yuh-Shan

    2014-01-01

    A research paper's contribution exists not only in its originality and creativity but also in its continuity and development for research that follows. However, the author easily ignores it. Citation error and quotation error occurred very frequently in a scientific paper. Numerous researchers use secondary references without knowing the original idea from authors. Sulaymon et al. (Environ Sci Pollut Res 20:3011-3023, 2013) and Spiridon et al. (Environ Sci Pollut Res 20:6367-6381, 2013) presented wrong pseudo-second-order models in Environmental Science and Pollution Research, vol. 20. This comment pointed the errors of the kinetic models and offered information for citing original idea of pseudo-second-order kinetic expression. In order to stop the proliferation of the mistake, it is suggested to cite the original paper for the kinetic model which provided greater accuracy and more details about the kinetic expression.

  6. A pseudo-single-crystalline germanium film for flexible electronics

    Energy Technology Data Exchange (ETDEWEB)

    Higashi, H.; Yamada, S.; Kanashima, T.; Hamaya, K., E-mail: hamaya@ee.es.osaka-u.ac.jp [Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531 (Japan); Kasahara, K.; Park, J.-H.; Miyao, M. [Department of Electronics, Kyushu University, 744 Motooka, Fukuoka 819-0395 (Japan); Kudo, K.; Okamoto, H.; Moto, K.; Tsunoda, I. [Kumamoto National College of Technology, 2659-2 Suya, Koshi, Kumamoto 861-1102 (Japan)

    2015-01-26

    We demonstrate large-area (∼600 μm), (111)-oriented, and high-crystallinity, i.e., pseudo-single-crystalline, germanium (Ge) films at 275 °C, where the temperature is lower than the softening temperature of a flexible substrate. A modulated gold-induced layer exchange crystallization method with an atomic-layer deposited Al{sub 2}O{sub 3} barrier and amorphous-Ge/Au multilayers is established. From the Raman measurements, we can judge that the crystallinity of the obtained Ge films is higher than those grown by aluminum-induced-crystallization methods. Even on a flexible substrate, the pseudo-single-crystalline Ge films for the circuit with thin-film transistor arrays can be achieved, leading to high-performance flexible electronics based on an inorganic-semiconductor channel.

  7. Chronic intestinal pseudo-obstruction in a dog: case report

    Directory of Open Access Journals (Sweden)

    A.L. Bicalho

    2011-12-01

    Full Text Available Intestinal pseudo-obstruction is a rare disorder that affects gastrointestinal propulsion. It may be secondary to several pathological conditions or it may develop without a known cause. A 1.2 year-old intact Pug bitch had a history of vomiting and constipation, which were followed by diarrhea and distended abdomen. Hypomotility and dilation of the small intestine, which was filled with gas, were observed during laparotomy. Histologically, full thickness biopsy specimens demonstrated a severe loss and degeneration of leiomyocytes in the inner and outer muscular layers of the intestinal wall, whereas there was a marked hypertrophy and hyperplasia of smooth muscle cells in the lamina propria, and extremely thickened muscularis mucosae arranged in bundles oriented in different directions with marked hypertrophy and hyperplasia of leiomyocytes. Distribution of leiomyocytes was further characterized by immunohistochemistry. These findings support the diagnosis of intestinal pseudo-obstruction in a Pug, associated with degeneration and loss of leiomyocytes in the muscular layer.

  8. Nearly pseudo-Kähler manifolds and related special holonomies

    CERN Document Server

    Schäfer, Lars

    2017-01-01

    Developing and providing an overview of recent results on nearly Kähler geometry on pseudo-Riemannian manifolds, this monograph emphasizes the differences with the classical Riemannian geometry setting. The focal objects of the text are related to special holonomy and Killing spinors and have applications in high energy physics, such as supergravity and string theory. Before starting into the field, a self-contained introduction to the subject is given, aimed at students with a solid background in differential geometry. The book will therefore be accessible to masters and Ph.D. students who are beginning work on nearly Kähler geometry in pseudo-Riemannian signature, and also to non-experts interested in gaining an overview of the subject.  Moreover, a number of results and techniques are provided which will be helpful for differential geometers as well as for high energy physicists interested in the mathematical background of the geometric objects they need.

  9. Chronic primary intestinal pseudo-obstruction from visceral myopathy.

    Science.gov (United States)

    Muñoz-Yagüe, M T; Marín, J C; Colina, F; Ibarrola, C; López-Alonso, G; Martín, M A; Solís-Herruzo, J A

    2006-04-01

    Chronic intestinal pseudo-obstruction is an uncommon syndrome characterized by relapsing episodes suggesting intestinal obstruction during which no mechanical causes are identified to account for symptoms. Etiologic factors may be manifold. Among them a number of neurologic conditions, gastrointestinal smooth muscle myopathies, endocrino-metabolic and autoimmune diseases, and the use of selected drugs stand out. We report a case of chronic intestinal pseudo-obstruction originating in a sporadic, primary intestinal myopathy that corresponds to no type thus far described. A histological study of the intestinal wall showed disrupted muscle bundles and the presence of interstitial edema. Myocytes had severe degenerative changes, and no alterations were seen in submucosal and myenteric plexus neurons. The activity of enzyme complexes in the mitochondrial respiratory chain, and of thymidine phosphorylase was normal. No mitochondrial DNA changes were seen.

  10. A mathematical model for a pseudo-plastic welding joint

    OpenAIRE

    Iosifescu, Oana; Juntharee, Pongpol; Licht, Christian; Michaille, Gérard

    2009-01-01

    An elementary situation in welding involves the perfect assembly of two adherents and a strong adhesive occupying a thin layer. The bulk energy density of the hyperelastic adherents grows superlinearly while that of the pseudo-plastic adhesive grows linearly with a stiffness of the order of the inverse of its thickness epsilon. We propose a simplified but accurate model by studying the asymptotic behavior, when epsilon goes to zero, through variational convergence methods: at the limit, the i...

  11. La tuberculose abdominale pseudo-tumorale | El Barni | Pan African ...

    African Journals Online (AJOL)

    Même en l'absence d'antécédents de tuberculose pulmonaire, le diagnostic tuberculose abdominale pseudo-tumorale doit être évoqué surtout dans un pays d'endémie comme le notre et le recours à une laparotomie est justifié chaque fois que persiste un doute diagnostique ou en cas de complication. Pan African Medical ...

  12. Les pseudo nodules thyroidiens | Chahed | Journal Tunisien d'ORL ...

    African Journals Online (AJOL)

    L'examen cytologique fait par une personne entraînée peut être contributif au diagnostic différentiel. Cependant, le diagnostic se fait souvent après cervicotomie exploratrice. Mots clés : pseudo- nodule, thyroïde, kyste hydatique, schwannome, adénome parathyroïdien, kyste du tractus thyréoglosse, chondrosarcome ...

  13. mRNA-Producing Pseudo-nucleus System.

    Science.gov (United States)

    Shin, Seung Won; Park, Kyung Soo; Shin, Woo Jung; Um, Soong Ho

    2015-11-04

    A pseudo-eukaryotic nucleus (PEN) system consisting of a gene-containing DNA hydrogel encapsulated in a liposome is fabricated. Owing to the structural characteristics of gene-containing DNA hydrogel, mRNA transcription efficiency is promoted 2.57-fold. Through the use of PEN as a platform for mRNA delivery to the cytosol, prolonged protein translation is achieved. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  14. Regression analysis of censored data using pseudo-observations

    DEFF Research Database (Denmark)

    Overgaard, Morten; Andersen, Per K.; Parner, Erik T.

    2015-01-01

    We present updated versions of the stpsurv, stpci, and stpmean commands, which were introduced in Parner and Andersen (2010, Stata Journal 10: 408–422), along with a new command, stplost. The commands generate pseudo-observations of the survival function, the cumulative incidence function under...... commands feature new options, an increase in computational speed, and the ability to handle survival data with delayed entry....

  15. Core curriculum case illustration: blunt traumatic thoracic aortic pseudo aneurysm.

    Science.gov (United States)

    Ramzan, Muhammad Mubashir; Fadl, Shaimaa Abdelhassib; Robinson, Jeffrey D

    2017-06-19

    Core Curriculum Illustration: [blunt thoracic aortic pseudo aneurysm]. This is the [40th] installment of a series that will highlight one case per publication issue from the bank of cases available online as part of the American Society of Emergency Radiology (ASER) educational resources. Our goal is to generate more interest in and use of our online materials. To view more cases online, please visit the ASER Core Curriculum and Recommendations for Study online at: http://www.aseronline.org/curriculum/toc.html.

  16. La forme pseudo tumorale de la tuberculose primitive du nasopharynx

    African Journals Online (AJOL)

    La tuberculose primitive du nasopharynx est rare, nous présentons deux observations révélées par un aspect pseudo tumoral et à travers lesquelles nous soulevons le problème de diagnostic différentiel avec les lésions malignes du nasopharynx. La première observation concerne un jeune patient de 22 ans hospitalisé ...

  17. Top-Mode pseudo-Nambu-Goldstone Boson Higgs model

    Science.gov (United States)

    Fukano, Hidenori S.

    2017-12-01

    We discuss the Top-Mode pseudo-Nambu-Goldstone Boson Higgs (TMpNGBH) model which has recently been proposed as a variant of the top quark condensate model in light of the 125 GeV Higgs boson discovered at the LHC. In this talk, we focus on the vacuum alignment and the phenomenologies of characteristic particles of the TMpNGBH model.

  18. Pseudo Knowledge Sharing: The Influence of Trust and Guanxi Orientation

    OpenAIRE

    See-Kwong Goh; Poh-Yee Nee

    2015-01-01

    Despite the fact that knowledge sharing has been deemed as a competitive advantage and business sustainability tools for organizations, however many researcher has underpinned the deleterious impact knowledge sharing can bring forth to an organization performance. To date, it is found that minimal empirical research has been devoted to the dark side of knowledge sharing activities. Thus, this present study aims to extend this aspect specifically on pseudo knowledge sharing (PKS). The present ...

  19. Discrete Pseudo-SINR-Balancing Nonlinear Recurrent System

    Directory of Open Access Journals (Sweden)

    Zekeriya Uykan

    2013-01-01

    system and extend the results in Uykan (2009, which are for autonomous linear systems, to nonlinear case. The proposed system can be viewed as a discrete-time realization of a recently proposed continuous-time network in Uykan (2013. In this paper, we focus on discrete-time analysis and provide various novel key results concerning the discrete-time dynamics of the proposed system, some of which are as follows: (i the proposed system is shown to be stable in synchronous and asynchronous work mode in discrete time; (ii a novel concept called Pseudo-SINR (pseudo-signal-to-interference-noise ratio is introduced for discrete-time nonlinear systems; (iii it is shown that when the system states approach an equilibrium point, the instantaneous Pseudo-SINRs are balanced; that is, they are equal to a target value. The simulation results confirm the novel results presented and show the effectiveness of the proposed discrete-time network as applied to various associative memory systems and clustering problems.

  20. Numerical study of DNA denaturation with self-avoidance: pseudo-critical temperatures and finite size behaviour

    Science.gov (United States)

    Coluzzi, Barbara; Yeramian, Edouard

    2016-04-01

    We perform an extensive numerical study of the disordered Poland-Scheraga (PS) model for DNA denaturation in which self-avoidance is completely taken into account. To complement to our previous work, we focus here on the finite size scaling in terms of pseudo-critical temperatures. Notably, we find that the mean value and the fluctuations of the pseudo-T c scale with the same exponent, the correlation length exponent {ν\\text{r}} (for which we provide the refined evaluation {ν\\text{r}}=2.9+/- 0.4 ). This result (coherent with the typical picture that describes random ferromagnets when disorder is relevant) is at variance with the numerical results reported in the literature for the PS model with self-avoidance, leading to an alternative scenario with a pseudo-first-order transition. We moreover introduce a crossover chain length N *, which we evaluate, appropriate for characterizing the approach to the asymptotic regime in this model. Essentially, below N *, the behaviour of the model in our study could also agree with such an alternative scenario. Based on an approximate prediction of the dependence of N * on the parameters of the model, we show that following the choice of such parameters it would not be possible to reach the asymptotic regime in practice. In such a context it becomes then possible to reconcile the apparently contradictory numerical studies.

  1. NAFASS: Discrete spectroscopy of random signals

    Energy Technology Data Exchange (ETDEWEB)

    Nigmatullin, R.R., E-mail: nigmat@knet.r [Institute of Physics, Kazan (Volga Region) Federal University, Kremlevskaya str.18, Kazan, Tatarstan 420008 (Russian Federation); Osokin, S.I. [Institute of Physics, Kazan (Volga Region) Federal University, Kremlevskaya str.18, Kazan, Tatarstan 420008 (Russian Federation); Toboev, V.A. [Department of Mathematics, Chuvash State University, Moskovskiy pr., 15, Cheboksary 428015 (Russian Federation)

    2011-04-15

    Research highlights: The successful solution of the Prony's problem has been obtained. It means that for any random signal its amplitude-frequency response can be found. This solution opens quite new possibilities in creation of new discrete spectroscopy in analysis of different nanoscopic and intermolecular signals. Real NIR spectra and biological data were considered and analyzed as examples. The conception of the pseudo-ergodic noise is introduced. It helps to fit the auto-correlation function that is related to remnant function. The three basic principles of the fluctuation metrology are formulated. - Abstract: In this paper we suggest a new discrete spectroscopy for analysis of random signals and fluctuations. This discrete spectroscopy is based on successful solution of the modified Prony's problem for the strongly-correlated random sequences. As opposed to the general Prony's problem where the set of frequencies is supposed to be unknown in the new approach suggested the distribution of the unknown frequencies can be found for the strongly-correlated random sequences. Preliminary information about the frequency distribution facilitates the calculations and attaches an additional stability in the presence of a noise. This spectroscopy uses only the informative-significant frequency band that helps to fit the given signal with high accuracy. It means that any random signal measured in t-domain can be 'read' in terms of its amplitude-frequency response (AFR) without model assumptions related to the behavior of this signal in the frequency region. The method overcomes some essential drawbacks of the conventional Prony's method and can be determined as the non-orthogonal amplitude frequency analysis of the smoothed sequences (NAFASS). In this paper we outline the basic principles of the NAFASS procedure and show its high potential possibilities based on analysis of some actual NIR data. The AFR obtained serves as a specific

  2. Evolution equations in generalized Stepanov-like pseudo almost automorphic spaces

    Directory of Open Access Journals (Sweden)

    Toka Diagana

    2012-03-01

    Full Text Available In this article, first we introduce and study the concept of $mathbb{S}_{gamma}^p$-pseudo almost automorphy (or generalized Stepanov-like pseudo almost automorphy, which is more general than the notion of Stepanov-like pseudo almost automorphy due to Diagana. We next study the existence of solutions to some classes of nonautonomous differential equations of Sobolev type in $mathbb{S}_{gamma}^p$-pseudo almost automorphic spaces. To illustrate our abstract result, we will study the existence and uniqueness of a pseudo almost automorphic solution to the heat equation with a negative time-dependent diffusion coefficient.

  3. Research on pseudo-color image generation technology of the distribution of gaseous pollutants

    Science.gov (United States)

    Yang, Jiao; Sheng, HuaiJie; Shao, Li; Cheng, YuBao

    2016-11-01

    In order to improve the visualization of the output data of gaseous pollutants monitoring system and study pseudo-color image generation technology, this research combines the column concentration data of polluted gas with spatial position parameter to design a grey-color conversion method based on visual pseudo-color coding, generates the pseudo-color images of column concentration of the distribution of polluted gas and evaluates the pseudo-color coding scheme designed in HSI color space. The evaluation results show that the designed coding scheme can effectively conduct pseudo-color display for the concentration section of polluted gas.

  4. Prediction protein structural classes with pseudo-amino acid composition: approximate entropy and hydrophobicity pattern.

    Science.gov (United States)

    Zhang, Tong-Liang; Ding, Yong-Sheng; Chou, Kuo-Chen

    2008-01-07

    Compared with the conventional amino acid (AA) composition, the pseudo-amino acid (PseAA) composition as originally introduced for protein subcellular location prediction can incorporate much more information of a protein sequence, so as to remarkably enhance the power of using a discrete model to predict various attributes of a protein. In this study, based on the concept of PseAA composition, the approximate entropy and hydrophobicity pattern of a protein sequence are used to characterize the PseAA components. Also, the immune genetic algorithm (IGA) is applied to search the optimal weight factors in generating the PseAA composition. Thus, for a given protein sequence sample, a 27-D (dimensional) PseAA composition is generated as its descriptor. The fuzzy K nearest neighbors (FKNN) classifier is adopted as the prediction engine. The results thus obtained in predicting protein structural classification are quite encouraging, indicating that the current approach may also be used to improve the prediction quality of other protein attributes, or at least can play a complimentary role to the existing methods in the relevant areas. Our algorithm is written in Matlab that is available by contacting the corresponding author.

  5. A technique for improving pseudo-synthetic seismograms generated from neutron logs in gas-saturated clastic rocks

    Science.gov (United States)

    Kung, Shih-Ling; Lewis, Charles; Wu, Jong-Chang

    2013-06-01

    In clastic and carbonate rock sequences, the neutron and sonic log curves usually deflect in a similar fashion. Moreover, in some cases the two curves can be overlain and they generally appear to mimic each other, with variations between them only in the amplitudes of the two curves. This descriptive correlation is the basis of direct cross-plot techniques used to convert a neutron log into a pseudo-sonic log, which can then be combined with a density log to create a pseudo-synthetic seismogram. Unfortunately, the seismograms produced in this way may not match the standard synthetic seismograms produced from the sonic and density logs if the ‘gas effect’ is not taken into account. In order to correct for the gas effect, the inter-log correlations between the compensated neutron log (CNL) and the borehole-compensated (BHC) sonic log curves from a well in Taiwan were carefully examined. Then, we developed a technique for transforming the CNL log into a pseudo-BHC log by splicing together several continuous sandstone intervals in which the gas effect could be identified from the scattered data on the cross-plot of neutron porosity versus sonic interval transit time. Based upon our results, application of the new composite transform method yields a pseudo-synthetic seismogram that better matches the standard synthetic seismogram (made from the sonic and density logs) according to frequency, amplitude and polarity. This gas correction technique may be particularly useful in oil and gas exploratory and development areas where neutron logs are more prevalent than sonic logs or where sonic logs are scarce.

  6. Characterization of constitutive and putative differentially expressed mRNAs by means of expressed sequence tags, differential display reverse transcriptase-PCR and randomly amplified polymorphic DNA-PCR from the sand fly vector Lutzomyia longipalpis

    Directory of Open Access Journals (Sweden)

    JM Ramalho-Ortigão

    2001-01-01

    Full Text Available Molecular studies of insect disease vectors are of paramount importance for understanding parasite-vector relationship. Advances in this area have led to important findings regarding changes in vectors' physiology upon blood feeding and parasite infection. Mechanisms for interfering with the vectorial capacity of insects responsible for the transmission of diseases such as malaria, Chagas disease and dengue fever are being devised with the ultimate goal of developing transgenic insects. A primary necessity for this goal is information on gene expression and control in the target insect. Our group is investigating molecular aspects of the interaction between Leishmania parasites and Lutzomyia sand flies. As an initial step in our studies we have used random sequencing of cDNA clones from two expression libraries made from head/thorax and abdomen of sugar fed L. longipalpis for the identification of expressed sequence tags (EST. We applied differential display reverse transcriptase-PCR and randomly amplified polymorphic DNA-PCR to characterize differentially expressed mRNA from sugar and blood fed insects, and, in one case, from a L. (V. braziliensis-infected L. longipalpis. We identified 37 cDNAs that have shown homology to known sequences from GeneBank. Of these, 32 cDNAs code for constitutive proteins such as zinc finger protein, glutamine synthetase, G binding protein, ubiquitin conjugating enzyme. Three are putative differentially expressed cDNAs from blood fed and Leishmania-infected midgut, a chitinase, a V-ATPase and a MAP kinase. Finally, two sequences are homologous to Drosophila melanogaster gene products recently discovered through the Drosophila genome initiative.

  7. Cerebral activation related to skills practice in a double serial reaction time task : striatal involvement in random-order sequence learning

    NARCIS (Netherlands)

    van der Graaf, FHCE; de Jong, BM; Maguire, RP; Meiners, LC; Leenders, KL

    We used functional Magnetic Resonance Imaging (fMRI) to examine the distribution of cerebral activation related to prolonged skill practice. In a bimanual variant of the Serial Reaction Time Task (SRT), simultaneous finger movements of the two hands were made in response to randomly ordered pairs of

  8. Pseudo-nitzschia species on the Catalan coast: characterization and contribution to the current knowledge of the distribution of this genus in the Mediterranean Sea

    Directory of Open Access Journals (Sweden)

    Sonia Quijano-Scheggia

    2010-04-01

    Full Text Available Proliferations of the genus Pseudo-nitzschia recur along the Catalan coast (NW Mediterranean throughout the year. The establishment of 58 clonal cultures facilitated morphological studies with scanning electron microscopy (SEM and ITS 5.8S rDNA sequence characterization. Moreover, strains of each species were examined with respect to sexual compatibility and toxicity. The results of the morphological and phylogenetic studies confirmed nine species of the genus Pseudo-nitzschia: P. brasiliana, P. calliantha, P. delicatissima clade A/del 2, P. arenysensis, P. fraudulenta, P. galaxiae, P. linea, P. multistriata and P. pungens clade I. Moreover, two Pseudo-nitzschia species, P. caciantha and P. cf mannii, could only be identified following SEM analysis of their morphology. None of the cultured strains of Pseudo-nitzschia analyzed produced domoic acid in amounts above the limit of detection. The current distributions of the Pseudo-nitzschia species in the Mediterranean Sea were plotted on maps, which led to the following observations: i diversity within this genus is much greater than previously considered, ii some species have a broad distribution (e.g. P. calliantha, iii whereas the distribution of others is narrowly restricted (e.g. P. pungens clade I. Moreover, this study reports the first detection of P. linea in the Mediterranean Sea and is the first description of P. galaxiae and P. cf mannii along the Catalan coast. Morphological studies coupled with molecular biological characterization, mating tests and biogeographic distribution analyses provide a critical theoretical basis for testing and/or implementing the current phylogenetic framework in the genus Pseudo-nitzschia.

  9. Comparing pseudo-absences generation techniques in Boosted Regression Trees models for conservation purposes: A case study on amphibians in a protected area.

    Science.gov (United States)

    Cerasoli, Francesco; Iannella, Mattia; D'Alessandro, Paola; Biondi, Maurizio

    2017-01-01

    Boosted Regression Trees (BRT) is one of the modelling techniques most recently applied to biodiversity conservation and it can be implemented with presence-only data through the generation of artificial absences (pseudo-absences). In this paper, three pseudo-absences generation techniques are compared, namely the generation of pseudo-absences within target-group background (TGB), testing both the weighted (WTGB) and unweighted (UTGB) scheme, and the generation at random (RDM), evaluating their performance and applicability in distribution modelling and species conservation. The choice of the target group fell on amphibians, because of their rapid decline worldwide and the frequent lack of guidelines for conservation strategies and regional-scale planning, which instead could be provided through an appropriate implementation of SDMs. Bufo bufo, Salamandrina perspicillata and Triturus carnifex were considered as target species, in order to perform our analysis with species having different ecological and distributional characteristics. The study area is the "Gran Sasso-Monti della Laga" National Park, which hosts 15 Natura 2000 sites and represents one of the most important biodiversity hotspots in Europe. Our results show that the model calibration ameliorates when using the target-group based pseudo-absences compared to the random ones, especially when applying the WTGB. Contrarily, model discrimination did not significantly vary in a consistent way among the three approaches with respect to the tree target species. Both WTGB and RDM clearly isolate the highly contributing variables, supplying many relevant indications for species conservation actions. Moreover, the assessment of pairwise variable interactions and their three-dimensional visualization further increase the amount of useful information for protected areas' managers. Finally, we suggest the use of RDM as an admissible alternative when it is not possible to individuate a suitable set of species as a

  10. Comparing pseudo-absences generation techniques in Boosted Regression Trees models for conservation purposes: A case study on amphibians in a protected area.

    Directory of Open Access Journals (Sweden)

    Francesco Cerasoli

    Full Text Available Boosted Regression Trees (BRT is one of the modelling techniques most recently applied to biodiversity conservation and it can be implemented with presence-only data through the generation of artificial absences (pseudo-absences. In this paper, three pseudo-absences generation techniques are compared, namely the generation of pseudo-absences within target-group background (TGB, testing both the weighted (WTGB and unweighted (UTGB scheme, and the generation at random (RDM, evaluating their performance and applicability in distribution modelling and species conservation. The choice of the target group fell on amphibians, because of their rapid decline worldwide and the frequent lack of guidelines for conservation strategies and regional-scale planning, which instead could be provided through an appropriate implementation of SDMs. Bufo bufo, Salamandrina perspicillata and Triturus carnifex were considered as target species, in order to perform our analysis with species having different ecological and distributional characteristics. The study area is the "Gran Sasso-Monti della Laga" National Park, which hosts 15 Natura 2000 sites and represents one of the most important biodiversity hotspots in Europe. Our results show that the model calibration ameliorates when using the target-group based pseudo-absences compared to the random ones, especially when applying the WTGB. Contrarily, model discrimination did not significantly vary in a consistent way among the three approaches with respect to the tree target species. Both WTGB and RDM clearly isolate the highly contributing variables, supplying many relevant indications for species conservation actions. Moreover, the assessment of pairwise variable interactions and their three-dimensional visualization further increase the amount of useful information for protected areas' managers. Finally, we suggest the use of RDM as an admissible alternative when it is not possible to individuate a suitable set of

  11. Pseudo-acne fulminans associated with oral isotretinoin*

    Science.gov (United States)

    Grando, Luciana Rosa; Leite, Oriete Gerin; Cestari, Tania Ferreira

    2014-01-01

    Acne fulminans is a rare and serious condition characterized by the sudden onset of nodular and ulcerative acne lesions associated with systemic symptoms. It has been recognized a subset of patients with a sudden worsening of acne, often during treatment with oral isotretinoin, but without the strong presence of systemic involvement. Recognized by some authors as "pseudo-acne fulminans" or " acne fulminans sine fulminans," we report a case with these features in order to draw attention to the recognition and early management of this manifestation. PMID:25054758

  12. [Hemopyrrollactamuria (HPU); from spots to pseudo-disease].

    Science.gov (United States)

    van der Meer, J W; van de Kerkhof, R; The, G K; Boers, G H

    2003-09-06

    In recent years, patients in the Netherlands confront their doctors with the diagnosis 'haemopyrollactamuria' (HPU), based on the presence of the haemopyrrollactam complex in their urine. The diagnosis is made by a commercial laboratory in the Netherlands (www.keac.nl). We have not been able to find peer-reviewed scientific literature on this metabolic disease. The haemopyrrollactam complex represents the so-called mauve spot, which was the subject of much controversy in schizophrenia research in the previous century. Reviewing all of the available data, we feel that HPU should be classified as a pseudo-disease.

  13. Coherent imaging with pseudo-thermal incoherent light

    DEFF Research Database (Denmark)

    Gatti, A.; Bache, Morten; Magatti, D.

    2006-01-01

    We investigate experimentally fundamental properties of coherent ghost imaging using spatially incoherent beams generated from a pseudo-thermal source. A complementarity between the coher- ence of the beams and the correlation between them is demonstrated by showing a complementarity between ghost...... diffraction and ordinary diffraction patterns. In order for the ghost imaging scheme to work it is therefore crucial to have incoherent beams. The visibility of the information is shown for the ghost image to become better as the object size relative to the speckle size is decreased, and therefore...

  14. Pseudo-compressibility methods for the incompressible flow equations

    Science.gov (United States)

    Turkel, Eli; Arnone, A.

    1993-01-01

    Preconditioning methods to accelerate convergence to a steady state for the incompressible fluid dynamics equations are considered. The analysis relies on the inviscid equations. The preconditioning consists of a matrix multiplying the time derivatives. Thus the steady state of the preconditioned system is the same as the steady state of the original system. The method is compared to other types of pseudo-compressibility. For finite difference methods preconditioning can change and improve the steady state solutions. An application to viscous flow around a cascade with a non-periodic mesh is presented.

  15. Pseudo inputs for pairwise learning with Gaussian processes

    DEFF Research Database (Denmark)

    Nielsen, Jens Brehm; Jensen, Bjørn Sand; Larsen, Jan

    2012-01-01

    is based on a classical pairwise probit likelihood imposed with a Gaussian process prior. While extremely flexible, this non-parametric method struggles with an inconvenient O(n3) scaling in terms of the n input instances which limits the method only to smaller problems. To overcome this, we derive...... a specific sparse extension of the classical pairwise likelihood using the pseudo-input formulation. The behavior of the proposed extension is demonstrated on a toy example and on two real-world data sets which outlines the potential gain and pitfalls of the approach. Finally, we discuss the relation...

  16. Displaced vertices from pseudo-Dirac dark matter

    Science.gov (United States)

    Davoli, Alessandro; De Simone, Andrea; Jacques, Thomas; Sanz, Verónica

    2017-11-01

    Displaced vertices are relatively unusual signatures for dark matter searches at the LHC. We revisit the model of pseudo-Dirac dark matter (pDDM), which can accommodate the correct relic density, evade direct detection constraints, and generically provide observable collider signatures in the form of displaced vertices. We use this model as a benchmark to illustrate the general techniques involved in the analysis, the complementarity between monojet and displaced vertex searches, and provide a comprehensive study of the current bounds and prospective reach.

  17. Age bimodality in the central region of pseudo-bulges in S0 galaxies

    Science.gov (United States)

    Mishra, Preetish K.; Barway, Sudhanshu; Wadadekar, Yogesh

    2017-11-01

    We present evidence for bimodal stellar age distribution of pseudo-bulges of S0 galaxies as probed by the Dn(4000) index. We do not observe any bimodality in age distribution for pseudo-bulges in spiral galaxies. Our sample is flux limited and contains 2067 S0 and 2630 spiral galaxies drawn from the Sloan Digital Sky Survey. We identify pseudo-bulges in S0 and spiral galaxies, based on the position of the bulge on the Kormendy diagram and their central velocity dispersion. Dividing the pseudo-bulges of S0 galaxies into those containing old and young stellar populations, we study the connection between global star formation and pseudo-bulge age on the u - r colour-mass diagram. We find that most old pseudo-bulges are hosted by passive galaxies while majority of young bulges are hosted by galaxies that are star forming. Dividing our sample of S0 galaxies into early-type S0s and S0/a galaxies, we find that old pseudo-bulges are mainly hosted by early-type S0 galaxies while most of the pseudo-bulges in S0/a galaxies are young. We speculate that morphology plays a strong role in quenching of star formation in the disc of these S0 galaxies, which stops the growth of pseudo-bulges, giving rise to old pseudo-bulges and the observed age bimodality.

  18. Adaptiveness in monotone pseudo-Boolean optimization and stochastic neural computation.

    Science.gov (United States)

    Grossi, Giuliano

    2009-08-01

    Hopfield neural network (HNN) is a nonlinear computational model successfully applied in finding near-optimal solutions of several difficult combinatorial problems. In many cases, the network energy function is obtained through a learning procedure so that its minima are states falling into a proper subspace (feasible region) of the search space. However, because of the network nonlinearity, a number of undesirable local energy minima emerge from the learning procedure, significantly effecting the network performance. In the neural model analyzed here, we combine both a penalty and a stochastic process in order to enhance the performance of a binary HNN. The penalty strategy allows us to gradually lead the search towards states representing feasible solutions, so avoiding oscillatory behaviors or asymptotically instable convergence. Presence of stochastic dynamics potentially prevents the network to fall into shallow local minima of the energy function, i.e., quite far from global optimum. Hence, for a given fixed network topology, the desired final distribution on the states can be reached by carefully modulating such process. The model uses pseudo-Boolean functions both to express problem constraints and cost function; a combination of these two functions is then interpreted as energy of the neural network. A wide variety of NP-hard problems fall in the class of problems that can be solved by the model at hand, particularly those having a monotonic quadratic pseudo-Boolean function as constraint function. That is, functions easily derived by closed algebraic expressions representing the constraint structure and easy (polynomial time) to maximize. We show the asymptotic convergence properties of this model characterizing its state space distribution at thermal equilibrium in terms of Markov chain and give evidence of its ability to find high quality solutions on benchmarks and randomly generated instances of two specific problems taken from the computational graph

  19. Computed tomography synthesis from magnetic resonance images in the pelvis using multiple random forests and auto-context features

    DEFF Research Database (Denmark)

    Andreasen, Daniel; Morgenthaler Edmund, Jens; Zografos, Vasileios

    2016-01-01

    In radiotherapy treatment planning that is only based on magnetic resonance imaging (MRI), the electron density information usually obtained from computed tomography (CT) must be derived from the MRI by synthesizing a so-called pseudo CT (pCT). This is a non-trivial task since MRI intensities...... are neither uniquely nor quantitatively related to electron density. Typical approaches involve either a classification or regression model requiring specialized MRI sequences to solve intensity ambiguities, or an atlas-based model necessitating multiple registrations between atlases and subject scans....... In this work, we explore a machine learning approach for creating a pCT of the pelvic region from conventional MRI sequences without using atlases. We use a random forest provided with information about local texture, edges and spatial features derived from the MRI. This helps to solve intensity ambiguities...

  20. ProClusEnsem: Predicting membrane protein types by fusing different modes of pseudo amino acid composition

    KAUST Repository

    Wang, Jim Jing-Yan

    2012-05-01

    Knowing the type of an uncharacterized membrane protein often provides a useful clue in both basic research and drug discovery. With the explosion of protein sequences generated in the post genomic era, determination of membrane protein types by experimental methods is expensive and time consuming. It therefore becomes important to develop an automated method to find the possible types of membrane proteins. In view of this, various computational membrane protein prediction methods have been proposed. They extract protein feature vectors, such as PseAAC (pseudo amino acid composition) and PsePSSM (pseudo position-specific scoring matrix) for representation of protein sequence, and then learn a distance metric for the KNN (K nearest neighbor) or NN (nearest neighbor) classifier to predicate the final type. Most of the metrics are learned using linear dimensionality reduction algorithms like Principle Components Analysis (PCA) and Linear Discriminant Analysis (LDA). Such metrics are common to all the proteins in the dataset. In fact, they assume that the proteins lie on a uniform distribution, which can be captured by the linear dimensionality reduction algorithm. We doubt this assumption, and learn local metrics which are optimized for local subset of the whole proteins. The learning procedure is iterated with the protein clustering. Then a novel ensemble distance metric is given by combining the local metrics through Tikhonov regularization. The experimental results on a benchmark dataset demonstrate the feasibility and effectiveness of the proposed algorithm named ProClusEnsem. © 2012 Elsevier Ltd.

  1. Cellular Automata-Based Parallel Random Number Generators Using FPGAs

    Directory of Open Access Journals (Sweden)

    David H. K. Hoe

    2012-01-01

    Full Text Available Cellular computing represents a new paradigm for implementing high-speed massively parallel machines. Cellular automata (CA, which consist of an array of locally connected processing elements, are a basic form of a cellular-based architecture. The use of field programmable gate arrays (FPGAs for implementing CA accelerators has shown promising results. This paper investigates the design of CA-based pseudo-random number generators (PRNGs using an FPGA platform. To improve the quality of the random numbers that are generated, the basic CA structure is enhanced in two ways. First, the addition of a superrule to each CA cell is considered. The resulting self-programmable CA (SPCA uses the superrule to determine when to make a dynamic rule change in each CA cell. The superrule takes its inputs from neighboring cells and can be considered itself a second CA working in parallel with the main CA. When implemented on an FPGA, the use of lookup tables in each logic cell removes any restrictions on how the super-rules should be defined. Second, a hybrid configuration is formed by combining a CA with a linear feedback shift register (LFSR. This is advantageous for FPGA designs due to the compactness of the LFSR implementations. A standard software package for statistically evaluating the quality of random number sequences known as Diehard is used to validate the results. Both the SPCA and the hybrid CA/LFSR were found to pass all the Diehard tests.

  2. DNA based random key generation and management for OTP encryption.

    Science.gov (United States)

    Zhang, Yunpeng; Liu, Xin; Sun, Manhui

    2017-09-01

    One-time pad (OTP) is a principle of key generation applied to the stream ciphering method which offers total privacy. The OTP encryption scheme has proved to be unbreakable in theory, but difficult to realize in practical applications. Because OTP encryption specially requires the absolute randomness of the key, its development has suffered from dense constraints. DNA cryptography is a new and promising technology in the field of information security. DNA chromosomes storing capabilities can be used as one-time pad structures with pseudo-random number generation and indexing in order to encrypt the plaintext messages. In this paper, we present a feasible solution to the OTP symmetric key generation and transmission problem with DNA at the molecular level. Through recombinant DNA technology, by using only sender-receiver known restriction enzymes to combine the secure key represented by DNA sequence and the T vector, we generate the DNA bio-hiding secure key and then place the recombinant plasmid in implanted bacteria for secure key transmission. The designed bio experiments and simulation results show that the security of the transmission of the key is further improved and the environmental requirements of key transmission are reduced. Analysis has demonstrated that the proposed DNA-based random key generation and management solutions are marked by high security and usability. Published by Elsevier B.V.

  3. Pseudo-Stem Banana Fibers: Characterization and Chromium Removal

    Directory of Open Access Journals (Sweden)

    Helena Becker

    2013-11-01

    Full Text Available In this work, pseudo-stems of the banana tree were collected, characterized and used as adsorbent materials for the removal of the chromium ions from aqueous solution. The characterization of pseudo-stems by FTIR suggests the presence of cellulose, hemicellulose and lignin. The predominant groups were carbonyls (0.312 ± 0.010 mmol g–1 adsorbent, phenols (0.237 ± 0.021 mmol g–1 adsorbent, lactones (0.041 ± 0.003 mmol g–1 adsorbent and basic groups (0.096 ± 0.006 mmol g–1 adsorbent. The textural propriety of the adsorbent, surface area, pore volume and pore diameter were found to be 0.383 m2 g–1, 0.003525 cm3 g–1 and 368.3 Å, respectively. The pHpzc value was found 7.5 and so the adsorption assays of chromium removal from solution were more efficiently at acidic pH values. The experiments show that approximately 95% and 78% of the Cr (VI was removed from solution by untreated and treated fiber, respectively, in 300 minutes of the contact time.

  4. Pseudo-homophony in non-native listening

    Science.gov (United States)

    Cutler, Anne; Otake, Takashi

    2004-05-01

    Pseudo-homophony may result when non-native listeners cannot distinguish phonemic contrasts. Thus Dutch listeners have difficulty distinguishing the vowels of English cattle versus kettle, because this contrast is subsumed by a single Dutch vowel category; in consequence, both words may be activated whenever either is heard. A lexical decision study in English explored this phenomenon by testing for repetition priming. The materials contained among 340 items 18 pairs such as cattle/kettle, i.e., contrasting only in those vowels, and 18 pairs contrasting only in r/l (e.g., right/light). These materials, spoken by a native American English speaker, were presented to fluent non-native speakers of English, 48 Dutch Nijmegen University students, and 48 Japanese Dokkyo University students; the listeners performed lexical decision on each spoken item, and response time was measured. Dutch listeners responded significantly faster to one member of a cattle/kettle pair after having heard the other member earlier in the list (compared with having heard a control word), suggesting that both words had been activated whichever had been heard. Japanese listeners, however, showed no such priming for cattle/kettle words, but did show repetition priming across r/l pairs such as right/light. Non-native listeners' phonemic discrimination difficulties thus generate pseudo-homophony.

  5. Pseudo-creep in Shape Memory Alloy Wires and Sheets

    Science.gov (United States)

    Russalian, V. R.; Bhattacharyya, A.

    2017-10-01

    Interruption of loading during reorientation and isothermal pseudoelasticity in shape memory alloys with a strain arrest ( i.e., holding strain constant) results in a time-dependent evolution in stress or with a stress arrest ( i.e., holding stress constant) results in a time-dependent evolution in strain. This phenomenon, which we term as pseudo-creep, is similar to what was reported in the literature three decades ago for some traditional metallic materials undergoing plastic deformation. In a previous communication, we reported strain arrest of isothermal pseudoelastic loading, isothermal pseudoelastic unloading, and reorientation in NiTi wires as well as a rate-independent phase diagram. In this paper, we provide experimental results of the pseudo-creep phenomenon during stress arrest of isothermal pseudoelasticity and reorientation in NiTi wires as well as strain arrest of isothermal pseudoelasticity and reorientation in NiTi sheets. Stress arrest in NiTi wires accompanied by strain accumulation or recovery is studied using the technique of multi-video extensometry. The experimental results were used to estimate the amount of mechanical energy needed to evolve the wire from one microstructural state to another during isothermal pseudoelastic deformation and the difference in energies between the initial and the final rest state between which the aforementioned evolution has occurred.

  6. Pseudo-Finslerian Space-Times and Multirefringence

    Science.gov (United States)

    Skákala, Jozef; Visser, Matt

    Ongoing searches for a quantum theory of gravity have repeatedly led to the suggestion that space-time might ultimately be anisotropic (Finsler-like) and/or exhibit multirefringence (multiple signal cones). Multiple (and even anisotropic) signal cones can be easily dealt with in a unified manner, by writing down a single Fresnel equation to simultaneously encode all signal cones in an even-handed manner. Once one gets off the signal cone and attempts to construct a full multirefringent space-time metric the situation becomes more problematic. In the multirefringent case we shall report a significant no-go result: in multirefringent models there is no simple or compelling way to construct any unifying notion of pseudo-Finsler space-time metric, different from a monorefringenent model, where the signal cone structure plus a conformal factor completely specifies the full pseudo-Riemannian metric. To throw some light on this situation we use an analog model where both anisotropy and multirefringence occur simultaneously: biaxial birefringent crystal. But the significance of our results extends beyond the optical framework in which (purely for pedagogical reasons) we are working, and has implications for any attempt at introducing multirefringence and intrinsic anisotropies to any model of quantum gravity that has a low energy manifold-like limit.

  7. The hot (invisible? hand: can time sequence patterns of success/failure in sports be modeled as repeated random independent trials?

    Directory of Open Access Journals (Sweden)

    Gur Yaari

    Full Text Available The long lasting debate initiated by Gilovich, Vallone and Tversky in [Formula: see text] is revisited: does a "hot hand" phenomenon exist in sports? Hereby we come back to one of the cases analyzed by the original study, but with a much larger data set: all free throws taken during five regular seasons ([Formula: see text] of the National Basketball Association (NBA. Evidence supporting the existence of the "hot hand" phenomenon is provided. However, while statistical traces of this phenomenon are observed in the data, an open question still remains: are these non random patterns a result of "success breeds success" and "failure breeds failure" mechanisms or simply "better" and "worse" periods? Although free throws data is not adequate to answer this question in a definite way, we speculate based on it, that the latter is the dominant cause behind the appearance of the "hot hand" phenomenon in the data.

  8. Existence of pseudo almost periodic solutions for a class of partial functional differential equations

    Directory of Open Access Journals (Sweden)

    Hui-Sheng Ding

    2013-04-01

    Full Text Available In this paper, we first introduce a new class of pseudo almost periodic type functions and investigate some properties of pseudo almost periodic type functions; and then we discuss the existence of pseudo almost periodic solutions to the class of abstract partial functional differential equations $x'(t=Ax(t+f(t,x_t$ with finite delay in a Banach space X.

  9. ANALYSIS OF THE CHEMICAL COMPOSITION AND MORPHOLOGICAL STRUCTURE OF BANANA PSEUDO-STEM

    OpenAIRE

    Kun Li; Shiyu Fu; Huaiyu Zhan; Yao Zhan; Lucian A. Lucia

    2010-01-01

    An analysis of the chemical composition and anatomical structure of banana pseudo-stem was carried out using Light Microscopy (LM), Scanning Electron Microscopy (SEM), and Confocal Laser Scanning Microscopy (CLSM). The chemical analysis indicated there is a high holocellulose content and low lignin content in banana pseudo-stem compared with some other non-wood fiber resources. These results demonstrate that the banana pseudo-stem has potential value for pulping. In addition, we report for th...

  10. Neutrosophic Regular Filters and Fuzzy Regular Filters in Pseudo-BCI Algebras

    Directory of Open Access Journals (Sweden)

    Xiaohong Zhang

    2017-09-01

    Full Text Available Neutrosophic set is a new mathematical tool for handling problems involving imprecise, indeterminacy and inconsistent data. Pseudo-BCI algebra is a kind of non-classical logic algebra in close connection with various non-commutative fuzzy logics. Recently, we applied neutrosophic set theory to pseudo-BCI algebras. In this paper, we study neutrosophic filters in pseudo-BCI algebras.

  11. Continuous curves of nonmetric pseudo-arcs and semi-conjugacies to interval maps

    OpenAIRE

    Boronski, Jan P.; Smith, Michel

    2017-01-01

    In 1985 M. Smith constructed a nonmetric pseudo-arc; i.e. a Hausdorff homogeneous, hereditary equivalent and hereditary indecomposable continuum. Taking advantage of a decomposition theorem of W. Lewis, he obtained it as a long inverse limit of metric pseudo-arcs with monotone bonding maps. Extending his approach, and the results of Lewis on lifting homeomorphisms, we construct a nonmetric pseudo-circle, and new examples of homogeneous 1-dimensional continua; e.g. a circle and solenoids of no...

  12. Toxin inhibition in C. crescentus VapBC1 is mediated by a flexible pseudo-palindromic protein motif and modulated by DNA binding

    DEFF Research Database (Denmark)

    Bendtsen, Kirstine L; Xu, Kehan; Luckmann, Majbritt

    2017-01-01

    interaction with the antitoxin. Here, we determine crystal structures of the complete 90 kDa heterooctameric VapBC1 complex from Caulobacter crescentus CB15 both in isolation and bound to its cognate DNA operator sequence at 1.6 and 2.7 Å resolution, respectively. DNA binding is associated with a dramatic......Expression of bacterial type II toxin-antitoxin (TA) systems is regulated at the transcriptional level through direct binding of the antitoxin to pseudo-palindromic sequences on operator DNA. In this context, the toxin functions as a co-repressor by stimulating DNA binding through direct...... for binding and inactivation of the VapC1 toxin dimer. Sequence analysis of 4127 orthologous VapB sequences reveals that such palindromic protein sequences are widespread and unique to bacterial and archaeal VapB antitoxins suggesting a general principle governing regulation of VapBC TA systems. Finally...

  13. A novel alignment-free method to classify protein folding types by combining spectral graph clustering with Chou's pseudo amino acid composition.

    Science.gov (United States)

    Tripathi, Pooja; Pandey, Paras N

    2017-07-07

    The present work employs pseudo amino acid composition (PseAAC) for encoding the protein sequences in their numeric form. Later this will be arranged in the similarity matrix, which serves as input for spectral graph clustering method. Spectral methods are used previously also for clustering of protein sequences, but they uses pair wise alignment scores of protein sequences, in similarity matrix. The alignment score depends on the length of sequences, so clustering short and long sequences together may not good idea. Therefore the idea of introducing PseAAC with spectral clustering algorithm came into scene. We extensively tested our method and compared its performance with other existing machine learning methods. It is consistently observed that, the number of clusters that we obtained for a given set of proteins is close to the number of superfamilies in that set and PseAAC combined with spectral graph clustering shows the best classification results. Copyright © 2017 Elsevier Ltd. All rights reserved.

  14. Pseudo-arthrosis repair of a posterior cruciate ligament avulsion fracture

    OpenAIRE

    Hoogervorst, Paul; Gardeniers, J.W.M.; Moret-Wever, S.; Kampen, A. van

    2010-01-01

    A pseudo-arthrosis repair of a 4-year-old bony avulsion fracture of the PCL using a minimally invasive technique, screw fixation, and bone grafting is reported. The case presented seems to be rather unique due to the fragment size and the approach for pseudo-arthrosis repair. There was a good functional result following minimally invasive pseudo-arthrosis repair of a posterior cruciate ligament avulsion fracture. There are no previous reports of similar pseudo-arthrosis repairs, and other aut...

  15. Um caso de pseudo-hermafrodita masculino em um suíno

    OpenAIRE

    Corcini, Carine Dahl; Leon, Priscila Marques Moura de; Rambo, Gissele; Santos, Elisa Caroline da Silva; Varela Júnior, Antonio Sergio; Moreira, Fabiana; Fernandes, Cristina Gevehr; Lucia Júnior, Thomaz

    2009-01-01

    Os termos pseudo-hermafrodita e intersexo são utilizados para se referir a animais com traços sexuais ambíguos. O diagnostico de pseudo-hermafrodita é baseado nos vestígios de gônadas e aspecto fenotípico do trato reprodutivo. Os pseudo-hermafroditas masculinos são aqueles que possuem somente testículo. Este trabalho relata um caso de pseudo-hermafrodita masculino em um suíno, cujo aparelho reprodutor foi colhido na linha de abate de um frigorífico. O animal, com idade de 150 dias...

  16. Um caso de pseudo-hermafrodita masculino em um suíno

    OpenAIRE

    Corcini, Carine Dahl; Leon, Priscila Marques Moura; Rambo, Gissele; Santos, Elisa Caroline da Silva; Varela Junior, Antonio Sergio; Moreira, Fabiana; Fernandes, Cristina Gevehr; Lucia Junior, Thomaz

    2009-01-01

    Os termos pseudo-hermafrodita e intersexo são utilizados para se referir a animais com traços sexuais ambíguos. O diagnostico de pseudo-hermafrodita é baseado nos vestígios de gônadas e aspecto fenotípico do trato reprodutivo. Os pseudo-hermafroditas masculinos são aqueles que possuem somente testículo. Este trabalho relata um caso de pseudo-hermafrodita masculino em um suíno, cujo aparelho reprodutor foi colhido na linha de abate de um frigorífico. O animal, com idade de 150 dias e peso apro...

  17. Complete mtDNA sequences of two millipedes suggest a new model for mitochondrial gene rearrangements: Duplication and non-random loss

    Energy Technology Data Exchange (ETDEWEB)

    Lavrov, Dennis V.; Boore, Jeffrey L.; Brown, Wesley M.

    2001-11-08

    We determined the complete mtDNA sequences of the millipedes Narceus annularus and Thyropygus sp. (Arthropoda: Diplopoda) and identified in both genomes all 37 genes typical for metazoan mtDNA. The arrangement of these genes is identical in the two millipedes, but differs from that inferred to be ancestral for arthropods by the location of four genes/gene clusters. This novel gene arrangement is unusual for animal mtDNA, in that genes with opposite transcriptional polarities are clustered in the genome and the two clusters are separated by two non-coding regions. The only exception to this pattern is the gene for cysteine tRNA, which is located in the part of the genome that otherwise contains all genes with the opposite transcriptional polarity. We suggest that a mechanism involving complete mtDNA duplication followed by the loss of genes, predetermined by their transcriptional polarity and location in the genome, could generate this gene arrangement from the one ancestral for arthropods. The proposed mechanism has important implications for phylogenetic inferences that are drawn on the basis of gene arrangement comparisons.

  18. Simultaneous measurement of brain perfusion and labeling efficiency in a single pseudo-continuous arterial spin labeling scan.

    Science.gov (United States)

    Chen, Zhensen; Zhao, Xihai; Zhang, Xingxing; Guo, Rui; Teeuwisse, Wouter M; Zhang, Bida; Koken, Peter; Smink, Jouke; Yuan, Chun; van Osch, Matthias J P

    2017-07-24

    The aim of this study was to propose, optimize, and validate a pseudo-continuous arterial spin labeling (pCASL) sequence for simultaneous measurement of brain perfusion and labeling efficiency. The proposed sequence incorporates the labeling efficiency measurement into the postlabeling delay period of a conventional perfusion pCASL sequence by using the time-encoding approach. In vivo validation experiments were performed on nine young subjects by comparing it to separate perfusion and labeling efficiency sequences. Sensitivity of the proposed combined sequence for measuring labeling efficiency changes was further addressed by varying the flip angles of the pCASL labeling radiofrequency pulses. The proposed combined sequence decreased the perfusion signal by ∼4% and a lower labeling efficiency (by ∼10%) was found as compared to the separate sequences. However, the temporal signal-noise-ratio of the perfusion signal remained unchanged. When the pCASL flip angle was decreased to a suboptimal setting, a strong correlation was found between the combined and the separate sequences for the relative change in pCASL perfusion signal as well as for the relative change in labeling efficiency. High correlation was also observed between relative changes in perfusion signal and the measured labeling efficiencies. The proposed sequence allows simultaneous measurement of brain perfusion and labeling efficiency with high time-efficiency at the price of only a small compromise in measurement accuracy. The additional labeling efficiency measurement can be used to facilitate qualitative interpretation of pCASL perfusion images. Magn Reson Med, 2017. © 2017 International Society for Magnetic Resonance in Medicine. © 2017 International Society for Magnetic Resonance in Medicine.

  19. Information Theory of DNA Sequencing

    CERN Document Server

    Motahari, Abolfazl; Tse, David

    2012-01-01

    DNA sequencing is the basic workhorse of modern day biology and medicine. Shotgun sequencing is the dominant technique used: many randomly located short fragments called reads are extracted from the DNA sequence, and these reads are assembled to reconstruct the original sequence. By drawing an analogy between the DNA sequencing problem and the classic communication problem, we define an information theoretic notion of sequencing capacity. This is the maximum number of DNA base pairs that can be resolved reliably per read, and provides a fundamental limit to the performance that can be achieved by any assembly algorithm. We compute the sequencing capacity explicitly for a simple statistical model of the DNA sequence and the read process. Using this framework, we also study the impact of noise in the read process on the sequencing capacity.

  20. Hybrid carbon nanostructure assemblage for high performance pseudo-capacitors

    Directory of Open Access Journals (Sweden)

    A. K. Mishra

    2012-06-01

    Full Text Available Investigation of novel nanocomposites for pseudo-capacitors with high capacitance and energy density is the spotlight of current energy research. In the present work, hybrid carbon nanostructure assemblage of graphene and multiwalled carbon nanotubes has been used as carbon support to nanostructured RuO2 and polyaniline for high energy supercapacitors. Maximum specific capacitances of 110, 235 and 440 F g−1 at the voltage sweep rate of 10 mV s−1 and maximum energy densities of 7, 12.5 and 20.5 Wh kg−1 were observed for carbon assemblage and its RuO2 and polyanilne decorated nanocomposites, respectively, with 1M H2SO4 as electrolyte.

  1. Pseudo Goldstone Bosons Phenomenology in Minimal Walking Technicolor

    DEFF Research Database (Denmark)

    Hapola, Tuomas; Mescia, Federico; Nardecchia, Marco

    2012-01-01

    We construct the non-linear realized Lagrangian for the Goldstone Bosons associated to the breaking pattern of SU(4) to SO(4). This pattern is expected to occur in any Technicolor extension of the standard model featuring two Dirac fermions transforming according to real representations of the un......We construct the non-linear realized Lagrangian for the Goldstone Bosons associated to the breaking pattern of SU(4) to SO(4). This pattern is expected to occur in any Technicolor extension of the standard model featuring two Dirac fermions transforming according to real representations...... of the underlying gauge group. We concentrate on the Minimal Walking Technicolor quantum number assignments with respect to the standard model symmetries. We demonstrate that for, any choice of the quantum numbers, consistent with gauge and Witten anomalies the spectrum of the pseudo Goldstone Bosons contains...

  2. Understanding quantum non-locality through pseudo-telepathy game

    Science.gov (United States)

    Kunkri, Samir

    2006-11-01

    Usually by quantum non-locality we mean that quantum mechanics can not be replaced by local realistic theory. On the other hand this nonlocal feature of quantum mechanics can not be used for instantaneous communication and hence it respect Einstein's special theory of relativity. But still it is not trivial as proved by various quantum information processing using entangled states. Recently there have been studies of hypothetical non-local system again respecting no-signalling which is beyond quantum mechanics. Here we study the power of such a hypothetical nonlocal box first suggested by Popescu et.al. in the context of recently suggested pseudo-telepathy game constructed from a Kochen-Specker set.

  3. Pseudo paths towards minimum energy states in network dynamics

    Science.gov (United States)

    Hedayatifar, L.; Hassanibesheli, F.; Shirazi, A. H.; Vasheghani Farahani, S.; Jafari, G. R.

    2017-10-01

    The dynamics of networks forming on Heider balance theory moves towards lower tension states. The condition derived from this theory enforces agents to reevaluate and modify their interactions to achieve equilibrium. These possible changes in network's topology can be considered as various paths that guide systems to minimum energy states. Based on this theory the final destination of a system could reside on a local minimum energy, ;jammed state;, or the global minimum energy, balanced states. The question we would like to address is whether jammed states just appear by chance? Or there exist some pseudo paths that bound a system towards a jammed state. We introduce an indicator to suspect the location of a jammed state based on the Inverse Participation Ratio method (IPR). We provide a margin before a local minimum where the number of possible paths dramatically drastically decreases. This is a condition that proves adequate for ending up on a jammed states.

  4. Pseudo noise code and data transmission method and apparatus

    Science.gov (United States)

    Deerkoski, L. F. (Inventor)

    1977-01-01

    Pseudo noise ranging codes, having a predetermined chipping rate, and a pair of binary data sources, each having a bit rate no greater than one tenth the chipping rate, quadriphase, digitally modulate a suppressed carrier wave having a first frequency are examined. Two additional binary data sources, each having a bit rate that is not restricted by the chipping rate of the first carrier, quadriphase, digitally modulate a suppressed carrier wave having a second frequency. The first and second frequencies are only slightly displaced so that there is overlap in the frequency bands which modulate the two carriers. The two suppressed carrier waves are linearly combined and transmitted from a first station to a second station so that the amplitude of the transmitted first wave is controlled so as not to degrade the detectability of the second wave at the second station.

  5. A Resource Guide for Debunking Astronomical Pseudo-Science

    Science.gov (United States)

    Fraknoi, A.

    2008-11-01

    Many of us who do public programs for the International Year of Astronomy are likely to meet people who have questions or want to challenge us about pseudo-scientific topics related to astronomy. Perhaps they have heard about the claim that the moon landings were a hoax, or have seen a light in the sky which puzzled them. Even those of us who have extensive training in astronomy often are not prepared for tackling such questions. To deal with such situations, here is a concise guide to printed and web resources that offer rational examination of some of these ``fiction science'' claims. This is not a complete list, but a ``first defense'' for beginners. A fuller version can be found at: http://www.astrosociety.org/education/resources/pseudobib.html

  6. Hyperkalemia induced pseudo-myocardial infarction in septic shock

    Directory of Open Access Journals (Sweden)

    S E Pothiawala

    2014-01-01

    Full Text Available Hyperkalemia is an acute life-threatening disorder presenting to the emergency department. Patients with hyperkalemia may manifest characteristic electrocardiographic changes including tented T waves, widening of the QRS complex and loss of P waves, sine wave pattern and eventually asystole. There have been only few reports of hyperkalemia causing ST segment elevation on electrocardiogram simulating an acute myocardial infarction. This case describes pseudo-myocardial infarction due to hyperkalemia and septic shock. Rapid determination of serum potassium levels by bedside blood gas analyzers serves to be a useful guide. ST segment elevation related to hyperkalemia will resolve with successful reduction of the serum potassium levels by appropriate therapy. It is important for physicians to be aware of this condition as this will aid in initiating correct therapy and prevent the patient from unnecessary interventions and the associated risk of complications.

  7. Radial artery pseudo aneurysm after percutaneous cannulation using Seldinger technique

    Directory of Open Access Journals (Sweden)

    Anil Ranganath

    2011-01-01

    Full Text Available Cannulation of a peripheral artery in a patient allows for continuous blood pressure (BP monitoring and facilitates frequent arterial blood gas (ABG analysis. Complications include thrombosis, embolism risk, haemorrhage, sepsis, and formation of pseudo aneurysms. A 75-year-old male admitted via casualty with a collapse secondary to seizures. Patient was intubated and mechanically ventilated for 7 days. A right radial artery catheter was inserted on admission to casualty. The arterial catheter remained in situ for 7 days. Five days following its removal, the skin site appeared inflamed and a wound swab grew methicillin resistant Staphylococcus aureus (MRSA. Eight days later a distinct bulging of the radial artery was noticed. An ultrasound was done and it showed radial artery pseudoaneurysm, the diagnosis was confirmed by angiogram. Delayed radial artery pseudoaneurysm formation has only been reported in association with infection, and less than twenty of these cases have been reported in the literature.

  8. Primordial GWs from universality classes of pseudo-scalar inflation

    Science.gov (United States)

    Pieroni, M.

    2017-05-01

    In this contribution we discuss the possibility of generating an observable gravitational wave (GW) background by coupling a pseudo-scalar inflaton to some Abelian gauge fields. This analysis is performed by dividing inflationary models into universality classes. We find that of the most promising scenario is a Starobinsky-like model, which may lead to the generation of observational signatures both in upcoming CMB detectors as well as for direct GW detectors. The signal which can be produced in these models would both be observable in ground-based detectors, such as advanced LIGO, and in space-based detectors, such as LISA. The complementarity between the CMB and direct GW detection may be used to extract informations on the microphysics of inflation. Interestingly the mechanism discussed in this contribution may also be relevant for the generation of Primordial Black Holes (PBHs).

  9. Eyeball pseudo-muscular actuators for an android face

    Science.gov (United States)

    Carpi, Federico; De Rossi, Danilo

    2005-05-01

    The human attention system is based on the capability of the eye of focusing and tracking. These actions are performed by the eyeball muscle system, as a consequence of visual stimuli. The F.A.C.E. (Facial Automaton for Conveying Emotions) project at our lab concerns the development of an android face endowed with dynamic expressiveness and artificial vision. Aimed at realising an artificial attention system for such an automaton, we present here a study for the development of pseudo-muscular polymer actuators for its eyeballs. The system is based on the mimicry of the muscular architecture of the human eye. In particular, linear actuators made of dielectric elastomers have been designed to replicate actions exerted by the main ocular muscles.

  10. Pseudo-template synthesis of gold nanoparticles based on polyhydrosilanes

    Energy Technology Data Exchange (ETDEWEB)

    Sacarescu, Liviu, E-mail: livius@icmpp.ro [Petru Poni Institute of Macromolecular Chemistry, Aleea Grigore Ghica Voda 41A, Iasi 700487 (Romania); Simionescu, Mihaela; Sacarescu, Gabriela [Petru Poni Institute of Macromolecular Chemistry, Aleea Grigore Ghica Voda 41A, Iasi 700487 (Romania)

    2011-02-01

    Highly stable colloidal gold nanoparticles are obtained in a pseudo-template system using a specific polyhydrosilane copolymeric structure. This process takes place in situ by microwaves activation of the polymer solution in a non-polar solvent followed by stirring with solid HAuCl{sub 4} in natural light. The experimental procedure is very simple and the resulted colloidal gold solution is indefinitely stable. The specific surface plasmon resonance absorption band of the gold nanoparticles is strongly red shifted and is strictly related to their size. AFM correlated with DLS analysis showed flattened round shaped colloidal polymer-gold nanoparticles with large diameters. SEM-EDX combined analysis reveals that the polysilane-gold nanoparticles show a natural tendency to auto-assemble in close packed structures which form large areas over the polymer film surface.

  11. Neutrino Masses from a Pseudo-Dirac Bino.

    Science.gov (United States)

    Coloma, Pilar; Ipek, Seyda

    2016-09-09

    We show that, in U(1)_{R}-symmetric supersymmetric models, the bino and its Dirac partner (the singlino) can play the role of right-handed neutrinos and generate the neutrino masses and mixing, without the need for traditional bilinear or trilinear R-parity violating operators. The two particles form a pseudo-Dirac pair, the "biνo." An inverse seesaw texture is generated for the neutrino-biνo sector, and the lightest neutrino is predicted to be massless. Unlike in most models with heavy right-handed neutrinos, the biνo can be sizably produced at the LHC through its interactions with colored particles, while respecting low energy constraints from neutrinoless double-beta decay and charged lepton flavor violation.

  12. Raise and collapse of pseudo Landau levels in graphene

    Science.gov (United States)

    Castro, Eduardo V.; Cazalilla, Miguel A.; Vozmediano, María A. H.

    2017-12-01

    Lattice deformations couple to the low-energy electronic excitations of graphene as vector fields similar to the electromagnetic potential. The observation of strain-induced pseudo Landau levels with scanning tunnel microscopy experiments has been one of the most exciting events in the history of graphene. Nevertheless, the experimental observation presents some ambiguities. Similar strain patterns show different images that are sometimes difficult to interpret. In this Rapid Communication, we show that, for some strain configurations, the deformation potential acts as a parallel electric field able to destabilize the Landau level structure via a mechanism identical to that occurring for real electromagnetic fields. This effect also alters the estimations of the value of the pseudomagnetic field, which can be significantly bigger. The mechanism applies equally if the electric field has an external origin, which opens the door to an electric control of giant pseudomagnetic fields in graphene.

  13. COMPUTED TOMOGRAPHIC FEATURES OF INCISOR PSEUDO-ODONTOMAS IN PRAIRIE DOGS (CYNOMYS LUDOVICIANUS).

    Science.gov (United States)

    Pelizzone, Igor; Di Ianni, Francesco; Volta, Antonella; Gnudi, Giacomo; Manfredi, Sabrina; Bertocchi, Mara; Parmigiani, Enrico

    2017-05-01

    Maxillary incisor pseudo-odontomas are common in pet prairie dogs and can cause progressive respiratory obstruction, while mandibular pseudo-odontomas are rarely clinically significant. The aim of this retrospective cross-sectional study was to describe CT features of maxillary and mandibular incisor pseudo-odontomas vs. normal incisors in a group of pet prairie dogs. All pet prairie dogs with head CT scans acquired during the period of 2013-2015 were included. A veterinary radiologist who was aware of final diagnosis reviewed CT scans and recorded qualitative features of affected and normal incisors. Mean density values for the pulp cavity and palatal and buccal dentin were also recorded. A total of 16 prairie dogs were sampled (12 normal maxillary incisors, 20 confirmed maxillary incisor pseudo-odontomas, 20 normal mandibular incisors, 12 presumed mandibular incisor pseudo-odontomas). Maxillary incisors with confirmed pseudo-odontomas had a significantly hyperattenuating pulp and dentin in the reserve crown and apical zone, when compared to normal maxillary incisors. Pseudo-odontomas appeared as enlargements of the apical zone with a globular/multilobular hyperattenuating mass formation haphazardly arranged, encroaching on midline and growing caudally and ventrally. Presumed mandibular incisor pseudo-odontomas had similar CT characteristics. In 60% of prairie dogs with maxillary incisor pseudo-odontomas, the hard palate was deformed and the mass bulged into the oral cavity causing loss of the palatine bone. The common nasal meatus was partially or totally obliterated in 81.8% of prairie dogs with maxillary pseudo-odontomas. Findings supported the use of CT for characterizing extent of involvement and surgical planning in prairie dogs with pseudo-odontomas. © 2017 American College of Veterinary Radiology.

  14. Physical Embodiment can Produce Robot Operator’s Pseudo Presence

    Directory of Open Access Journals (Sweden)

    Kazuaki eTanaka

    2015-05-01

    Full Text Available Recent studies have focused on humanoid robots for improving distant communication. When a user talks with a remote conversation partner through a humanoid robot, the user can see the remote partner’s body motions with physical embodiment but not the partner’s current appearance. The physical embodiment existing in the same room with the user is the main feature of humanoid robots, but the effects on social telepresence, i.e. the sense of resembling face-to-face interaction, had not yet been well demonstrated. To find the effects, we conducted an experiment in which subjects talked with a partner through robots and various existing communication media (e.g. voice, avatar and video chats. As a result, we found that the physical embodiment enhances social telepresence. However, in terms of the degree of social telepresence, the humanoid robot remained at the same level as the partner’s live-video, since presenting partner’s appearance also enhances social telepresence. To utilize the anonymity of a humanoid robot, we proposed the way that produces pseudo presence that is the sense of interacting with a remote partner when they are actually interacting with an autonomous robot. Through the second experiment, we discovered that the subjects tended to evaluate the degree of pseudo presence of a remote partner based on their prior experience of watching the partner’s body motions reproduced by a robot. When a subject interacted with an autonomous robot after interacting with a teleoperated robot (i.e., a remote operator that is identical with the autonomous robot, the subjects tended to feel as if they were talking with a remote operator.

  15. Pseudo-Random Modulation of a Laser Diode for Generating Ultrasonic Longitudinal Waves

    Science.gov (United States)

    Madaras, Eric I.; Anatasi, Robert F.

    2004-01-01

    Laser generated ultrasound systems have historically been more complicated and expensive than conventional piezoelectric based systems, and this fact has relegated the acceptance of laser based systems to niche applications for which piezoelectric based systems are less suitable. Lowering system costs, while improving throughput, increasing ultrasound signal levels, and improving signal-to-noise are goals which will help increase the general acceptance of laser based ultrasound. One current limitation with conventional laser generated ultrasound is a material s damage threshold limit. Increasing the optical power to generate more signal eventually damages the material being tested due to rapid, high heating. Generation limitations for laser based ultrasound suggests the use of pulse modulation techniques as an alternate generation method. Pulse modulation techniques can spread the laser energy over time or space, thus reducing laser power densities and minimizing damage. Previous experiments by various organizations using spatial or temporal pulse modulation have been shown to generate detectable surface, plate, and bulk ultrasonic waves with narrow frequency bandwidths . Using narrow frequency bandwidths improved signal detectability, but required the use of expensive and powerful lasers and opto-electronic systems. The use of a laser diode to generate ultrasound is attractive because of its low cost, small size, light weight, simple optics and modulation capability. The use of pulse compression techniques should allow certain types of laser diodes to produce usable ultrasonic signals. The method also does not need to be limited to narrow frequency bandwidths. The method demonstrated here uses a low power laser diode (approximately 150 mW) that is modulated by controlling the diode s drive current and the resulting signal is recovered by cross correlation. A potential application for this system which is briefly demonstrated is in detecting signals in thick composite materials where attenuation is high and signal amplitude and bandwidth are at a premium.

  16. Cooperative multi-user detection and ranging based on pseudo-random codes

    Directory of Open Access Journals (Sweden)

    C. Morhart

    2009-05-01

    Full Text Available We present an improved approach for a Round Trip Time of Flight distance measurement system. The system is intended for the usage in a cooperative localisation system for automotive applications. Therefore, it is designed to address a large number of communication partners per measurement cycle. By using coded signals in a time divison multiple access order, we can detect a large number of pedestrian sensors with just one car sensor. We achieve this by using very short transmit bursts in combination with a real time correlation algorithm. Futhermore, the correlation approach offers real time data, concerning the time of arrival, that can serve as a trigger impulse for other comunication systems. The distance accuracy of the correlation result was further increased by adding a fourier interpolation filter. The system performance was checked with a prototype at 2.4 GHz. We reached a distance measurement accuracy of 12 cm at a range up to 450 m.

  17. Cooperative multi-user detection and ranging based on pseudo-random codes

    Science.gov (United States)

    Morhart, C.; Biebl, E. M.

    2009-05-01

    We present an improved approach for a Round Trip Time of Flight distance measurement system. The system is intended for the usage in a cooperative localisation system for automotive applications. Therefore, it is designed to address a large number of communication partners per measurement cycle. By using coded signals in a time divison multiple access order, we can detect a large number of pedestrian sensors with just one car sensor. We achieve this by using very short transmit bursts in combination with a real time correlation algorithm. Futhermore, the correlation approach offers real time data, concerning the time of arrival, that can serve as a trigger impulse for other comunication systems. The distance accuracy of the correlation result was further increased by adding a fourier interpolation filter. The system performance was checked with a prototype at 2.4 GHz. We reached a distance measurement accuracy of 12 cm at a range up to 450 m.

  18. Mersenne Twister: A 623-Dimensionally Equidistributed Uniform Pseudo-Random Number Generator

    OpenAIRE

    Matsumoto, Makoto; Nishimura, Takuji

    1998-01-01

    A new algorithm called Mersenne Twister (MT) is proposed for generating uniform pseudorandom numbers. For a particular choice of parameters, the algorithm provides a super astronomical period of 219937 - 1 and 623-dimensional equidistribution up to 32-bit accuracy, while using a working area of only 624 words. This is a new variant of the previously proposed generators, TGFSR, modified so as to admit a Mersenne-prime period. The characteristic polynomial has many terms. The distribution up to...

  19. Increased coincidence detection for quantum versus pseudo-generated random numbers

    NARCIS (Netherlands)

    Boshoff, Lieze; Jolij, Jacob

    2015-01-01

    People often see meaning in stimuli that are typically considered meaningless. According to Von Lucadou’s idea of Generalized Quantum Teory (GQT), such perceived coincidences, or examples of synchronicity, may be the result of entanglement between a conscious observer and the physical world. Here we

  20. Chronic primary intestinal pseudo-obstruction from visceral myopathy Pseudo-osbtrucción intestinal crónica primaria debida a miopatía visceral

    OpenAIRE

    M. T. Muñoz-Yagüe; J. C. Marín; F. Colina; C. Ibarrola; López-Alonso, G.; Martín, M.A.; J. A. Solís Herruzo

    2006-01-01

    Chronic intestinal pseudo-obstruction is an uncommon syndrome characterized by relapsing episodes suggesting intestinal obstruction during which no mechanical causes are identified to account for symptoms. Etiologic factors may be manifold. Among them a number of neurologic conditions, gastrointestinal smooth muscle myopathies, endocrino-metabolic and autoimmune diseases, and the use of selected drugs stand out. We report a case of chronic intestinal pseudo-obstruction originating in a sporad...

  1. Sequencing and comparative analysis of the gorilla MHC genomic sequence

    Science.gov (United States)

    Wilming, Laurens G.; Hart, Elizabeth A.; Coggill, Penny C.; Horton, Roger; Gilbert, James G. R.; Clee, Chris; Jones, Matt; Lloyd, Christine; Palmer, Sophie; Sims, Sarah; Whitehead, Siobhan; Wiley, David; Beck, Stephan; Harrow, Jennifer L.

    2013-01-01

    Major histocompatibility complex (MHC) genes play a critical role in vertebrate immune response and because the MHC is linked to a significant number of auto-immune and other diseases it is of great medical interest. Here we describe the clone-based sequencing and subsequent annotation of the MHC region of the gorilla genome. Because the MHC is subject to extensive variation, both structural and sequence-wise, it is not readily amenable to study in whole genome shotgun sequence such as the recently published gorilla genome. The variation of the MHC also makes it of evolutionary interest and therefore we analyse the sequence in the context of human and chimpanzee. In our comparisons with human and re-annotated chimpanzee MHC sequence we find that gorilla has a trimodular RCCX cluster, versus the reference human bimodular cluster, and additional copies of Class I (pseudo)genes between Gogo-K and Gogo-A (the orthologues of HLA-K and -A). We also find that Gogo-H (and Patr-H) is coding versus the HLA-H pseudogene and, conversely, there is a Gogo-DQB2 pseudogene versus the HLA-DQB2 coding gene. Our analysis, which is freely available through the VEGA genome browser, provides the research community with a comprehensive dataset for comparative and evolutionary research of the MHC. PMID:23589541

  2. Coexistence of several sillenite-like phases in pseudo-binary and pseudo-ternary systems based on Bi2O3

    Science.gov (United States)

    Dapčević, Aleksandra; Poleti, Dejan; Karanović, Ljiljana; Rogan, Jelena; Dražič, Goran

    2013-11-01

    A series of polycrystalline samples containing sillenite-like (doped γ-Bi2O3) phases were prepared by high-temperature reactions from α-Bi2O3 powder and different oxides in six pseudo-binary Bi2O3-MxOy (M = Mn, Ti, V) and six pseudo-ternary Bi2O3-M1xOy-M2xOy (M1 = Pb, Zn, Ti and M2 = Zn, Ti, Si) systems. The products were characterized by XRD, SEM/EDX, HRTEM, SAED and DTA techniques. It is shown that for pseudo-binary systems, the phase composition of specimens depends on dopant content, while, for pseudo-ternary systems, depends on dopants radii, as well. In pseudo-binary systems, single-phase sillenites are obtained if the dopant content is in accordance with formula Bi12M4+O20, for M = Mn and Ti, and Bi(M0.85+)O, for M = V. However, two coexisting sillenite-like phases, doped compound and nominally undoped solid solution, are found if a half of that dopant quantity is applied. In pseudo-ternary systems, the phase-pure double-doped sillenite specimens are identified if ionic radii of dopants differ less than 40%. Otherwise, two coexisting sillenites were obtained. The possibility to prepare the undoped γ-Bi2O3 phase was also discussed.

  3. a randomized controlled trial.

    African Journals Online (AJOL)

    milk, only an estimated one -fourth of neonates in India were breastfed within ... standard of care in India and mothers are informed about. 6 months of ... weeks postpartum. A random number sequence was generated using a com- puter program. Block randomization was used with a fixed block size of four. Concealment of ...

  4. Pseudo-arthrosis repair of a posterior cruciate ligament avulsion fracture.

    NARCIS (Netherlands)

    Hoogervorst, P.; Gardeniers, J.W.M.; Moret-Wever, S.; Kampen, A. van

    2010-01-01

    A pseudo-arthrosis repair of a 4-year-old bony avulsion fracture of the PCL using a minimally invasive technique, screw fixation, and bone grafting is reported. The case presented seems to be rather unique due to the fragment size and the approach for pseudo-arthrosis repair. There was a good

  5. On pseudo-values for regression analysis in competing risks models

    DEFF Research Database (Denmark)

    Graw, F; Gerds, Thomas Alexander; Schumacher, M

    2009-01-01

    For regression on state and transition probabilities in multi-state models Andersen et al. (Biometrika 90:15-27, 2003) propose a technique based on jackknife pseudo-values. In this article we analyze the pseudo-values suggested for competing risks models and prove some conjectures regarding...

  6. Returns to Education in Sri Lanka: A Pseudo-Panel Approach

    Science.gov (United States)

    Himaz, Rozana; Aturupane, Harsha

    2016-01-01

    This study employs a pseudo-panel approach to estimate the returns to education among income earners in Sri Lanka. Pseudo-panel data are constructed from nine repeated cross sections of Sri Lanka's Labor Force Survey data from 1997 to 2008, for workers born during 1953-1974. The results show that for males, one extra year of education increases…

  7. Investigation of Pseudo-Active State in Z-Source Inverter

    DEFF Research Database (Denmark)

    Schaltz, Erik; Oprea, Octavian; Larsen, Lasse

    2005-01-01

    This paper introduces a new operating state of the Z-source inverter denoted the pseudo-active state. The pseudoactive state is a state that may boost the output voltage of the Zsource inverter to a level higher than expected. The influence of the pseudo-active state is investigated and an equation...

  8. Utilization of deletion bins to anchor and order sequences along the wheat 7B chromosome

    Science.gov (United States)

    Bread wheat (Triticum aestivum L.) has a large, complex and highly repetitive genome which is challenging to assemble into high quality pseudo-chromosomes. As part of the international effort to sequence the hexaploid bread wheat genome by the international wheat genome sequencing consortium (IWGSC)...

  9. Toxin inhibition in C. crescentus VapBC1 is mediated by a flexible pseudo-palindromic protein motif and modulated by DNA binding

    DEFF Research Database (Denmark)

    Bendtsen, Kirstine Louise; Xu, Kehan; Luckmann, Majbritt

    2017-01-01

    Expression of bacterial type II toxin-antitoxin (TA) systems is regulated at the transcriptional level through direct binding of the antitoxin to pseudo-palindromic sequences on operator DNA. In this context, the toxin functions as a co-repressor by stimulating DNA binding through direct...... for binding and inactivation of the VapC1 toxin dimer. Sequence analysis of 4127 orthologous VapB sequences reveals that such palindromic protein sequences are widespread and unique to bacterial and archaeal VapB antitoxins suggesting a general principle governing regulation of VapBC TA systems. Finally......, a structure of C-terminally truncated VapB1 bound to VapC1 reveals discrete states of the TA interaction that suggest a structural basis for toxin activation in vivo....

  10. Evolution of crop production under a pseudo-space environment using model plants, Lotus japonicus

    Science.gov (United States)

    Tomita-Yokotani, Kaori; Motohashi, Kyohei; Omi, Naomi; Sato, Seigo; Aoki, Toshio; Hashimoto, Hirofumi; Yamashita, Masamichi

    Habitation in outer space is one of our challenges. We have been studying space agriculture and/or spacecraft agriculture to provide food and oxygen for the habitation area in the space environment. However, careful investigation should be made concerning the results of exotic environmental effects on the endogenous production of biologically active substances in indi-vidual cultivated plants in a space environment. We have already reported that the production of functional substances in cultivated plants as crops are affected by gravity. The amounts of the main physiological substances in these plants grown under terrestrial control were different from that grown in a pseudo-microgravity. These results suggested that the nutrition would be changed in the plants/crops grown in the space environment when human beings eat in space. This estimation required us to investigate each of the useful components produced by each plant grown in the space environment. These estimations involved several study fields, includ-ing nutrition, plant physiology, etc. On the other hand, the analysis of model plant genomes has recently been remarkably advanced. Lotus japonicus, a leguminous plant, is also one of the model plant. The leguminosae is a large family in the plant vegetable kingdom and almost the entire genome sequence of Lotus japonicus has been determined. Nitrogen fixation would be possible even in a space environment. We are trying to determine the best conditions and evolution for crop production using the model plants.

  11. FRP-RC Beam in Shear: Mechanical Model and Assessment Procedure for Pseudo-Ductile Behavior

    Directory of Open Access Journals (Sweden)

    Floriana Petrone

    2014-07-01

    Full Text Available This work deals with the development of a mechanics-based shear model for reinforced concrete (RC elements strengthened in shear with fiber-reinforced polymer (FRP and a design/assessment procedure capable of predicting the failure sequence of resisting elements: the yielding of existing transverse steel ties and the debonding of FRP sheets/strips, while checking the corresponding compressive stress in concrete. The research aims at the definition of an accurate capacity equation, consistent with the requirement of the pseudo-ductile shear behavior of structural elements, that is, transverse steel ties yield before FRP debonding and concrete crushing. For the purpose of validating the proposed model, an extended parametric study and a comparison against experimental results have been conducted: it is proven that the common accepted rule of assuming the shear capacity of RC members strengthened in shear with FRP as the sum of the maximum contribution of both FRP and stirrups can lead to an unsafe overestimation of the shear capacity. This issue has been pointed out by some authors, when comparing experimental shear capacity values with the theoretical ones, but without giving a convincing explanation of that. In this sense, the proposed model represents also a valid instrument to better understand the mechanical behavior of FRP-RC beams in shear and to calculate their actual shear capacity.

  12. Video Completion in Digital Stabilization Task Using Pseudo-Panoramic Technique

    Science.gov (United States)

    Favorskaya, M. N.; Buryachenko, V. V.; Zotin, A. G.; Pakhirka, A. I.

    2017-05-01

    Video completion is a necessary stage after stabilization of a non-stationary video sequence, if it is desirable to make the resolution of the stabilized frames equalled the resolution of the original frames. Usually the cropped stabilized frames lose 10-20% of area that means the worse visibility of the reconstructed scenes. The extension of a view of field may appear due to the pan-tilt-zoom unwanted camera movement. Our approach deals with a preparing of pseudo-panoramic key frame during a stabilization stage as a pre-processing step for the following inpainting. It is based on a multi-layered representation of each frame including the background and objects, moving differently. The proposed algorithm involves four steps, such as the background completion, local motion inpainting, local warping, and seamless blending. Our experiments show that a necessity of a seamless stitching occurs often than a local warping step. Therefore, a seamless blending was investigated in details including four main categories, such as feathering-based, pyramid-based, gradient-based, and optimal seam-based blending.

  13. Diversity and toxicity of the diatom Pseudo-nitzschia Peragallo in the Gulf of Maine, Northwestern Atlantic Ocean.

    Science.gov (United States)

    Fernandes, Luciano F; Hubbard, Katherine A; Richlen, Mindy L; Smith, Juliette; Bates, Stephen S; Ehrman, James; Léger, Claude; Mafra, Luiz L; Kulis, David; Quilliam, Michael; Libera, Katie; McCauley, Linda; Anderson, Donald M

    2014-05-01

    Multiple species in the toxic marine diatom genus Pseudo-nitzschia have been identified in the Northwestern Atlantic region encompassing the Gulf of Maine (GOM), including the Bay of Fundy (BOF). To gain further knowledge of the taxonomic composition and toxicity of species in this region, Pseudo-nitzschia isolates (n=146) were isolated from samples collected during research cruises that provided broad spatial coverage across the GOM and the southern New England shelf, herein referred to as the GOM region, during 2007-2008. Isolates, and cells in field material collected at 38 stations, were identified using electron microscopy (EM). Eight species (P. americana, P. fraudulenta, P. subpacifica, P. heimii, P. pungens, P. seriata, P. delicatissima and P. turgidula), and a novel form, Pseudo-nitzschia sp. GOM, were identified. Species identity was confirmed by sequencing the large subunit of the ribosomal rDNA (28S) and the internal transcribed spacer 2 (ITS2) for six species (36 isolates). Phylogenetic analyses (including neighbor joining, maximum parsimony, and maximum likelihood estimates and ITS2 secondary structure analysis) and morphometric data supported the placement of P. sp. GOM in a novel clade that includes morphologically and genetically similar isolates from Australia and Spain and is genetically most similar to P. pseudodelicatissima and P. cuspidata. Seven species (46 isolates) were grown in nutrient-replete batch culture and aliquots consisting of cells and growth medium were screened by Biosense ASP ELISA to measure total domoic acid (DA) produced (intracellular + extracellular); P. americana and P. heimii were excluded from all toxin analyses as they did not persist in culture long enough for testing. All 46 isolates screened produced DA in culture and total DA varied among species (e.g., 0.04 to 320 ng ml(-1) for P. pungens and P. sp. GOM isolates, respectively) and among isolates of the same species (e.g., 0.24 - 320 ng ml(-1) for P. sp. GOM). The

  14. Sequence assembly

    DEFF Research Database (Denmark)

    Scheibye-Alsing, Karsten; Hoffmann, S.; Frankel, Annett Maria

    2009-01-01

    Despite the rapidly increasing number of sequenced and re-sequenced genomes, many issues regarding the computational assembly of large-scale sequencing data have remain unresolved. Computational assembly is crucial in large genome projects as well for the evolving high-throughput technologies...... and plays an important role in processing the information generated by these methods. Here, we provide a comprehensive overview of the current publicly available sequence assembly programs. We describe the basic principles of computational assembly along with the main concerns, such as repetitive sequences...... in genomic DNA, highly expressed genes and alternative transcripts in EST sequences. We summarize existing comparisons of different assemblers and provide a detailed descriptions and directions for download of assembly programs at: http://genome.ku.dk/resources/assembly/methods.html....

  15. Mapping sequences by parts

    Directory of Open Access Journals (Sweden)

    Guziolowski Carito

    2007-09-01

    Full Text Available Abstract Background: We present the N-map method, a pairwise and asymmetrical approach which allows us to compare sequences by taking into account evolutionary events that produce shuffled, reversed or repeated elements. Basically, the optimal N-map of a sequence s over a sequence t is the best way of partitioning the first sequence into N parts and placing them, possibly complementary reversed, over the second sequence in order to maximize the sum of their gapless alignment scores. Results: We introduce an algorithm computing an optimal N-map with time complexity O (|s| × |t| × N using O (|s| × |t| × N memory space. Among all the numbers of parts taken in a reasonable range, we select the value N for which the optimal N-map has the most significant score. To evaluate this significance, we study the empirical distributions of the scores of optimal N-maps and show that they can be approximated by normal distributions with a reasonable accuracy. We test the functionality of the approach over random sequences on which we apply artificial evolutionary events. Practical Application: The method is illustrated with four case studies of pairs of sequences involving non-standard evolutionary events.

  16. Regular-, irregular-, and pseudo-character processing in Chinese: The regularity effect in normal adult readers

    Directory of Open Access Journals (Sweden)

    Dustin Kai Yan Lau

    2014-03-01

    Full Text Available Background Unlike alphabetic languages, Chinese uses a logographic script. However, the pronunciation of many character’s phonetic radical has the same pronunciation as the character as a whole. These are considered regular characters and can be read through a lexical non-semantic route (Weekes & Chen, 1999. Pseudocharacters are another way to study this non-semantic route. A pseudocharacter is the combination of existing semantic and phonetic radicals in their legal positions resulting in a non-existing character (Ho, Chan, Chung, Lee, & Tsang, 2007. Pseudocharacters can be pronounced by direct derivation from the sound of its phonetic radical. Conversely, if the pronunciation of a character does not follow that of the phonetic radical, it is considered as irregular and can only be correctly read through the lexical-semantic route. The aim of the current investigation was to examine reading aloud in normal adults. We hypothesized that the regularity effect, previously described for alphabetical scripts and acquired dyslexic patients of Chinese (Weekes & Chen, 1999; Wu, Liu, Sun, Chromik, & Zhang, 2014, would also be present in normal adult Chinese readers. Method Participants. Thirty (50% female native Hong Kong Cantonese speakers with a mean age of 19.6 years and a mean education of 12.9 years. Stimuli. Sixty regular-, 60 irregular-, and 60 pseudo-characters (with at least 75% of name agreement in Chinese were matched by initial phoneme, number of strokes and family size. Additionally, regular- and irregular-characters were matched by frequency (low and consistency. Procedure. Each participant was asked to read aloud the stimuli presented on a laptop using the DMDX software. The order of stimuli presentation was randomized. Data analysis. ANOVAs were carried out by participants and items with RTs and errors as dependent variables and type of stimuli (regular-, irregular- and pseudo-character as repeated measures (F1 or between subject

  17. Pharmacokinetic and bioequivalence comparison of a single 100-mg dose of cefteram pivoxil powder suspension and tablet formulations: a randomized-sequence, open-label, two-period crossover study in healthy Chinese adult male volunteers.

    Science.gov (United States)

    Zou, Jianjun; Di, Bin; Wu, Chun Yong; Hu, Qin; Li, Jian Hua; Zhu, Yubing; Fan, Hongwei; Xiao, DaWei; Wang, Guang Ji

    2008-04-01

    Cefteram pivoxil (CFTM-PI) is an oral antibiotic available in powder suspension and tablet formulations indicated in China for the treatment of bacterial infections. Although these 2 formulations are marketed in China, published information regarding their pharmacokinetics and bioequivalence in the Chinese population is not available. The aim of this study was to compare the pharmacokinetics and bioequivalence of the powder suspension (test) and tablet (reference) formulations of CFTM-PI 100 mg available in China. This single-dose, randomized-sequence, open-label, 2-period crossover study was performed at the Nanjing First Hospital of Nanjing Medical University. Eligible subjects were healthy male volunteers who were randomly assigned at a 1:1 ratio to receive a single 100-mg dose of the test or reference formulation, followed by a 1-week washout period and administration of the alternate formulation. The study drugs were administered after a 12-hour overnight fast. Plasma was assayed using a high-performance liquid chromatography method. For analysis of pharmacokinetic properties, including C(max), AUC from time 0 (baseline) to 6 hours (AUC(0-6)), and AUC from baseline to infinity (AUC(0-infinity)), blood samples were obtained at intervals over the 6-hour period after study drug administration. The formulations were considered bioequivalent if the log-transformed ratios of C(max) and AUC were within the predetermined equivalence range (80%-125%) as established by the US Food and Drug Administration (FDA). Tolerability was assessed by monitoring vital signs and laboratory tests (hematology, blood biochemistry, hepatic function, and urinalysis), and by questioning subjects about adverse events (AEs). Twenty-four Chinese male subjects (mean [range] age,24.2 [23-32] years;weight,64.3 [58-67] kg; height, 172 [167-185] cm) enrolled; all completed the study. No period or sequence effect was observed. The 90% CIs for the log-transformed ratios of C(max), AUC(0-6;), and

  18. Bioequivalence of two formulations of glucosamine sulfate 500-mg capsules in healthy male Chinese volunteers: an open-label, randomized-sequence, single-dose, fasting, two-way crossover study.

    Science.gov (United States)

    Zhu, YuBing; Zou, JianJun; Xiao, DaWei; Fan, HongWei; Yu, CuiXia; Zhang, JingJing; Yang, Jing; Guo, DaQing

    2009-07-01

    Glucosamine sulfate is used for the treatment of arthrosis, especially osteoarthritis of the knee joint. The available evidence suggests differences in its pharmacokinetics in Chinese subjects compared with non-Chinese subjects. The aim of this study was to compare the pharmacokinetics and relative bioavailability of a test and reference formulation of glucosamine sulfate 500 mg after single oral administration in healthy Chinese volunteers. This open-label, randomized-sequence, single-dose, 2-way crossover study was performed at the First Hospital of Nanjing Medical University, Nanjing, China. Eligible subjects were healthy male volunteers who were randomly assigned at a 1:1 ratio to receive a single 500-mg dose of the test or reference capsule formulation, followed by a 1-week washout period and administration of the alternate formulation. The study drugs were administered after a 12-hour overnight fast. Glucosamine sulfate was assayed using a liquid-chromatography tandem mass spectrometry method. For analysis of pharmacokinetic properties, including C(max), AUC(0-t), and AUC(0-infinity)), blood samples were obtained at intervals over a 14-hour period after study drug administration. The formulations were considered bioequivalent if the log-transformed ratios of C(max) and AUC were within the predetermined equivalence range (70%-143% for C(max) and 80%-125% for AUC) as established by the State Food and Drug Administration (SFDA) of China. Tolerability was assessed by monitoring vital signs and laboratory tests (hematology, blood biochemistry, hepatic function, and urinalysis), and by questioning subjects about adverse events (AEs). Twenty-two healthy male Chinese subjects were enrolled (mean [range] age, 24 [22-26] years; weight, 63.9 [58.5-69.3] kg; height, 172 [167-177] cm); all completed the study. No period or sequence effect was observed. The 90% CIs for the log-transformed ratios of C(max), AUC(0-t), and AUC(0-infinity)) were 93.4 to 127.3, 92.4 to 114

  19. Genome Sequencing

    DEFF Research Database (Denmark)

    Sato, Shusei; Andersen, Stig Uggerhøj

    2014-01-01

    The current Lotus japonicus reference genome sequence is based on a hybrid assembly of Sanger TAC/BAC, Sanger shotgun and Illumina shotgun sequencing data generated from the Miyakojima-MG20 accession. It covers nearly all expressed L. japonicus genes and has been annotated mainly based...... on transcriptional evidence. Analysis of repetitive sequences suggests that they are underrepresented in the reference assembly, reflecting an enrichment of gene-rich regions in the current assembly. Characterization of Lotus natural variation by resequencing of L. japonicus accessions and diploid Lotus species...... is currently ongoing, facilitated by the MG20 reference sequence...

  20. Pseudo-turbulence intensity in mono-dispersed bubbly liquids

    Science.gov (United States)

    Zenit, R.; Martinez-Mercado, J.; Palacios-Morales, C. A.

    2006-11-01

    Experiments were performed to measure the mean and fluctuating velocities of both phases in a bubbly flow in a vertical column. Using water and water-glycerin mixtures, measurements were obtained for a range of Reynolds numbers from 10 to 500, corresponding to Weber numbers smaller than 2. A carefully designed bubble generator and the addition of a small amount of salt, produced a nearly mono-dispersed bubble size. Measurements of the bubble phase velocity were obtained using a dual impedance probe and through high speed digital video processing. A measurement of the fluctuating component of the liquid velocity was obtained using of a flying hotfilm technique. It was found that, for all cases, the mean bubble velocity decreases as mean gas volume fraction increases. The flow agitation, characterized by the velocity variance, both in the liquid and the bubble phases, increases with bubble concentration. Surprisingly, the pseudo-turbulent intensities are found to increase as the Reynolds number decreases. Direct comparisons with recent theoretical and computational studies for the same range of conditions will be presented.

  1. PSEUDO-LENNOX SYNDROME: CLINICAL AND ELECTROENCEPHALOGRAPHIC CHARACTERISTICS

    Directory of Open Access Journals (Sweden)

    K. Yu. Mukhin

    2016-01-01

    Full Text Available Pseudo-Lennox syndrome (PLS, or atypical benign partial epilepsy of childhood, is a disease from a group of age-related epileptic encephalopathies with a phenomenon of continuous spike-wave activity during slow sleep, which manifests itself as frequent polymorphic focal motor and pseudogeneralized seizures, cognitive impairments, as well as regional and diffuse epileptiform activity on electroencephalogram (EEG by the morphology identical to that of benign epileptiform patterns of childhood. The disease was first described by J. Aicardi and J. J. Chevrie in 1982, based on a study of 7 cases. Its diagnostic complexity is the polymorphism of both epileptic seizures and EEG data, as well as low awareness of the syndrome among physicians and its absence in the international classification of epilepsies. The typical triad of seizures, which occurs in nearly 100 % of patients, encompasses focal motor paroxysms (identical to those as observed in Rolandic epilepsy, atypical absences, and atonic seizures. Seizures in PLS in its active period (generally up to 7–8 years are highly resistant to antiepileptic drugs. Only a few agents have been proven to be effective in PLS; these include valproates, succinimides, benzodiazepines, topiramate, and sulthiame. The frequency of seizures are noted to increase in patients with PLS treated with drugs, such as vigabatrin, gabapentin, lamotrigine, phenobarbital, or phenytoin. The author considers in detail the history of studies of the disease, clinical manifestations, diagnostic criteria, therapeutic approaches, and prognosis.

  2. Symmetries of the pseudo-diffusion equation and related topics

    Science.gov (United States)

    Daboul, J.

    2017-03-01

    We show in details how to determine and identify the algebra g = {Ai} of the infinitesimal symmetry operators of the following pseudo-diffusion equation (PSDE) LQ ≡ [ {partial /{partial t} - 1/4( {{{partial ^2}}/{partial {x^2}} - 1/{{t^2}}{{partial ^2}}/{partial {p^2}}} )} ] Q( x, p, t) = 0. This equation describes the behavior of the Q functions in the ( x, p) phase space as a function of a squeeze parameter y, where t = e 2y. We illustrate how G i(λ) ≡ exp[λ A i] can be used to obtain interesting solutions. We show that one of the symmetry generators, A 4, acts in the ( x, p) plane like the Lorentz boost in ( x, t) plane. We construct the Anti-de-Sitter algebra so(3, 2) from quadratic products of 4 of the A i, which makes it the invariance algebra of the PSDE. We also discuss the unusual contraction of so(3, 1) to so(1, 1)∌ h2. We show that the spherical Bessel functions I 0( z) and K 0( z) yield solutions of the PSDE, where z is scaling and "twist" invariant.

  3. Acid-base equilibria of multilayered pseudo-polyelectrolytes

    Science.gov (United States)

    Mateo, Ayeisca E.; Priefer, Ronny

    2015-11-01

    The use of weak polyelectrolytes in multilayer polymer systems provides a means of altering the physicochemical properties of these thin films. Previously, we have examined the limits of the polyanions by incorporating the pseudo-polyelectrolytes (pPE's), poly(4-vinylphenol) (PVPh) and poly[5-(2-trifluoromethyl-1,1,1-trifluoro-2-hydroxypropyl)-2-norbornene] (PNBHFA). These pPE's, although being polyacids, should have pKa values in the basic versus acidic pH range. In order to determine the pKa(app) value of these polymers, once multilayered onto Snowtex silica particles with the weak polyelectrolyte, poly(allylamine hydrochloride) (PAH), we employed zeta potential. PVPh demonstrated pKa(app) values ranging from 10.55 to 11.08 which varied based upon assembly pH conditions as well as layer number. PAH yielded pKa(app) values ranging between 9.81 and 10.99 when multilayered with PVPh and 9.91-11.04 when partnered with PNBHFA. However, from our study it would appear that PNBHFA does not interact with PAH electrostatically, but rather via H-bonding, and therefore should actually not be classified as a pPE.

  4. Pseudo-accommodation with intraocular lenses implanted in the bag.

    Science.gov (United States)

    Altan-Yaycioglu, Rana; Gözüm, Nilüfer; Gücükoglu, Ahmet

    2002-01-01

    To evaluate the accommodation potential in eyes after intraocular lens in-the-bag implantation. Fifty-one consecutive patients were included in the study. Group 1 included 26 eyes that had phacoemulsification with continuous curvilinear capsulorhexis and in-the-bag implanted foldable IOL. Twenty-five eyes in Group 2 had capsulotomy with extracapsular cataract extraction and were implanted with polymethylmethacrylate IOL. Time elapsed from surgery was at least 6 months. There was no significant difference for age or gender between groups (P > .05). We measured accommodation amplitude and depth of the anterior chamber at distance and near fixation with an ultrasonic biometry device. The results were compared using the unpaired Student t-test. The anterior chamber depths while fixating at a distant object were not significantly different between groups (P>.05), however, at near the difference was statistically significant (P=.008). The change in depths between far and near fixation was significantly different (P=.002) and was more pronounced in the the capsulorhexis group (P < .001). The accommodation amplitudes in this group were significantly greater than in the capsulotomy group (P = .025). Patients who had uncomplicated small incision phacoemulsification surgery with continuous curvilinear capsulorhexis and in-the-bag implanted lens seemed to preserve some pseudo-accommodation after surgery.

  5. The Flavor of the Composite Pseudo-Goldstone Higgs

    CERN Document Server

    Csaki, Csaba; Weiler, Andreas

    2008-01-01

    We study the flavor structure of 5D warped models that provide a dual description of a composite pseudo-Goldstone Higgs. We first carefully re-examine the flavor constraints on the mass scale of new physics in the standard Randall-Sundrum-type scenarios, and find that the KK gluon mass should generically be heavier than about 21 TeV. We then compare the flavor structure of the composite Higgs models to those in the RS model. We find new contributions to flavor violation, which while still are suppressed by the RS-GIM mechanism, will enhance the amplitudes of flavor violations. In particular, there is a kinetic mixing term among the SM fields which (although parametrically not enhanced) will make the flavor bounds even more stringent than in RS, and imply the KK gluon mass to be at least about 33 TeV. For both the RS and the composite Higgs models the flavor bounds could be stronger or weaker depending on the assumption on the value of the gluon boundary kinetic term. These strong bounds seem to imply that the...

  6. Properties of а pseudo-harmonic function on closed domain

    Directory of Open Access Journals (Sweden)

    Ірина Аркадіївна Юрчук

    2015-04-01

    Full Text Available Let f be a pseudo-harmonic function defined on  $k-$connected oriented closed domain D whose boundary consists of closed Jordan curves. We remind that this class of functions coincides with continuous functions which have a finitely many critical points at the interior of D each of them is saddle point and finitely many local extrema on its boundary.In this work, it is proved that closure of any component of family which is a diference between D and such connected components of level curves of critical or semiregular values of f which contain critical and boundary critical points is a closed domain having one of three types (a ring, a strip or a sector. For the first, its boundary consists of two connected components that have no common points with D and level curve at any inner point is homeomorphic to circle. As well as the second and third,  their boundaries have one connected component and their level curves at any inner point are homeomorphic to a closed segment. There is difference between a number of arcs of boundary curves. If a domain is a strip, then its boundary contains two arcs that belong either one or two different boundary curves. If a domain is a sector, then  its boundary contains one arc of some boundary curves. By author some statements used for main theorem proof  are proved.

  7. Discrete RNA libraries from pseudo-torsional space

    Science.gov (United States)

    Humphris-Narayanan, Elisabeth

    2012-01-01

    The discovery that RNA molecules can fold into complex structures and carry out diverse cellular roles has led to interest in developing tools for modeling RNA tertiary structure. While significant progress has been made in establishing that the RNA backbone is rotameric, few libraries of discrete conformations specifically for use in RNA modeling have been validated. Here, we present six libraries of discrete RNA conformations based on a simplified pseudo-torsional notation of the RNA backbone, comparable to phi and psi in the protein backbone. We evaluate the ability of each library to represent single nucleotide backbone conformations and we show how individual library fragments can be assembled into dinucleotides that are consistent with established RNA backbone descriptors spanning from sugar to sugar. We then use each library to build all-atom models of 20 test folds and we show how the composition of a fragment library can limit model quality. Despite the limitations inherent in using discretized libraries, we find that several hundred discrete fragments can rebuild RNA folds up to 174 nucleotides in length with atomic-level accuracy (libraries presented here could easily be incorporated into RNA structural modeling, analysis, or refinement tools. PMID:22425640

  8. Functional symptoms in clinically definite MS--pseudo-relapse syndrome.

    LENUS (Irish Health Repository)

    Merwick, A

    2012-02-03

    Although the diagnostic criteria for multiple sclerosis (MS) have become more formalized and sensitive in the era of magnetic resonance imaging (MRI) scanning, the assessment of individual relapses may not always be straightforward or easily linked to a particular lesion seen on imaging. In addition, acute episodes often have to be assessed outside of normal working hours or when the individual patients usual medical team is not available. Often the emergency department physicians have little formal neurological training and are under time pressure to get patients through the system as quickly as possible. It is therefore possible to mislabel functional symptoms as being true relapses. To illustrate scenarios of possible pseudo-relapse, three clinical vignettes are described. Misclassification of functional symptoms as relapse carries a number of inherent risks. Functional symptoms can be multifactorial and may cause a burden of disease. A multidisciplinary approach may be useful in minimizing unnecessary harm and identify if there is more than meets the eye to an episode of clinical deterioration.

  9. Novel Bacteriocinogenic Lactobacillus plantarum Strains and Their Differentiation by Sequence Analysis of 16S rDNA, 16S-23S and 23S-5S Intergenic Spacer Regions and Randomly Amplified Polymorphic DNA Analysis

    Directory of Open Access Journals (Sweden)

    Morteza Shojaei Moghadam

    2010-01-01

    Full Text Available Six strains of bacteriocinogenic Lactobacillus plantarum (TL1, RG11, RS5, UL4, RG14 and RI11 isolated from Malaysian foods were investigated for their structural bacteriocin genes. A new combination of plantaricin EF and plantaricin W bacteriocin structural genes was successfully amplified from all studied strains, suggesting that they were novel bacteriocin-producing L. plantarum strains. A four-base pair variable region was detected in the short 16S-23S intergenic spacer regions of the studied strains by a comparative analysis with 17 L. plantarum strains deposited in the GenBank, implying they were new genotypes. The studied L. plantarum strains were subsequently differentiated into four groups on the basis of the detected four-base pair variable region of the short 16S-23S intergenic spacer region. Further analysis of the DNA sequence of 23S-5S intergenic spacer region revealed only one type of 23S-5S intergenic spacer region present in the studied strains, indicating it was highly conserved among the studied L. plantarum strains. Three randomly amplified polymorphic DNA experiments using three different combinations of arbitrary primers successfully differentiated the studied L. plantarum strains from each other, confirming they were different strains. In conclusion, the studied L. plantarum strains were shown to be novel bacteriocin producers and high level of strain discrimination could be achieved with a combination of randomly amplified polymorphic DNA analysis and the analysis of the variable region of short 16S-23S intergenic spacer region present in L. plantarum strains.

  10. Direct PseudoCT Generation for Pelvis PET/MRI Attenuation Correction using Deep Convolutional Neural Networks with Multi-parametric MRI: Zero Echo-time and Dixon Deep pseudoCT (ZeDD-CT).

    Science.gov (United States)

    Leynes, Andrew P; Yang, Jaewon; Wiesinger, Florian; Kaushik, Sandeep S; Shanbhag, Dattesh D; Seo, Youngho; Hope, Thomas A; Larson, Peder E Z

    2017-10-30

    Accurate quantification of positron emission tomography (PET) uptake depends on accurate attenuation correction in reconstruction. Current magnetic resonance-based attenuation correction methods (MRAC) for body PET imaging use a fat/water map derived from a two-echo Dixon magnetic resonance imaging (MRI) sequence, where bone is neglected. Ultrashort echo-time and zero echo-time (ZTE) pulse sequences can capture bone information. We propose the use of patient-specific multi-parametric MRI consisting of Dixon MRI and proton-density-weighted ZTE MRI to directly synthesize pseudoCT images with the use of a deep learning model: we name this method Zero echo-time and Dixon Deep pseudoCT (ZeDD-CT). Methods: Twenty-six patients were scanned using an integrated 3 Tesla time-of-flight PET/MRI system. Helical x-ray computed tomography (CT) images of the patients were acquired separately. A deep convolutional neural network was trained to transform ZTE and Dixon MRI into synthetic CT images (ZeDD-CT). Ten patients were used for model training and sixteen patients were used for evaluation. Bone and soft tissue lesions were identified and the SUVmax was measured. The root-mean-squared-error (RMSE) was used to compare the MRAC methods with the ground-truth CTAC. Results: A total of 30 bone lesions and 60 soft tissue lesions were evaluated. For bone lesions, there was a factor of 4 reduction of RMSE in PET quantification (RMSE were 10.24% for Dixon PET, and 2.68% for ZeDD PET); for soft tissue lesions, there was a factor of 1.5 reduction of RMSE (RMSE were 6.24% for Dixon PET, and 4.07% for ZeDD PET). Conclusion: The ZeDD-CT produces natural-looking and quantitatively accurate pseudoCT images and reduces error in pelvis PET/MRI attenuation correction compared to standard methods. Copyright © 2017 by the Society of Nuclear Medicine and Molecular Imaging, Inc.

  11. Syngeneic AAV Pseudo-particles Potentiate Gene Transduction of AAV Vectors.

    Science.gov (United States)

    Wang, Qizhao; Dong, Biao; Pokiniewski, Katie A; Firrman, Jenni; Wu, Zhongren; Chin, Mario P S; Chen, Xiongwen; Liu, LinShu; Xu, Ruian; Diao, Yong; Xiao, Weidong

    2017-03-17

    Adeno-associated virus (AAV) vectors have emerged as a safe and efficient gene therapy platform. One complication is that a significant amount of empty particles have always been generated as impurities during AAV vector production. However, the effects of such particles on AAV vector performance remain unclear. Here we systemically evaluated the biological properties of three types of "empty" AAV particles: syngeneic pseudo-vectors with partial AAV genomes derived from DNA of the corresponding full particles, allogeneic pseudo-vectors with partial genomes different from the corresponding full particles, and null pseudo-vectors with no DNA inside the capsids. The syngeneic particles in excess increased the corresponding full AAV vector transgene expression both in vivo and in vitro. However, such effects were not observed with null or allogeneic particles. The observed differences among these pseudo-AAV particles may be ascribed to the syngeneic pseudo-vector DNA facilitating the complementary DNA synthesis of the corresponding full AAV particles. Our study suggests that the DNA content in the pseudo-vectors plays a key role in dictating their effects on AAV transduction. The effects of residual "empty" particles should be adequately assessed when comparing AAV vector performance. The syngeneic AAV pseudo-vectors may be used to enhance the efficacy of gene therapy.

  12. Syngeneic AAV Pseudo-particles Potentiate Gene Transduction of AAV Vectors

    Directory of Open Access Journals (Sweden)

    Qizhao Wang

    2017-03-01

    Full Text Available Adeno-associated virus (AAV vectors have emerged as a safe and efficient gene therapy platform. One complication is that a significant amount of empty particles have always been generated as impurities during AAV vector production. However, the effects of such particles on AAV vector performance remain unclear. Here we systemically evaluated the biological properties of three types of “empty” AAV particles: syngeneic pseudo-vectors with partial AAV genomes derived from DNA of the corresponding full particles, allogeneic pseudo-vectors with partial genomes different from the corresponding full particles, and null pseudo-vectors with no DNA inside the capsids. The syngeneic particles in excess increased the corresponding full AAV vector transgene expression both in vivo and in vitro. However, such effects were not observed with null or allogeneic particles. The observed differences among these pseudo-AAV particles may be ascribed to the syngeneic pseudo-vector DNA facilitating the complementary DNA synthesis of the corresponding full AAV particles. Our study suggests that the DNA content in the pseudo-vectors plays a key role in dictating their effects on AAV transduction. The effects of residual “empty” particles should be adequately assessed when comparing AAV vector performance. The syngeneic AAV pseudo-vectors may be used to enhance the efficacy of gene therapy.

  13. Superluminal propagation of pulsed pseudo-thermal light in atomic vapor.

    Science.gov (United States)

    Bae, In-Ho; Cho, Young-Wook; Lee, Hee Jung; Kim, Yoon-Ho; Moon, Han Seb

    2010-09-13

    We report an experimental demonstration of slow and superluminal propagation of pseudo-thermal (chaotic) light in the Λ-type system of the 5S(1/2)-5P(1/2) transition of (87)Rb atom. The slowed propagation of pulsed pseudo-thermal light was demonstrated in an electromagnetically-induced transparency medium while the superluminal propagation was demonstrated with the enhanced absorption scheme where the coupling field takes the form of a standing wave.We have also demonstrated that the photon number statistics of the pseudo-thermal light is preserved for both the subluminal and superluminal cases.

  14. Winning strategies for pseudo-telepathy games using single non-local box

    OpenAIRE

    Kunkri, Samir; Kar, Guruprasad; Ghosh, Sibasish; Roy, Anirban

    2006-01-01

    Using a single NL-box, a winning strategy is given for the impossible colouring pseudo-telepathy game for the set of vectors having Kochen-Specker property in four dimension. A sufficient condition to have a winning strategy for the impossible colouring pseudo-telepathy game for general $d$-dimension, with single use of NL-box, is then described. It is also shown that the magic square pseudo-telepathy game of any size can be won by using just two ebits of entanglement -- for quantum strategy,...

  15. Management of pseudo Class III malocclusion--synergistic approach with fixed and functional appliance.

    Science.gov (United States)

    Kumar, Amit; Tandon, Pradeep; Singh, Gyan P

    2013-01-01

    Class III malocclusion has been divided into two subtypes: skeletal and pseudo-Class III. A pseudo Class III malocclusion should be treated as early as possible to reduce the functional shift of the mandible and increase maxillary arch length. A case of pseudo-Class III malocclusion was presented here. A 11-year-old boy came with an anterior cross bite, the treatment was done with Fixed appliance (Roth prescription) and Reverse Twin block therapy. This case demonstrated that an anterior cross bite was corrected after 10 months of treatment.

  16. Optimal Design of Passive Power Filters Based on Pseudo-parallel Genetic Algorithm

    Science.gov (United States)

    Li, Pei; Li, Hongbo; Gao, Nannan; Niu, Lin; Guo, Liangfeng; Pei, Ying; Zhang, Yanyan; Xu, Minmin; Chen, Kerui

    2017-05-01

    The economic costs together with filter efficiency are taken as targets to optimize the parameter of passive filter. Furthermore, the method of combining pseudo-parallel genetic algorithm with adaptive genetic algorithm is adopted in this paper. In the early stages pseudo-parallel genetic algorithm is introduced to increase the population diversity, and adaptive genetic algorithm is used in the late stages to reduce the workload. At the same time, the migration rate of pseudo-parallel genetic algorithm is improved to change with population diversity adaptively. Simulation results show that the filter designed by the proposed method has better filtering effect with lower economic cost, and can be used in engineering.

  17. On the method of pseudo compressibility for numerically solving incompressible flows

    Science.gov (United States)

    Chang, J. L. C.; Kwak, D.

    1984-01-01

    Pseudo compressibility is used for numerically solving incompressible flows to achieve computational efficiency. The use of pseudo compressibility results in a system of hyperbolic-type equations of motion that introduce waves of finite speed. The interactions of the wave propagation and the vorticity spreading are analyzed. A criterion governing the dependence of the pseudo compressiblity on the Reynolds number and the characteristic length of the flow geometry is obtained that allows for a proper convergence. It is demonstrated that the solution does tend to the incompressible limit. External and internal viscous flow test problems are presented to verify the theory.

  18. Pseudo attP sites in favor of transgene integration and expression in cultured porcine cells identified by Streptomyces phage phiC31 integrase.

    Science.gov (United States)

    Bi, Yanzhen; Liu, Ximei; Zhang, Long; Shao, Changwei; Ma, Zhuo; Hua, Zaidong; Zhang, Liping; Li, Li; Hua, Wenjun; Xiao, Hongwei; Wei, Qingxin; Zheng, Xinmin

    2013-09-08

    Phage PhiC31 integrase integrates attB-containing plasmid into pseudo attP site in eukaryotic genomes in a unidirectional site-specific manner and maintains robust transgene expression. Few studies, however, explore its potential in livestock. This study aims to discover the molecular basis of PhiC31 integrase-mediated site-specific recombination in pig cells. We show that PhiC31 integrase can mediate site-specific transgene integration into the genome of pig kidney PK15 cells. Intramolecular recombination in pig PK15 cell line occurred at maximum frequency of 82% with transiently transfected attB- and attP-containing plasmids. An optimal molar ratio of pCMV-Int to pEGFP-N1-attB at 5:1 was observed for maximum number of cell clones under drug selection. Four candidate pseudo attP sites were identified by TAIL-PCR from those cell clones with single-copy transgene integration. Two of them gave rise to higher integration frequency occurred at 33%. 5' and 3' junction PCR showed that transgene integration mediated by PhiC31 integrase was mono-allelic. Micro- deletion and insertion were observed by sequencing the integration border, indicating that double strand break was induced by the recombination. We then constructed rescue reporter plasmids by ABI-REC cloning of the four pseudo attP sites into pBCPB + plasmid. Transfection of these rescue plasmids and pCMV-Int resulted in expected intramolecular recombination between attB and pseudo attP sites. This proved that the endogenous pseudo attP sites were functional substrates for PhiC31 integrase-mediated site-specific recombination. Two pseudo attP sites maintained robust extracellular and intracellular EGFP expression. Alamar blue assay showed that transgene integration into these specific sites had little effect on cell proliferation. This is the first report to document the potential use of PhiC31 integrase to mediate site-specific recombination in pig cells. Our work established an ideal model to study the position

  19. Atlas-guided generation of pseudo-CT images for MRI-only and hybrid PET-MRI-guided radiotherapy treatment planning

    DEFF Research Database (Denmark)

    Arabi, H.; Koutsouvelis, N.; Rouzaud, M.

    2016-01-01

    task, a pseudo-computed tomography (CT) image must be predicted from MRI alone. In this work, we propose a two-step (segmentation and fusion) atlas-based algorithm focusing on bone tissue identification to create a pseudo-CT image from conventional MRI sequences and evaluate its performance against...... the conventional MRI segmentation technique and a recently proposed multi-atlas approach. The clinical studies consisted of pelvic CT, PET and MRI scans of 12 patients with loco-regionally advanced rectal disease. In the first step, bone segmentation of the target image is optimized through local weighted atlas...... volumes and organs at risk. Two-dimensional (2D) gamma analysis of the isocenter dose distributions at 1%/1 mm criterion revealed pass rates of 91.40 7.56%, 96.00 4.11% and 97.67 3.6% for MRI segmentation, atlas-guided and the proposed methods, respectively. The proposed method generates accurate pseudo...

  20. Transposon facilitated DNA sequencing

    Energy Technology Data Exchange (ETDEWEB)

    Berg, D.E.; Berg, C.M.; Huang, H.V.

    1990-01-01

    The purpose of this research is to investigate and develop methods that exploit the power of bacterial transposable elements for large scale DNA sequencing: Our premise is that the use of transposons to put primer binding sites randomly in target DNAs should provide access to all portions of large DNA fragments, without the inefficiencies of methods involving random subcloning and attendant repetitive sequencing, or of sequential synthesis of many oligonucleotide primers that are used to match systematically along a DNA molecule. Two unrelated bacterial transposons, Tn5 and {gamma}{delta}, are being used because they have both proven useful for molecular analyses, and because they differ sufficiently in mechanism and specificity of transposition to merit parallel development.

  1. What's Next? Judging Sequences of Binary Events

    Science.gov (United States)

    Oskarsson, An T.; Van Boven, Leaf; McClelland, Gary H.; Hastie, Reid

    2009-01-01

    The authors review research on judgments of random and nonrandom sequences involving binary events with a focus on studies documenting gambler's fallacy and hot hand beliefs. The domains of judgment include random devices, births, lotteries, sports performances, stock prices, and others. After discussing existing theories of sequence judgments,…

  2. Pseudo-Patella Baja after total knee arthroplasty

    Science.gov (United States)

    Kazemi, Seyyed Morteza; Besheli, Laleh Daftari; Eajazi, Alireza; Sajadi, Mohammad Reza Miniator; Okhovatpoor, Mohammad Ali; Zanganeh, Ramin Farhang; Minaei, Reza

    2011-01-01

    Summary Background One of the complications of total knee arthroplasty (TKA) which has not yet been directly addressed is pseudo-patella baja (PPB). True patella baja (PB) is present when the length of the patellar tendon becomes shorter. PPB is present when the patella tendon is not shortened, but the level of the joint line is elevated. This study was conducted to assess PPB in TKA. Material/Methods Sixty patients who had had a primary TKA at our center between 1995 and 2005 were included. The average follow-up was 27.5 months. The Knee Society Scoring (KSS), lateral knee x-rays and the Blackburne-Peel index were used for assessments. Results Out of the 60 patients, 43 (72%) demonstrated no joint line elevation or patellar tendon shortening (group A). Fifteen patients (25%) had joint line elevation (group B), and both PB and PPB were present in 2 (3%) patients (group C). KSS was lower in groups B and C compared with group A, but this difference was not statistically significant. The average range of motion (ROM) in group A was significantly higher compared with either group B or C, and patients in groups B and C showed significantly more severe pain compared with group A (P<0.001). Conclusions PPB is not an uncommon finding after TKA and is associated with a statistically significant decrease in ROM and an increase in pain. Furthermore, KSS in the PPB group was less than in patients without PPB, although the difference was not statistically meaningful. PMID:21525812

  3. Pseudo-Polar Fourier Transform-Based Compressed Sensing MRI.

    Science.gov (United States)

    Yang, Yang; Liu, Feng; Li, Mingyan; Jin, Jin; Weber, Ewald; Liu, Qinghuo; Crozier, Stuart

    2017-04-01

    The use of radial k-space trajectories has drawn strong interest from researchers for their potential in developing fast imaging methods in magnetic resonance imaging (MRI). Compared with conventional Cartesian trajectories, radial sampling collects more data from the central k-space region and the radially sampled data are more incoherent. These properties are very suitable for compressed sensing (CS)-based fast imaging. When reconstructing under-sampled radial data with CS, regridding and inverse-regridding are needed to transfer data between the image and frequency domains. In each CS iteration, two-dimensional interpolations are implemented twice in the regridding and inverse-regridding, introducing errors and undermining reconstruction quality. To overcome these problems, a radial-like pseudo-polar (PP) trajectory is proposed for the CS MRI applications. The PP trajectory preserves all the essential features of radial trajectory and allows an image reconstruction with PP fast Fourier transform (PPFFT) instead of interpolations. This paper attempts to investigate the performance of PP trajectory-based CS-MRI. In CS-based image reconstruction, the transformation of PP-sampled k-space data into the image domain is realized through PPFFT, which is based on the standard one-dimensional FFT and the fractional Fourier transform. To evaluate the effectiveness of the proposed methods, both numerical and experimental data are used to compare the new methods with conventional approaches. The proposed method provided high-quality reconstruction of the MR images with over 2-dB gain in peak signal-to-noise ratio while keeping structural similarity over 0.88 in different situations. Compared with the conventional radial sampling-based CS MRI methods, the proposed method achieves a more accurate reconstruction with respect to image detail/edge preservation and artifact suppression. The successful implementation of the PP subsampling-based CS scheme provides a practical and

  4. Pseudo-nonlinear dynamic analysis of buckled pipes

    Science.gov (United States)

    Gültekin Sınır, B.

    2013-02-01

    In this study, the post-divergence behavior of fluid-conveying pipes supported at both ends is investigated using the nonlinear equations of motion. The governing equation exhibits a cubic nonlinearity arising from mid-plane stretching. Exact solutions for post-buckling configurations of pipes with fixed-fixed, fixed-hinged, and hinged-hinged boundary conditions are investigated. The pipe is stable at its original static equilibrium position until the flow velocity becomes high enough to cause a supercritical pitchfork bifurcation, and the pipe loses stability by static divergence. In the supercritical fluid velocity regime, the equilibrium configuration becomes unstable and bifurcates into multiple equilibrium positions. To investigate the vibrations that occur in the vicinity of a buckled equilibrium position, the pseudo-nonlinear vibration problem around the first buckled configuration is solved precisely using a new solution procedure. By solving the resulting eigenvalue problem, the natural frequencies and the associated mode shapes of the pipe are calculated. The dynamic stability of the post-buckling configurations obtained in this manner is investigated. The first buckled shape is a stable equilibrium position for all boundary conditions. The buckled configurations beyond the first buckling mode are unstable equilibrium positions. The natural frequencies of the lowest vibration modes around each of the first two buckled configurations are presented. Effects of the system parameters on pipe behavior as well as the possibility of a subcritical pitchfork bifurcation are also investigated. The results show that many internal resonances might be activated among the vibration modes around the same or different buckled configurations.

  5. Pseudo-Meigs' syndrome secondary to metachronous ovarian metastases from transverse colon cancer.

    Science.gov (United States)

    Kyo, Kennoki; Maema, Atsushi; Shirakawa, Motoaki; Nakamura, Toshio; Koda, Kenji; Yokoyama, Hidetaro

    2016-05-14

    Pseudo-Meigs' syndrome associated with colorectal cancer is extremely rare. We report here a case of pseudo-Meigs' syndrome secondary to metachronous ovarian metastases from colon cancer. A 65-year-old female with a history of surgery for transverse colon cancer and peritoneal dissemination suffered from metachronous ovarian metastases during treatment with systemic chemotherapy. At first, neither ascites nor pleural effusion was observed, but she later complained of progressive abdominal distention and dyspnea caused by rapidly increasing ascites and pleural effusion and rapidly enlarging ovarian metastases. Abdominocenteses were repeated, and cytological examinations of the fluids were all negative for malignant cells. We suspected pseudo-Meigs' syndrome, and bilateral oophorectomies were performed after thorough informed consent. The patient's postoperative condition improved rapidly after surgery. We conclude that pseudo-Meigs' syndrome should be included in the differential diagnosis of massive or rapidly increasing ascites and pleural effusion associated with large or rapidly enlarging ovarian tumors.

  6. A model for pseudo-Dirac neutrinos: leptogenesis and ultra-high energy neutrinos

    Energy Technology Data Exchange (ETDEWEB)

    Ahn, Y.H. [Center for Theoretical Physics of the Universe, Institute for Basic Science (IBS),Daejeon, 34051 (Korea, Republic of); Kang, Sin Kyu [Insitute for Convergence Fundamental Study, School of Liberal Arts, Seoul-Tech.,Seoul, 01811 (Korea, Republic of); Kim, C.S. [Dept. of Physics and IPAP, Yonsei University,Seoul, 120-749 (Korea, Republic of)

    2016-10-18

    We propose a model where sterile neutrinos are introduced to make light neutrinos to be pseudo-Dirac particles. It is shown how tiny mass splitting necessary for realizing pseudo-Dirac neutrinos can be achieved. Within the model, we show how leptogenesis can be successfully generated. Motivated by the recent observation of very high energy neutrino events at IceCube, we study a possibility to observe the effects of the pseudo-Dirac property of neutrinos by performing astronomical-scale baseline experiments to uncover the oscillation effects of very tiny mass splitting. We also discuss future prospect to observe the effects of the pseudo-Dirac property of neutrinos at high energy neutrino experiments.

  7. Acute large bowel pseudo-obstruction due to atrophic visceral myopathy: A case report

    Directory of Open Access Journals (Sweden)

    Sean M. Wrenn

    2017-01-01

    Conclusions: Atrophic visceral neuropathy is a rare cause of intestinal pseudo-obstruction. While often presenting with chronic obstruction in younger populations, we present a rare late-onset acute presentation that may have been secondary to underlying hypothyroidism.

  8. West Coast DA Event data - West Coast Toxic Pseudo-nitzschia bloom

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — Beginning in the spring of 2015 the US West Coast began to experience the most wide-spread toxic Pseudo-nitzschia bloom to date, after approximately eight years...

  9. Group Constants Generation of the Pseudo Fission Products for Fast Reactor Burnup Calculations

    Science.gov (United States)

    Gil, Choong-Sup; Kim, Do Heon; Chang, Jonghwa

    2005-05-01

    The pseudo fission products for the burnup calculations of the liquid metal fast reactor were generated. The cross-section data and fission product yield data of ENDF/B-VI were used for the pseudo fission product data of U-235, U-238, Pu-239, Pu-240, Pu-241, and Pu-242. The pseudo fission product data can be used with the KAFAX-F22 or -E66, which are the MATXS-format libraries for analyses of the liquid metal fast reactor at KAERI and were distributed through the OECD/NEA. The 80-group MATXS-format libraries of the 172 fission products were generated and the burnup chains for generation of the pseudo fission products were prepared.

  10. Phenomenology and Cosmology of an Electroweak Pseudo-Dilaton and Electroweak Baryons

    CERN Document Server

    Campbell, Bruce A; Olive, Keith A

    2012-01-01

    In many strongly-interacting models of electroweak symmetry breaking the lowest-lying observable particle is a pseudo-Goldstone boson of approximate scale symmetry, the pseudo-dilaton. Its interactions with Standard Model particles can be described using a low-energy effective nonlinear chiral Lagrangian supplemented by terms that restore approximate scale symmetry, yielding couplings of the pseudo-dilaton that differ from those of a Standard Model Higgs boson by fixed factors. We review the experimental constraints on such a pseudo-dilaton in light of new data from the LHC and elsewhere. The effective nonlinear chiral Lagrangian has Skyrmion solutions that may be identified with the `electroweak baryons' of the underlying strongly-interacting theory, whose nature may be revealed by the properties of the Skyrmions. We discuss the finite-temperature electroweak phase transition in the low-energy effective theory, finding that the possibility of a first-order electroweak phase transition is resurrected. We disc...

  11. Almost Automorphic and Pseudo-Almost Automorphic Solutions to Semilinear Evolution Equations with Nondense Domain

    Directory of Open Access Journals (Sweden)

    Bruno de Andrade

    2009-01-01

    Full Text Available We study the existence and uniqueness of almost automorphic (resp., pseudo-almost automorphic solutions to a first-order differential equation with linear part dominated by a Hille-Yosida type operator with nondense domain.

  12. Some Properties of Mannheim Curves in Galilean and Pseudo - Galilean space

    OpenAIRE

    Öğrenmiş, Alper Osman; Öztekin, Handan; ERGÜT, Mahmut

    2011-01-01

    The aim of this work is to study the Mannheim curves in 3-dimensional Galilean and Pseudo - Galilean space. We obtain the characterizations between the curvatures and torsions of the Mannheim partner curves.

  13. Backlund transformations of curves in the Galilean and pseudo-Galilean spaces

    OpenAIRE

    Cengiz, Süleyman; Gürbüz, Nevin

    2011-01-01

    Backlund transformations of admissible curves in the Galilean 3-space and pseudo-Galilean 3-space and also spatial Backlund transformations of space curves in Galilean 4-space preserve the torsions under certain assumptions.

  14. Parallel Pseudo Arc-Length Moving Mesh Schemes for Multidimensional Detonation

    National Research Council Canada - National Science Library

    Jianguo Ning; Xinpeng Yuan; Tianbao Ma; Jian Li

    2017-01-01

    We have discussed the multidimensional parallel computation for pseudo arc-length moving mesh schemes, and the schemes can be used to capture the strong discontinuity for multidimensional detonations...

  15. Intelligent Design, A Young Universe, Astrology, UFO's, and More: Tackling Astronomical Pseudo-science

    Science.gov (United States)

    Fraknoi, A.

    2008-11-01

    During IYA educators and scientists will interact with the public in many ways. There will likely be public questions at IYA events about pseudo-scientific topics. While the particular pseudo-sciences that are in vogue change with time, these days popular astronomical pseudo-science includes creationism and intelligent design (and their denial of the age of the universe), astrology, UFO's as extra-terrestrial spaceships, selling star names, the ``face'' on Mars, the claim that the moon landings were a hoax, etc. We discuss some of the recent surveys of belief in pseudo-science and some ways to respond to questions about these topics. A separate resource guide to help answer questions about astronomical pseudoscience is also included in this volume.

  16. The technique of «Subliminal verbal suggestion for the treatment of [pseudo]obsessions»

    Directory of Open Access Journals (Sweden)

    N. V. Danilevska

    2016-03-01

    Full Text Available [Pseudo]obsessions therapy in patients with endogenous diseases of schizophrenic round accompanied with difficulties, caused by both psycho etio pathogenetic features of the disease. Disadvantages of the existing methods of therapy are associated with therapeutic conflict between two nosologies. Aim: to develop and test etiopsychopathogenetic technique "Subliminal verbal suggestion for the treatment of [pseudo]obsessions" as a subsidiary method of treatment of schizophrenia patients with [pseudo] obsessions in the structure of the disease. Methods and results. 137 patients who underwent hospital treatment 65 schizophrenia patients (F20 with the [pseudo]obsessive symptoms in the structure of the disease were examined on the basis of Public Health Institution «Regional clinical mental hospital» of the Zaporizhzhian regional council. 30 patients received standard pharmacotherapy (antipsychotic drugs according to clinical protocols that was combined with proposed technique "Subliminal verbal suggestion for the treatment of [pseudo]obsessions". The comparison group consisted of 35 patients treated with the use of standard pharmacotherapy: antipsychotic drugs. The next methods were used: medical history assessment, follow-up, clinical-psychopathological, psychodiagnostic. "Subliminal verbal suggestion for the treatment of [pseudo]obsessions" technique was developed. This technique is a combination of suggestion in the waking state and neurolinguistic programming, implemented with specially compiled auditory complex listening. The main therapeutic component s realized through the subthreshold perception of the verbal formulas that are unavailable to awareness. The technique consists of two components – primary and secondary, and three stages. The methodology was tested, its therapeutic efficacy was confirmed. Conclusion. "Subliminal verbal suggestion for the treatment of [pseudo]obsessions" technique was developed as a subsidiary method of the

  17. Acute colonic pseudo-obstruction in an infant after retroperitoneal pyeloplasty successfully treated with rectal irrigation

    Directory of Open Access Journals (Sweden)

    Ayman Al-Jazaeri

    2016-03-01

    Full Text Available Acute colonic pseudo-obstruction is frequently observed in adults but is rarely seen in children. The illness has never been reported in infants, who might differ in their reaction to the acute bowel distension and their response to the available management options. This report describes the presentation of acute colonic pseudo-obstruction in an infant after retroperitoneal pyeloplasty and its successful treatment with rectal irrigation.

  18. Large conjugacy classes, projective Fraisse limits, and the pseudo-arc

    OpenAIRE

    Kwiatkowska, Aleksandra

    2012-01-01

    We show that the automorphism group, Aut(L), of a projective Fraisse limit L, whose natural quotient is the pseudo-arc, has a comeager conjugacy class. This generalizes an unpublished result of Oppenheim that Aut(L) (and consequently, the group of all homeomorphisms of the pseudo-arc) has a dense conjugacy class. We also present a simple proof of the result of Oppenheim.

  19. Parallel Pseudo Arc-Length Moving Mesh Schemes for Multidimensional Detonation

    OpenAIRE

    Jianguo Ning; Xinpeng Yuan; Tianbao Ma; Jian Li

    2017-01-01

    We have discussed the multidimensional parallel computation for pseudo arc-length moving mesh schemes, and the schemes can be used to capture the strong discontinuity for multidimensional detonations. Different from the traditional Euler numerical schemes, the problems of parallel schemes for pseudo arc-length moving mesh schemes include diagonal processor communications and mesh point communications, which are illustrated by the schematic diagram and key pseudocodes. Finally, the numerical e...

  20. Chronic intestinal pseudo-obstruction. Did you search for lysosomal storage diseases?

    OpenAIRE

    Politei, J.; Durand, C; Schenone, A.B.; Torres, A.; Mukdsi, J.; Thurberg, B.L.

    2017-01-01

    Chronic intestinal pseudo-obstruction results in clinical manifestations that resemble intestinal obstruction but in the absence of any physical obstructive process. Fabry disease is an X-linked lysosomal storage disease characterized by the dysfunction of multiple systems, including significant gastrointestinal involvement. We report the occurrence of chronic intestinal pseudo-obstruction in two unrelated patients with Fabry disease and the possible explanation of a direct relation of these ...

  1. Cytological Studies on Narcissus  -Ⅱ.Karyotype of Narcissus pseudo-narcissus-

    OpenAIRE

    HIRAHARA,Sachiye

    1984-01-01

    Karyotype analysis was made on Narcissus pseudo-narcissus. It was found that the chromosome number is 2n=14 and composed of 12 large and 2 small chromosomes. The 12 large chromosomes could be grouped into five homogeneous pairs and one heterogeneous pair,and the 2 small chromosomes were observed to be heterogeneous. Therefore,four heterogeneous chromosomes were found in N. pseudo-narcissus.

  2. The BDS Triple Frequency Pseudo-range Correlated Stochastic Model of Single Station Modeling Method

    Directory of Open Access Journals (Sweden)

    HUANG Lingyong

    2017-05-01

    Full Text Available In order to provide a reliable pseudo-range stochastic model, a method is studied to estimate the BDS triple-frequency pseudo-range related stochastic model based on three BDS triple-frequency pseudo-range minus carrier (GIF combinations using the data of a single station. In this algorithm, the low order polynomial fitting method is used to fit the GIF combination in order to eliminate the error and other constants except non pseudo noise at first. And then, multiple linear regression analysis method is used to model the stochastic function of three linearly independent GIF combinations. Finally the related stochastic model of the original BDS triple-frequency pseudo-range observations is obtained by linear transformation. The BDS triple-frequency data verification results show that this algorithm can get a single station related stochastic model of BDS triple-frequency pseudo-range observation, and it is advantageous to provide accurate stochastic model for navigation and positioning and integrity monitoring.

  3. Research of smoothing pseudo-range algorithm by Doppler based on GPS/BD

    Science.gov (United States)

    Kang, Chuanli; Zhou, Yanliu

    2015-12-01

    GNSS (Global Navigation Satellite System) technology not only in the general field of surveying and mapping, geology, mining, water and electricity, and in particular in the field of public security, fire protection, tourism, search and rescue, adventure have been more widely used. These special areas require real-time and high positioning accuracy. Currently, GNSS precision positioning technology has become a hot research direction. This paper introduced an algorithm of smoothing pseudo range by Doppler based GPS/BD to improve GNSS positioning precision. This algorithm decoded the pseudo range data and ephemeris data, and then designed algorithm of smoothing pseudo range by Doppler according principle of Doppler smoothing pseudo range. This algorithm was realized by C++ and proved its efficiency. At last, this algorithm has proved its correctness through calculating and analyzing practical Doppler and pseudo range data, and then a conclusion has been obtained: the Doppler value precision is sub-meter, far better than the pseudo-range accuracy, so that if the two data are combined to calculate position that can help to improve the positioning accuracy.

  4. "Pseudo-Beijing": evidence for convergent evolution in the direct repeat region of Mycobacterium tuberculosis.

    Directory of Open Access Journals (Sweden)

    Lukas Fenner

    Full Text Available Mycobacterium tuberculosis has a global population structure consisting of six main phylogenetic lineages associated with specific geographic regions and human populations. One particular M. tuberculosis genotype known as "Beijing" has repeatedly been associated with drug resistance and has been emerging in some parts of the world. "Beijing" strains are traditionally defined based on a characteristic spoligotyping pattern. We used three alternative genotyping techniques to revisit the phylogenetic classification of M. tuberculosis complex (MTBC strains exhibiting the typical "Beijing" spoligotyping pattern.MTBC strains were obtained from an ongoing molecular epidemiological study in Switzerland and Nepal. MTBC genotyping was performed based on SNPs, genomic deletions, and 24-loci MIRU-VNTR. We identified three MTBC strains from patients originating from Tibet, Portugal and Nepal which exhibited a spoligotyping patterns identical to the classical Beijing signature. However, based on three alternative molecular markers, these strains were assigned to Lineage 3 (also known as Delhi/CAS rather than to Lineage 2 (also known as East-Asian lineage. Sequencing of the RD207 in one of these strains showed that the deletion responsible for this "Pseudo-Beijing" spoligotype was about 1,000 base pairs smaller than the usual deletion of RD207 in classical "Beijing" strains, which is consistent with an evolutionarily independent deletion event in the direct repeat (DR region of MTBC.We provide an example of convergent evolution in the DR locus of MTBC, and highlight the limitation of using spoligotypes for strain classification. Our results indicate that a proportion of "Beijing" strains may have been misclassified in the past. Markers that are more phylogenetically robust should be used when exploring strain-specific differences in experimental or clinical phenotypes.

  5. Superselective pseudo-continuous arterial spin labeling angiography

    Energy Technology Data Exchange (ETDEWEB)

    Jensen-Kondering, Ulf [Department of Radiology and Neuroradiology, University Medical Center Schleswig-Holstein, Kiel (Germany); Lindner, Thomas, E-mail: thomas.lindner@uksh.de [Department of Radiology and Neuroradiology, University Medical Center Schleswig-Holstein, Kiel (Germany); Osch, Matthias J.P. van [C. J. Gorter Center for High Field MRI, Department of Radiology, Leiden University Medical Center, Leiden (Netherlands); Rohr, Axel; Jansen, Olav [Department of Radiology and Neuroradiology, University Medical Center Schleswig-Holstein, Kiel (Germany); Helle, Michael [Department of Radiology and Neuroradiology, University Medical Center Schleswig-Holstein, Kiel (Germany); Now with Philips GmbH Innovative Technologies, Research Laboratories, Hamburg (Germany)

    2015-09-15

    Highlights: • Superselective arterial spin labeling was capable of acquiring angiograms of individually selected arteries. • Image quality was similar compared with a routinely used time-of-flight angiography. • Superselective arterial spin labeling was utilized in patients with arterio-venous malformations and made it possible to visualize individual feeding vessels in a complete non-invasive way - Abstract: Purpose: To evaluate the utility of a novel non-contrast enhanced, vessel-selective magnetic resonance angiography (MRA) approach based on superselective pseudo-continuous arterial spin labeling (ASL) for the morphologic assessment of intracranial arteries when compared to a clinically used time-of-flight (TOF) MRA. Materials and methods: Three sets of selective ASL angiographies (right and left internal carotid artery, basilar artery) as well as one TOF data set were obtained from each of the five volunteers included in this study on a clinical 1.5T system. The depiction of arterial segments as well as their delineation was evaluated and independently analyzed by two radiologists. Additionally, the ASL angiography approach was performed in two patients suffering from arterio-venous malformations (AVM) in order to illustrate potential applications in a clinical setting. Results: In both angiography techniques, intracranial arteries and their segments (distal branches up to A5 segments of the anterior cerebral arteries, M8 segments of the middle cerebral arteries, and P5 segments of the posterior cerebral arteries) were continuously depicted with excellent inter-reader agreement (κ > 0.81). In AVM patients, reconstructed images of the TOF angiography presented similar information about the size and shape of the AVM as did superselective ASL angiography. In addition, the acquired ASL angiograms of selected vessels allowed assessing the blood supply of individually labeled arteries to the AVM which could also be confirmed by digital subtraction angiography

  6. Unsustaineble pseudo-urban consequences of legal and urban terminology

    Directory of Open Access Journals (Sweden)

    Ćerimović Velimir Lj.

    2011-01-01

    Full Text Available City planning is a complex task and through this work we face the space and natural resources that expose the exploitation (that are to be exploited and prone to unsustainable change. Often without environmental responsibility and the imperative of creating certain measures we make superstructure no matter how much the environment may be disrupted, and whether such relationships create a better society, better network of urban settlements and a better man. At that may also affect our knowledge which is often due to a variety of doctrines and legislative regulations that are applied in the planning and management space. From this it can be seen that modern architecture did not contribute to the creation of better cities. Also, urban planning is mainly restricted to the regulation and it neglected the creative action, regional-planning is lost in theoretical research, while the consideration of the whole problem is abandoned. In addition to this, in today’s transitional terms and the domineering (dominant urban crisis unsustainable combination and identification of the “2D” and the “3D” terminology is recognizable, which is only indicators that in the field of urban planning some transitional trends are prevailing. This unsustainable state of affairs in the transitional planning of urban areas can be applied in the most suitable way to pseudo-urbanization, sub-urbanization, unbalanced eco-reciprocity, non-standard construction of the urban tissue, discontinuity inherited and newly constructed urban substance. In this regard, consequently expressed negative environmental legacy of reproduction and the increased effect of the negative consequences of greenhouse gases from the threatening climate change, only shows that urban planners are not sinless and, they more or less (unconsciously complicit and participate in the contamination of urban and environment. In the end, it definitely guides us to the need to leave or transformation of the

  7. Autonomous Byte Stream Randomizer

    Science.gov (United States)

    Paloulian, George K.; Woo, Simon S.; Chow, Edward T.

    2013-01-01

    Net-centric networking environments are often faced with limited resources and must utilize bandwidth as efficiently as possible. In networking environments that span wide areas, the data transmission has to be efficient without any redundant or exuberant metadata. The Autonomous Byte Stream Randomizer software provides an extra level of security on top of existing data encryption methods. Randomizing the data s byte stream adds an extra layer to existing data protection methods, thus making it harder for an attacker to decrypt protected data. Based on a generated crypto-graphically secure random seed, a random sequence of numbers is used to intelligently and efficiently swap the organization of bytes in data using the unbiased and memory-efficient in-place Fisher-Yates shuffle method. Swapping bytes and reorganizing the crucial structure of the byte data renders the data file unreadable and leaves the data in a deconstructed state. This deconstruction adds an extra level of security requiring the byte stream to be reconstructed with the random seed in order to be readable. Once the data byte stream has been randomized, the software enables the data to be distributed to N nodes in an environment. Each piece of the data in randomized and distributed form is a separate entity unreadable on its own right, but when combined with all N pieces, is able to be reconstructed back to one. Reconstruction requires possession of the key used for randomizing the bytes, leading to the generation of the same cryptographically secure random sequence of numbers used to randomize the data. This software is a cornerstone capability possessing the ability to generate the same cryptographically secure sequence on different machines and time intervals, thus allowing this software to be used more heavily in net-centric environments where data transfer bandwidth is limited.

  8. Pseudo-aneurisma post-traumático de tronco de arteria coronaria izquierda Post-traumatic false (pseudo aneurysm of the left main coronary artery

    Directory of Open Access Journals (Sweden)

    Melina M. Gallo

    2011-08-01

    Full Text Available El pseudo-aneurisma de arteria coronaria es extremadamente raro. Su historia natural es poco conocida y su tratamiento discutido. Se presenta el caso de un paciente con pseudo-aneurisma de tronco de la coronaria izquierda e infarto antero-apical del ventrículo izquierdo cinco años después de un paro cardíaco secundario a un traumatismo no penetrante de tórax. Se consideró entonces que la lesión no era pasible de corrección percutánea o quirúrgica por lo que se optó por tratamiento médico conservador. Una angiografía coronaria por tomografía computarizada multicorte realizada 10 años después del evento inicial mostró ausencia de progresión de la lesión.Coronary pseudo-aneurysm is an extremely rare entity. Its natural history is scarcely known and its treatment is controversial. We report a case of pseudo-aneurysm of the left main coronary artery associated with an antero-apical infarct of the left ventricle diagnosed five years after a cardiac arrest following a non-penetrating thoracic trauma. The patient was treated conservatively because percutaneous or surgical correction were not considered suitable for this lesion. A multidetector computed tomography coronary angiogram performed 10 years after the initial event showed no evidence of progression.

  9. Bioequivalence and pharmacokinetic comparison of a single 200-mg dose of meclofenoxate hydrochloride capsule and tablet formulations in healthy Chinese adult male volunteers: a randomized sequence, open-label, two-period crossover study.

    Science.gov (United States)

    Zou, Jian-Jun; Ji, Hong-Jian; Wu, Ding-Wei; Yao, Jing; Hu, Qin; Xiao, Da-Wei; Wang, Guang-Ji

    2008-09-01

    Meclofenoxate hydrochloride is a psychostimulant in the nootropic agent group available in capsule and tablet formulations approved for traumatic cataphora, alcoholic poisoning, anoxia neonatorum, and children's enuresis in China. Although these 2 generic formulations are marketed in China, information regarding their pharmacokinetics and bioequivalence in humans has not been published. The aim of this study was to compare the pharmacokinetic properties and bioequivalence of the capsule (test) and tablet (reference) formulations of meclofenoxate hydrochloride 200 mg in healthy Chinese volunteers. This single-dose, randomized-sequence, open-label, 2-period crossover study was performed at the Nanjing First Hospital of Nanjing Medical University, Nanjing, China. Eligible subjects were healthy male volunteers who were randomly assigned at a 1:1 ratio to receive a single 200-mg dose of the test or reference formulation, followed by a 1-week washout period and administration of the alternate formulation. The study drugs were administered after a 12-hour overnight fast. As a prodrug, meclofenoxate is hydrolyzed into 4-chlorophenoxyacetic acid and is not detected in plasma. The active metabolite of meclofenoxate, chlorophenoxyacetic acid, was assayed using a high-performance liquid chromatography method. For analysis of pharmacokinetic properties, including Cmax, AUC0-24, and AUC0-infinity, blood samples were obtained at 0.33, 0.67, 1, 1.5, 2, 2.5, 3, 4, 6, 8, 10, 14, and 24 hours after administration. The formulations were considered bioequivalent if the log-transformed ratios of Cmax and AUC were within the predetermined equivalence range (80%-125%) as established by the US Food and Drug Administration (FDA). Subjects were interviewed concerning the occurrence of adverse events including excitement, insomnia, lassitude, and headache. Tolerability was assessed at baseline (before administration) and at 1, 2, 6, and 12 hours after administration by monitoring vital signs

  10. Influence of Ginkgo biloba extract on the pharmacodynamic effects and pharmacokinetic properties of ticlopidine: an open-label, randomized, two-period, two-treatment, two-sequence, single-dose crossover study in healthy Korean male volunteers.

    Science.gov (United States)

    Kim, Bo-Hyung; Kim, Kyu-Pyo; Lim, Kyoung Soo; Kim, Jung-Ryul; Yoon, Seo Hyun; Cho, Joo-Youn; Lee, Yong-Oh; Lee, Kyung-Hee; Jang, In-Jin; Shin, Sang-Goo; Yu, Kyung-Sang

    2010-02-01

    Ginkgo biloba extract is an herbal medicine used in the treatment of vascular disorders that may be coadministered with antiplatelet agents such as ticlopidine. Regulatory authorities requested evaluation of the pharmacodynamic and pharmacokinetic interactions between these entities, according to the drug-development guidance for fixed-dose combination formulations in Korea. This study was performed to evaluate the potential pharmacodynamic and pharmacokinetic interactions between ticlopidine and Ginkgo biloba extract. An open-label, randomized, 2-period, 2-treatment, 2-sequence, single-dose crossover study was conducted in healthy Korean male volunteers. All volunteers were randomly assigned to a sequence group for the 2 treatments, which consisted of ticlopidine 250 mg alone and ticlopidine 250 mg with Ginkgo biloba extract 80 mg, separated by a 1-week washout period between the treatments. Bleeding time was determined just before dosing and at 5, 12, and 48 hours after dosing. Platelet aggregation was evaluated before dosing and at 4, 8, 26, and 48 hours after dosing. Blood samples (8 mL) from each of the volunteers were collected from an indwelling intravenous cannula inserted into a forearm vein before dosing and at 0.5, 1, 1.5, 2, 2.5, 3, 4, 6, 8, 12, 24, and 48 hours after dosing. Ticlopidine concentrations were determined by a validated method using HPLC and ultraviolet detection. Adverse events were identified using general health-related questions, vital signs, physical examinations, ECGs, and laboratory tests. A total of 24 healthy men participated in the study (mean [SD] age, 24.1 [4.3] years; weight, 66.6 [7.4] kg; height, 174.7 [5.0] cm). The baseline corrected bleeding times were not significantly different between the ticlopidine-alone and ticlopidine/ Ginkgo biloba groups, and changes in platelet aggregation were not significantly different between the groups. Likewise, the pharmacokinetic parameters of ticlopidine were not significantly different

  11. Pharmacokinetic properties and bioequivalence of two formulations of arbidol: an open-label, single-dose, randomized-sequence, two-period crossover study in healthy Chinese male volunteers.

    Science.gov (United States)

    Liu, Ming-Yan; Wang, Shuang; Yao, Wei-Fan; Wu, Hui-zhe; Meng, Sheng-Nan; Wei, Min-Jie

    2009-04-01

    Arbidol is an antiviral drug indicated for the prevention and treatment of all types of influenza infection and some other kinds of acute respiratory infections, specifically against influenza groups A and B, and severe acute respiratory syndrome. It is used to help prevent influenza infection as long as necessary with little risk for influenza mutation rendering it less effective. The aim of this study was to compare the pharmacokinetic properties and tolerability, and to determine bioequivalence, of a newly developed generic dispersible tablet formulation (test) and a branded capsule formulation (reference) of arbidol 200 mg in healthy Chinese fasted male volunteers. This open-label, single-dose, randomized-sequence, 2-period crossover study was conducted in healthy native Chinese male volunteers. Eligible subjects were randomly assigned in a 1:1 ratio to receive a single 200-mg dose of the test or reference formulation, followed by a 1-week washout period and administration of the alternate formulation. The study drugs were administered after a 12-hour overnight fast. After the study drug administration, serial blood samples were collected for 72 hours after administration. Plasma drug concentrations were determined using high-performance liquid chromatography coupled with tandem mass spectrometry. Several pharmacokinetic pararameters, including C(max), T(max), t((1/2)), AUC(0-t), and AUC(0-infinity), were determined from the plasma concentrations of the 2 formulations of arbidol using noncompartmental analysis. The formulations were to be considered bioequivalent if the log-transformed ratios of C(max) and AUC were within the predetermined bioequivalence range of 80% to 125% established by the State Food and Drug Administration (SFDA) of the People's Republic of China. Tolerability was assessed by monitoring vital signs (blood pressure, heart rate, temperature, and electrocardiography), laboratory analysis (hematology, blood biochemistry, hepatic function, and

  12. Relative bioavailability of generic and branded acetylcysteine effervescent tablets: A single-dose, open-label, randomized-sequence, two-period crossover study in fasting healthy Chinese male volunteers.

    Science.gov (United States)

    Liu, Yan-Mei; Liu, Yun; Lu, Chuan; Jia, Jing-Ying; Liu, Gang-Yi; Weng, Li-Ping; Wang, Jia-Yan; Li, Guo-Xiu; Wang, Wei; Li, Shui-Jun; Yu, Chen

    2010-11-01

    Acetylcysteine may be used as a muco- lytic agent for the treatment of chronic bronchitis, chronic obstructive pulmonary disease, and other pulmonary diseases complicated by the production of viscous mucus. However, little is known of its pharmacokinetic properties when given orally in healthy volunteers, particularly in a Chinese Han population. This study was conducted to provide support for the marketing of a generic product in China. The purpose of this study was to compare the pharmacokinetics and relative bioavailability of a generic test formulation and a branded reference formulation of acetylcysteine in fasting healthy Chinese male volunteers. A single-dose, open-label, randomized-sequence, 2-period crossover design with a 7-day washout period between doses was used in this study. Healthy Chinese male nonsmokers aged 18 to 40 years with a body mass index (BMI) of 19 to 25 kg/m(2) were selected. Eligible volunteers were randomly assigned to receive acetylcysteine 600 mg PO as either the test formulation (3 tablets of 200 mg each) or reference formulation (1 tablet of 600 mg) under fasting conditions. A total of 15 serial blood samples were collected over a 24-hour interval, and total plasma acetylcysteine concentrations were analyzed by a validated liquid chromatography-isotopic dilution mass spectrometry method. Pharmacokinetic parameters (C(max), T(max), t(½) AUC(0-t), and AUC(0-∞) were calculated and analyzed statistically. The 2 formulations were considered bioequivalent if the 90% CIs of the log-transformed ratios (test/reference) of C(max) and AUC were within the predetermined bioequivalence ranges (70%-143% for C(max); 80%-125% for AUC), as established by the State Food and Drug Administration of China. Tolerability was determined by vital signs, clinical laboratory tests, 12-lead ECGs, physical examinations, and interviews with the subjects about adverse events (AEs). A total of 24 healthy Chinese Han male volunteers were enrolled in and

  13. Randomization tests

    CERN Document Server

    Edgington, Eugene

    2007-01-01

    Statistical Tests That Do Not Require Random Sampling Randomization Tests Numerical Examples Randomization Tests and Nonrandom Samples The Prevalence of Nonrandom Samples in Experiments The Irrelevance of Random Samples for the Typical Experiment Generalizing from Nonrandom Samples Intelligibility Respect for the Validity of Randomization Tests Versatility Practicality Precursors of Randomization Tests Other Applications of Permutation Tests Questions and Exercises Notes References Randomized Experiments Unique Benefits of Experiments Experimentation without Mani

  14. Basic Characteristics and Spatial Patterns of Pseudo-Settlements—Taking Dalian as An Example

    Directory of Open Access Journals (Sweden)

    Jiaji Gao

    2016-01-01

    Full Text Available A person’s living behavior patterns are closely related to three types of settlements: real-life settlements, imagined settlements, and pseudo-settlements. The term “pseudo-settlement” (PS refers to the places that are selectively recorded and represented after the mass media chose and restructure the residence information. As the mass media rapidly develops and people’s way of obtaining information gradually change, PS has already become one of the main ways for people to recognize and understand real-life settlements, as well as describe their impressions of imagined settlements. PS also has a profound impact on tourism, employment, investment, migration, real estate development, etc. Thus, the study of PSs has important theoretical and practical significance. This paper proposes to put forward residential quarters where the mass media is displayed as the object of study and establishes the pseudo-settlement index system of Dalian in and elaborate analysis of the concept of PSs. From three aspects, including pseudo-buildings, pseudo-districts and pseudo-culture, this paper uses the ArcGIS 10.0 kernel density (spacial analyst to analyze and interpret the basic characteristics and spatial patterns of 14 elements of the PS in Dalian. Through systemic clustering analysis, it identifies eight major types of PSs in Dalian. Then it systematically elaborates current situations and characteristics of the spatial pattern of PSs in Dalian, namely: regionally concentrated, widely scattered and blank spaces without pseudo-settlements. Finally, this paper discusses the mechanism of formation of PSs in Dalian.

  15. Pseudo-Scientific Information: Reasons of Spread and Premises of Vitality

    Directory of Open Access Journals (Sweden)

    Valdas Pruskus

    2011-04-01

    Full Text Available The phenomenon of pseudo-scientific information, the reasons of its spread and premises of its vitality are discussed in the paper. Pseudo-scientific information is understandable as an attempt to suit a demand, which exists in society, while providing a simple answer to a question, which an individual or society is concerned about, and that answer is not sustained by scientific research. It is showed that the rise and spread of pseudo-scientific information in society are conditioned by objective reasons. Firstly, the lack of information concerning a subject which is significant for society. Secondly, the lack of information for a particular individual (social group concerning a substantial subject. Thirdly, fast spread of scientific and technical inventions and penetration of technological innovations into various spheres of life the understanding of which demands an appropriate informal “processing”, i e it demands provision in an appropriate form, which is partly provided by pseudo-scientific knowledge.The existence of pseudo-scientific information is determined by the fact that it performs important social functions in society. The existence of pseudo-scientific information by official certified scientific information and the fact, that all social groups are affected to a larger or lesser extent, show its ambivalent power and vitality. On the one part, the roots of its vitality lie in the duality of this phenomenon, where opposite things coexist in a strange way – the truth (scientifically verified propositions and speculations which are based on intuition rather than on scientifically verified facts. On the other part, it is maintained by our permanent wish to get an additional and fresher information, though not totally reliable, while seeking to know universally and better the world around us and its phenomena. While meeting this requirement, a pseudo-scientific information stimulates researchers both to enhance their attempts to

  16. Bloom dynamics of the genus Pseudo-nitzschia (Bacillariophyceae in two coastal bays (NW Mediterranean Sea

    Directory of Open Access Journals (Sweden)

    Sonia Quijano-Scheggia

    2008-09-01

    Full Text Available The spatial and temporal variations in the composition of Pseudo-nitzschia during bloom events from August 2005 to February 2006 were characterised in two bays of the NW Mediterranean Sea (Alfacs and Fangar Bay by means of scanning electron microscopy (SEM. The study provides detailed records of the Pseudo-nitzschia community at the species level and describes its relationship with both the surrounding environmental conditions and biotic factors such as the accompanying phytoplankton community. The size distributions of several species of Pseudo-nitzschia were monitored during the bloom events. These measurements may serve as indicators of the physiological status of the cells. The species observed in the two bays were Pseudo-nitzschia calliantha, P. delicatissima, P. fraudulenta, P. multistriata, and P. pungens. In Alfacs Bay, a mixed species bloom of P. calliantha and P. delicatissima began in late August 2005 and lasted 11 weeks. In Fangar Bay, the Pseudo-nitzschia bloom was limited to the period from early August to late September 2005 and comprised P. calliantha and P. delicatissima. Commonly, the proliferation of Pseudo-nitzschia was mono-specific or was accompanied by other diatoms. Two objectively defined groups were identified by the statistical analysis in Alfacs bay; the first was made up only of winter samples and the second of summer and autumn samples. The first group was defined by a high concentration of NO3¯ and low concentrations of NH4+, conditions associated with a high abundance of P. delicatissima and a low abundance of P. calliantha. The second group expressed the opposite characteristics. A succession of different blooming species of Pseudo-nitzschia lasting months in Alfacs Bay is described.

  17. "Fooling fido"--chemical and behavioral studies of pseudo-explosive canine training aids.

    Science.gov (United States)

    Kranz, William D; Strange, Nicholas A; Goodpaster, John V

    2014-12-01

    Genuine explosive materials are traditionally employed in the training and testing of explosive-detecting canines so that they will respond reliably to these substances. However, challenges arising from the acquisition, storage, handling, and transportation of explosives have given rise to the development of "pseudo-explosive" training aids. These products attempt to emulate the odor of real explosives while remaining inert. Therefore, a canine trained on a pseudo-explosive should respond to its real-life analog. Similarly, a canine trained on an actual explosive should respond to the pseudo-explosive as if it was real. This research tested those assumptions with a focus on three explosives: single-base smokeless powder, 2,4,6-trinitrotoluene (TNT), and a RDX-based plastic explosive (Composition C-4). Using gas chromatography-mass spectrometry with solid phase microextraction as a pre-concentration technique, we determined that the volatile compounds given off by pseudo-explosive products consisted of various solvents, known additives from explosive formulations, and common impurities present in authentic explosives. For example, simulated smokeless powders emitted terpenes, 2,4-dinitrotoluene, diphenylamine, and ethyl centralite. Simulated TNT products emitted 2,4- and 2,6-dinitrotoluene. Simulated C-4 products emitted cyclohexanone, 2-ethyl-1-hexanol, and dimethyldinitrobutane. We also conducted tests to determine whether canines trained on pseudo-explosives are capable of alerting to genuine explosives and vice versa. The results show that canines trained on pseudo-explosives performed poorly at detecting all but the pseudo-explosives they are trained on. Similarly, canines trained on actual explosives performed poorly at detecting all but the actual explosives on which they were trained.

  18. Short sequence motifs, overrepresented in mammalian conservednon-coding sequences

    Energy Technology Data Exchange (ETDEWEB)

    Minovitsky, Simon; Stegmaier, Philip; Kel, Alexander; Kondrashov,Alexey S.; Dubchak, Inna

    2007-02-21

    Background: A substantial fraction of non-coding DNAsequences of multicellular eukaryotes is under selective constraint. Inparticular, ~;5 percent of the human genome consists of conservednon-coding sequences (CNSs). CNSs differ from other genomic sequences intheir nucleotide composition and must play important functional roles,which mostly remain obscure.Results: We investigated relative abundancesof short sequence motifs in all human CNSs present in the human/mousewhole-genome alignments vs. three background sets of sequences: (i)weakly conserved or unconserved non-coding sequences (non-CNSs); (ii)near-promoter sequences (located between nucleotides -500 and -1500,relative to a start of transcription); and (iii) random sequences withthe same nucleotide composition as that of CNSs. When compared tonon-CNSs and near-promoter sequences, CNSs possess an excess of AT-richmotifs, often containing runs of identical nucleotides. In contrast, whencompared to random sequences, CNSs contain an excess of GC-rich motifswhich, however, lack CpG dinucleotides. Thus, abundance of short sequencemotifs in human CNSs, taken as a whole, is mostly determined by theiroverall compositional properties and not by overrepresentation of anyspecific short motifs. These properties are: (i) high AT-content of CNSs,(ii) a tendency, probably due to context-dependent mutation, of A's andT's to clump, (iii) presence of short GC-rich regions, and (iv) avoidanceof CpG contexts, due to their hypermutability. Only a small number ofshort motifs, overrepresented in all human CNSs are similar to bindingsites of transcription factors from the FOX family.Conclusion: Human CNSsas a whole appear to be too broad a class of sequences to possess strongfootprints of any short sequence-specific functions. Such footprintsshould be studied at the level of functional subclasses of CNSs, such asthose which flank genes with a particular pattern of expression. Overallproperties of CNSs are affected by

  19. [Pseudo-dementia conversion and post-traumatic stress disorder].

    Science.gov (United States)

    Montefiore, D; Mallet, L; Lévy, R; Allilaire, J-F; Pélissolo, A

    2007-01-01

    increased startle reactions. Hospitalisation became necessary because of a severe depressive disorder with suicidal ideation and suicidal attempt by hanging. After two failed treatments with SSRI antidepressants, the administration of clomipramine (200 mg/d) and a combined therapy with Eyes Movement Desensitization and Reprocessing (EMDR) led to a significant improvement of PTSD and depression symptoms. Even if PTSD and conversion may share common dissociative mechanisms, the links between both syndromes have not yet been sufficiently explored. Our clinical case raises specifically the question of the initial manifestations of pseudo-dementia (why this type of symptoms, and why at this particular moment of his life, without any targeting events). Moreover, the case of this patient is particularly interesting because of the very long amnesia period between the traumatic event and the onset of PTSD. The different phases of this case warrant more precise exploration of the links between PTSD and conversion, with clinical, epidemiological and cerebral imagery perspectives.

  20. Evaluating Letrozole and Tamoxifen Alone and in Sequence for Postmenopausal Women with Steroid Hormone Receptor-Positive Breast Cancer: the BIG 1-98 Randomized Clinical Trial at 8.1 years Median Follow-Up

    Science.gov (United States)

    Regan, Meredith M.; Neven, Patrick; Giobbie-Hurder, Anita; Goldhirsch, Aron; Ejlertsen, Bent; Mauriac, Louis; Forbes, John F.; Smith, Ian; Láng, István; Wardley, Andrew; Rabaglio, Manuela; Price, Karen N.; Gelber, Richard D.; Coates, Alan S.; Thürlimann, Beat

    2011-01-01

    clinicaltrials.gov NCT00004205. Findings At a median follow-up of 8.7 years from randomization (range 0–12.4), letrozole monotherapy is significantly better than tamoxifen, whether using IPCW or intention-to-treat (ITT) analysis [IPCW: DFS HR 0.82 (95% CI 0.74–0.92), OS HR 0.79 (0.69–0.900, DRFI HR 0.79 (0.68–0.92), BCFI HR 0.80 (0.70–0.92); ITT: DFS HR 0.86 (0.78–0.96), OS HR 0.87 (0.77–0.999), DRFI HR 0.86 (0.74–0.998), BCFI HR 0.86 (0.76–0.98)]. At a median follow-up of 8.0 years from randomization (range 0–11.2), there were no statistically significant differences in any of the four endpoints for either sequence compared with letrozole monotherapy. Eight-year ITT estimates [each with SE ≤ 1.1%] for letrozole monotherapy, letrozole followed by tamoxifen, and tamoxifen followed by letrozole were 78.6%, 77.8%, 77.3% for DFS; 87.5%, 87.7%, 85.9% for OS; 89.9%, 88.7%, 88.1% for DRFI; and 86.1%, 85.3%, 84.3% for BCFI. Interpretation For postmenopausal women with endocrine-responsive early breast cancer, a reduction in breast cancer recurrence and mortality is obtained by letrozole monotherapy when compared to tamoxifen. Sequential treatments involving tamoxifen and letrozole do not improve outcome compared with letrozole monotherapy, but may represent useful strategies considering individual patient’s risk of recurrence and treatment tolerability: more thromboembolic events, vaginal bleeding, hot flushes and night sweats with tamoxifen, while more vaginal dryness, bone fractures, osteoporosis, arthralgia/myalgia, and higher grade cardiac events with letrozole. Funding Novartis, United States National Cancer Institute, International Breast Cancer Study Group. PMID:22018631

  1. The draft genome and transcriptome of Amaranthus hypochondriacus: a C4 dicot producing high-lysine edible pseudo-cereal.

    Science.gov (United States)

    Sunil, Meeta; Hariharan, Arun K; Nayak, Soumya; Gupta, Saurabh; Nambisan, Suran R; Gupta, Ravi P; Panda, Binay; Choudhary, Bibha; Srinivasan, Subhashini

    2014-12-01

    Grain amaranths, edible C4 dicots, produce pseudo-cereals high in lysine. Lysine being one of the most limiting essential amino acids in cereals and C4 photosynthesis being one of the most sought-after phenotypes in protein-rich legume crops, the genome of one of the grain amaranths is likely to play a critical role in crop research. We have sequenced the genome and transcriptome of Amaranthus hypochondriacus, a diploid (2n = 32) belonging to the order Caryophyllales with an estimated genome size of 466 Mb. Of the 411 linkage single-nucleotide polymorphisms (SNPs) reported for grain amaranths, 355 SNPs (86%) are represented in the scaffolds and 74% of the 8.6 billion bases of the sequenced transcriptome map to the genomic scaffolds. The genome of A. hypochondriacus, codes for at least 24,829 proteins, shares the paleohexaploidy event with species under the superorders Rosids and Asterids, harbours 1 SNP in 1,000 bases, and contains 13.76% of repeat elements. Annotation of all the genes in the lysine biosynthetic pathway using comparative genomics and expression analysis offers insights into the high-lysine phenotype. As the first grain species under Caryophyllales and the first C4 dicot genome reported, the work presented here will be beneficial in improving crops and in expanding our understanding of angiosperm evolution. © The Author 2014. Published by Oxford University Press on behalf of Kazusa DNA Research Institute.

  2. Decoding sequence learning from single-trial intracranial EEG in humans.

    Directory of Open Access Journals (Sweden)

    Marzia De Lucia

    Full Text Available We propose and validate a multivariate classification algorithm for characterizing changes in human intracranial electroencephalographic data (iEEG after learning motor sequences. The algorithm is based on a Hidden Markov Model (HMM that captures spatio-temporal properties of the iEEG at the level of single trials. Continuous intracranial iEEG was acquired during two sessions (one before and one after a night of sleep in two patients with depth electrodes implanted in several brain areas. They performed a visuomotor sequence (serial reaction time task, SRTT using the fingers of their non-dominant hand. Our results show that the decoding algorithm correctly classified single iEEG trials from the trained sequence as belonging to either the initial training phase (day 1, before sleep or a later consolidated phase (day 2, after sleep, whereas it failed to do so for trials belonging to a control condition (pseudo-random sequence. Accurate single-trial classification was achieved by taking advantage of the distributed pattern of neural activity. However, across all the contacts the hippocampus contributed most significantly to the classification accuracy for both patients, and one fronto-striatal contact for one patient. Together, these human intracranial findings demonstrate that a multivariate decoding approach can detect learning-related changes at the level of single-trial iEEG. Because it allows an unbiased identification of brain sites contributing to a behavioral effect (or experimental condition at the level of single subject, this approach could be usefully applied to assess the neural correlates of other complex cognitive functions in patients implanted with multiple electrodes.

  3. Main: Sequences [KOME

    Lifescience Database Archive (English)

    Full Text Available Sequences Nucleotide Sequence Nucleotide sequence of full length cDNA (trimmed sequence) kome_ine_full_se...quence_db.fasta.zip kome_ine_full_sequence_db.zip kome_ine_full_sequence_db ...

  4. Events per variable for risk differences and relative risks using pseudo-observations

    DEFF Research Database (Denmark)

    Hansen, Stefan Nygaard; Andersen, Per Kragh; Parner, Erik Thorlund

    2014-01-01

    A method based on pseudo-observations has been proposed for direct regression modeling of functionals of interest with right-censored data, including the survival function, the restricted mean and the cumulative incidence function in competing risks. The models, once the pseudo-observations have ...... differences and relative risks for right-censored data. We investigate how coverage probabilities and relative bias of the pseudo-observation estimator interact with sample size, number of variables and average number of events per variable.......A method based on pseudo-observations has been proposed for direct regression modeling of functionals of interest with right-censored data, including the survival function, the restricted mean and the cumulative incidence function in competing risks. The models, once the pseudo-observations have...... been computed, can be fitted using standard generalized estimating equation software. Regression models can however yield problematic results if the number of covariates is large in relation to the number of events observed. Guidelines of events per variable are often used in practice. These rules...

  5. Comparison of static MRI and pseudo-dynamic MRI in temporomandibular joint disorder patients

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Jin Ho; Yun, Kyoung In [Eulji Univ. School of Medicine, Seoul (Korea, Republic of); Park, In Woo; Choi, Hang Moon; Park, Moon Soo [Kangnung National Univ. College of Dentistry, Kangnung (Korea, Republic of)

    2006-12-15

    The purpose of this study was to elevate comparison of static MRI and pseudo-dynamic (cine) MRI in temporomandibular joint (TMJ) disorder patients. In this investigation, 33 patients with TMJ disorders were examined using both conventional static MRI and pseudo-dynamic MRI. Multiple spoiled gradient recalled acquisition in the steady state (SPGR) images were obtained when mouth opened and closed. Proton density weighted images were obtained at the closed and open mouth position in static MRI. Two oral and maxillofacial radiologists evaluated location of the articular disk, movement of condyle and bony change respectively and the posterior boundary of articular disk was obtained. No statistically significant difference was found in the observation of articular disk position, mandibular condylar movement and posterior boundary of articular disk using static MRI and pseudo-dynamic MRI (P>0.05). Statistically significant difference was noted in bony changes of condyle using static MRI and pseudo-dynamic MRI (P<0.05). This study showed that pseudo-dynamic MRI didn't make a difference in diagnosing internal derangement of TMJ in comparison with static MRI. But it was considered as an additional method to be supplemented in observing bony change.

  6. Hyperpigmented Torpedo Maculopathy with Pseudo-Lacuna: A 5-Year Follow-Up.

    Science.gov (United States)

    Rohl, Austin; Vance, Sushma

    2016-01-01

    The aim of the study was to describe a case of globally hyperpigmented torpedo maculopathy that also contained a novel central lesion resembling a 'pseudo-lacuna'. We compare the morphology of the lesion after 5 years of follow-up. An asymptomatic 10-year-old Caucasian male was referred by his optometrist after having found a hyperpigmented lesion on routine dilated examination in 2010. Color fundus photography OS from October 2015 showed a 1.74 × 0.67 mm hyperpigmented oval-shaped lesion temporal to the macula. Since June 2010, the hyperpigmented torpedo lesion appeared to have assumed a more ovoid shape and increased in size in the vertical axis. Centrally, there was a small pearlescent-colored pseudo-lacuna lesion that seemed to also have significantly increased in size since June 2010. Enhanced depth imaging optical coherence tomography of this pseudo-lacuna showed retinal pigment epithelium clumping and migration. Fundus autofluorescence revealed reduced autofluorescence of the torpedo lesion and marked hyperautofluorescence of the pseudo-lacuna. Fluorescein angiography shows no neovascular disease or leakage. Torpedo maculopathy has been described previously as a hypopigmented, nonprogressive lesion of unknown etiology. The findings of global hyperpigmentation, pseudo-lacuna formation, and morphologic changes over time in this lesion challenge these classically held descriptions, and necessitate long-term follow-up with multimodal imaging.

  7. Enhancement patterns and pseudo-washout of hepatic haemangiomas on gadoxetate disodium-enhanced liver MRI

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Bohyun [University of Ulsan College of Medicine, Asan Medical Center, Department of Radiology and Research Institute of Radiology, Seoul (Korea, Republic of); Ajou University School of Medicine, Department of Radiology, Suwon (Korea, Republic of); Byun, Jae Ho; Kim, Hyoung Jung; Won, Hyung Jin; Kim, So Yeon; Shin, Yong Moon; Kim, Pyo Nyun [University of Ulsan College of Medicine, Asan Medical Center, Department of Radiology and Research Institute of Radiology, Seoul (Korea, Republic of)

    2016-01-15

    To compare the enhancement patterns and prevalence of pseudo-washout between rapidly and slowly enhancing hepatic haemangiomas on gadoxetate disodium-enhanced MRI in patients with chronic liver disease (CLD) and healthy liver (HL). On gadoxetate disodium-enhanced MRI, the extent of intralesional arterial enhancement >50 % and ≤50 % of lesions was defined as rapid and slow enhancement, respectively. The enhancement patterns and presence of pseudo-washout during the portal venous phase (PVP) and transitional phase (TP) of 74 hepatic haemangiomas were retrospectively evaluated in the CLD and HL groups. Sequential changes of signal-to-noise ratio (SNR) were measured in unenhanced phase, PVP and TP. Irrespective of hepatic health status, pseudo-washout in TP was significantly more common in the rapidly enhancing haemangiomas (p ≤ 0.026). In both groups, rapidly enhancing haemangiomas showed complete or progressive incomplete enhancement in PVP, which either lasted or transformed to pseudo-washout in TP, whereas slowly enhancing haemangiomas showed progressive incomplete enhancement in PVP and TP. SNR of hepatic parenchyma continued to rise until TP, whereas that of portal vein and haemangioma falls in TP. Regardless of CLD, pseudo-washout in TP was more common in rapidly than in slowly enhancing haemangiomas, with enhancement patterns differing in the two subgroups. (orig.)

  8. Single-dose bioequivalence assessment of two formulations of polysaccharide iron complex capsules in healthy adult male Chinese volunteers: A sequence-randomized, double-blind, two-way crossover study.

    Science.gov (United States)

    Zhang, Yuan-Yuan; Liu, Jun-Hong; Su, Feng; Lui, Ying-Tao; Li, Jun-Feng

    2009-04-01

    Iron deficiency anemia (IDA) is a common nutritional disease worldwide. Iron supplementation is an efficient method for treating patients with IDA. Polysaccharide iron complex is an oral iron supplement that is associated with generally good tolerability and good bioavailability. The aim of this study was to evaluate the bioequivalence of 2 branded formulations of polysaccharide iron complex in healthy adult male Chinese volunteers by determining the pharmacokinetic parameters after single-dose oral admi ni strati on. This sequence-randomized, double-blind, 2-way crossover study was carried out in the Affiliated Hospital, Institute of Medical Sciences of Qingdao University, Qingdao, China. Healthy adult male Chinese volunteers were enrolled and evenly randomized to receive 1 of 2 formulations on day 1. Subjects received an oral dose of 150 mg (1 capsule) of polysaccharide iron complex with 150 mL of warm water in the morning. Capsules were of similar size, shape, and color to ensure blinding. Four hours after administration, the subjects were given standardized meals. After a 1-week washout period, the subjects were crossed over to receive the other formulation in a similar manner. The serum iron concentration 12 hours after study drug administration was determined using atomic-absorption spectrometry. The pharmacokinetic parameters Cmax, Tmax, AUC0-t, and AUC0-∞ were obtained and analyzed using the Schuir mann 2 one-sided t test. The 2 formulations were considered bioequi valent if the test/reference ratios of Cmax, AUC0-t, and their 90% CIs were within the range of 70% to 143% for Cmax and within 80% to 125% for AUC0-t. Tolerability was monitored by inquiring whether the subjects had experienced adverse events (AEs), with a focus on gastrointestinal AEs, during the clinic visits during the 24-hour period after drag administration and subsequently via telephone throughout the study. Thirty adult male Chinese volunteers were assessed for inclusion. Twenty healthy

  9. Pharmacokinetics and bioavailability comparison of generic and branded citalopram 20 mg tablets: an open-label, randomized-sequence, two-period crossover study in healthy Chinese CYP2C19 extensive metabolizers.

    Science.gov (United States)

    Jiang, Tao; Rong, Zhengxing; Xu, Yiping; Chen, Bing; Xie, Yifan; Chen, Congying; Lu, Yang; Shen, Yifeng; Li, Huafang; Sun, Jing; Chen, Hongzhuan

    2013-01-01

    Citalopram is a selective serotonin reuptake inhibitor (SSRI) mainly prescribed to treat major depression. The aim of this study was to compare the pharmacokinetic characteristics of a new and a branded citalopram 20 mg formulation to support the marketing authorization of the test formulation in China. A single-dose, open-label, randomized-sequence, two-period crossover design was used in this study. Healthy Chinese male cytochrome P450 (CYP) 2C19 extensive metabolizers, aged 18-40 years, were eligible to participate. CYP2C19 poor metabolizers were excluded, based on genotyping of genomic DNA from blood samples. Twenty-four subjects were randomly assigned to receive the test formulation followed by the reference formulation, and then vice versa. A 2-week washout occurred between study periods. Blood samples were collected for up to 144 h post-dose. Quantification was carried out using a validated high-performance liquid chromatography-tandem mass spectrometry (HPLC-MS/MS) method. Pharmacokinetic parameters were calculated and analysed statistically. The two formulations were considered pharmacokinetically equivalent if the 90 % confidence intervals (CIs) of the log-transformed ratios (test/reference) of the maximum plasma concentration (C(max)), area under the plasma concentration-time curve from time zero to the last measurable concentration (AUC(last)), and area under the plasma concentration-time curve from time zero to infinity (AUC(∞)) were within the predetermined acceptance range (70-143 % for C(max); 80-125 % for AUC(last) and AUC(∞)) according to China State Food and Drug Administration bioequivalence guidelines. Tolerability was monitored by clinical assessment, vital signs, laboratory analysis and interviews with participants about adverse events. A total of 24 participants, with a mean (SD) age of 26 (3) years (range 22-32 years), body weight of 65.2 (5.0) kg (range 53-73 kg), and height of 172.7 (4.9) cm (range 159-182 cm), were enrolled in this

  10. Comparisons of the pharmacokinetics and tolerability of fixed-dose combinations of amlodipine besylate/losartan and amlodipine camsylate/losartan in healthy subjects: a randomized, open-label, single-dose, two-period, two-sequence crossover study.

    Science.gov (United States)

    Choi, YoonJung; Lee, SeungHwan; Cho, Sang-Min; Kang, Won-Ho; Nam, Kyu-Yeol; Jang, In-Jin; Yu, Kyung-Sang

    2016-01-01

    A fixed-dose combination (FDC) of amlodipine and losartan has been used to reduce blood pressure in patients whose hypertension is not sufficiently controlled with either drug alone. The aim of this study was to evaluate the pharmacokinetic (PK) characteristics and tolerability of an FDC of 6.94 mg amlodipine besylate (5 mg as amlodipine)/50 mg losartan potassium compared to an FDC of 5 mg amlodipine camsylate/50 mg losartan potassium in healthy subjects. A randomized, open-label, single-dose, two-period, two-sequence crossover study was conducted on 46 healthy male subjects. Blood concentrations were measured by liquid chromatography-tandem mass spectrometry. Blood samples were collected up to 144 hours post dose for each period. PK parameters were calculated in each treatment group using a noncompartmental method. The 90% confidence intervals (CIs) of the geometric mean ratios of the two treatments for the maximum plasma concentration (Cmax) and the area under the concentration curve from time zero to the last quantifiable time point (AUC0-t) were estimated. Tolerability assessments were performed for all subjects who received the drug at least once. The PK profiles of the two treatments were similar. For amlodipine, the geometric mean ratios (90% CIs) of amlodipine besylate to amlodipine camsylate for the Cmax and AUC0-t were 0.98 (0.94-1.01) and 0.97 (0.93-1.01), respectively. The corresponding values for losartan were 0.91 (0.81-1.02) and 1.05 (0.98-1.12), respectively. The incidence of adverse events was not significantly different between the two treatments, and both were well tolerated. An FDC of 6.94 mg amlodipine besylate (5 mg as amlodipine)/50 mg losartan potassium produced similar results to an FDC of 5 mg amlodipine camsylate/50 mg losartan potassium treatment with respect to the PK parameters of amlodipine and losartan based on Cmax and AUC0-t values. The amlodipine besylate/losartan potassium combination was well tolerated by healthy male subjects.

  11. Complete genome sequence of a virulent Streptococcus agalactiae strain 138P isolated from disease Nile tilapia

    Science.gov (United States)

    The complete genome of a virulent Streptococcus agalactiae strain 138P is 1838701 bp in size, containing 1831 genes. The genome has 1593 coding sequences, 152 pseudo genes, 16 rRNAs, 69 tRNAs, and 1 non-coding RNA. The annotation of the genome is added by the NCBI Prokaryotic Genome Annotation Pipel...

  12. Quasi-phases and pseudo-transitions in one-dimensional models with nearest neighbor interactions

    Science.gov (United States)

    de Souza, S. M.; Rojas, Onofre

    2018-01-01

    There are some particular one-dimensional models, such as the Ising-Heisenberg spin models with a variety of chain structures, which exhibit unexpected behaviors quite similar to the first and second order phase transition, which could be confused naively with an authentic phase transition. Through the analysis of the first derivative of free energy, such as entropy, magnetization, and internal energy, a "sudden" jump that closely resembles a first-order phase transition at finite temperature occurs. However, by analyzing the second derivative of free energy, such as specific heat and magnetic susceptibility at finite temperature, it behaves quite similarly to a second-order phase transition exhibiting an astonishingly sharp and fine peak. The correlation length also confirms the evidence of this pseudo-transition temperature, where a sharp peak occurs at the pseudo-critical temperature. We also present the necessary conditions for the emergence of these quasi-phases and pseudo-transitions.

  13. The scheme of automatic pseudo Doppler software defined radio direction finder

    Directory of Open Access Journals (Sweden)

    Pavlyuk V.V.

    2017-04-01

    Full Text Available The research describes the implementation approaches of a pseudo Doppler radio direction finding method based on software defined radio technology. A block diagram of an automatic pseudo Doppler software defined radio direction finder is proposed. A hardware functional diagram of specialized software architecture is offered. New schematic solution for antenna commutator and beating software synchronization is realized. For smoothing the bearing measurement of an aperiodic cyclic field based filtering procedure is proposed. By mathematical and experimental modeling a key features of a pseudo Doppler software defined radio direction finder are proved in comparison with the classical implementation: short signals bearing ability, statistical smoothing algorithms implementation convenience, simultaneous multiple frequency channels direction finding possibility, processing information simplification, flexibility and reconfigurability of radio direction finding systems. A prototype that implements the proposed approaches, circuitry design, software and algorithmic solutions is developed.

  14. Parallel Pseudo Arc-Length Moving Mesh Schemes for Multidimensional Detonation

    Directory of Open Access Journals (Sweden)

    Jianguo Ning

    2017-01-01

    Full Text Available We have discussed the multidimensional parallel computation for pseudo arc-length moving mesh schemes, and the schemes can be used to capture the strong discontinuity for multidimensional detonations. Different from the traditional Euler numerical schemes, the problems of parallel schemes for pseudo arc-length moving mesh schemes include diagonal processor communications and mesh point communications, which are illustrated by the schematic diagram and key pseudocodes. Finally, the numerical examples are given to show that the pseudo arc-length moving mesh schemes are second-order convergent and can successfully capture the strong numerical strong discontinuity of the detonation wave. In addition, our parallel methods are proved effectively and the computational time is obviously decreased.

  15. Binary Classification with a Pseudo Exponential Model and Its Application for Multi-Task Learning

    Directory of Open Access Journals (Sweden)

    Takashi Takenouchi

    2015-08-01

    Full Text Available In this paper, we investigate the basic properties of binary classification with a pseudo model based on the Itakura–Saito distance and reveal that the Itakura–Saito distance is a unique appropriate measure for estimation with the pseudo model in the framework of general Bregman divergence. Furthermore, we propose a novelmulti-task learning algorithm based on the pseudo model in the framework of the ensemble learning method. We focus on a specific setting of the multi-task learning for binary classification problems. The set of features is assumed to be common among all tasks, which are our targets of performance improvement. We consider a situation where the shared structures among the dataset are represented by divergence between underlying distributions associated with multiple tasks. We discuss statistical properties of the proposed method and investigate the validity of the proposed method with numerical experiments.

  16. Pseudo-obstrucción intestinal por miopatía visceral esporádica Intestinal pseudo-obstruction due to sporadic visceral myopathy

    Directory of Open Access Journals (Sweden)

    Pedro Montalvo

    2004-12-01

    Full Text Available Se presenta el caso infrecuente de un paciente con miopatía visceral esporádica y afectación de la totalidad del tracto gastrointestinal y de la vía urinaria. La miopatía visceral es una forma de pseudo-obstrucción intestinal crónica idiopática caracterizada por degeneración vacuolar, atrofia y fibrosis de la capa muscular propia de la pared intestinal, sin células inflamatorias. Se puede presentar en niños y adolescentes afectando la musculatura visceral digestiva y urinaria. La manifestación familiar se encuentra en aproximadamente el 30% de los casos y se transmite de forma autosómica recesiva en la mayoría de las familias. Es fundamental descartar causas secundarias de pseudo-obstrucción intestinal crónica y la realización de biopsia de todo el espesor de la pared gastrointestinal para poder arribar al diagnóstico. El tratamiento quirúrgico sólo es eficaz en los que tienen afectación de porciones aisladas del tubo digestivo.We report an unusual case of a patient with sporadic visceral myopathy and involvement of the entire gastrointestinal and urinary tract. Visceral myopathy is a form of chronic idiophatic intestinal pseudo-obstruction characterized by vacuolar degeneration, atrophy and fibrosis of the intestinal propia muscle layer without inflammatory cells. It can be found in childhood and adolescence affecting the gastrointestinal and urinary visceral muscle. The familial occurrence can be found in about 30% of cases and the mode of transmission is autosomal recessive in most families. It is crucial to exclude secondary forms of chronic intestinal pseudo-obstruction and to obtain full thickness intestinal biopsy for the diagnosis. Surgical treatment is only beneficial in cases with isolated segmental involvement of the gastrointestinal tract.

  17. Influencia del Pseudo Dionisio en Nicolás de Cusa

    Directory of Open Access Journals (Sweden)

    Andrés Hubert R

    2007-01-01

    Full Text Available Nicolás de Cusa (1401-1464 reconoce la influencia del Pseudo Dionisio en su propio pensamiento, especialmente en su teología negativa. Este trabajo busca mostrar esta influencia en el libro referencia del Cusano: el De Docta Ignorantia (la Docta Ignorancia. Esta obra consta de 3 partes. Solo en la primera parte, Nicolás sigue de cerca las ideas del Pseudo Dionisio y solo en ella lo cita. En las demás, aunque se nota la influencia, nuestro autor se siente más libre: las fundaciones están firmes, el constructor puede construir libremente. Para probar esta tesis, se toman dos ejemplos: el tema de las tinieblas y la coincidencia de los opuestos. Este ejercicio permite conocer cómo y por qué se recibió al Pseudo Dionisio en la historia de la teología. Permite también profundizar el sentido de la teología de Nicolás de CusaThe reflections of Nicolas of Cusa (1401-1464 recognise the influence of Pseudo Dyonisius, particularly in his negative theology. The present study shows this influence on Nicolas' most important book: the De Docta Ignorantia (the Learned Ignorance. The book is divided into three parts and it is in the first part that Nicolas directly pursues the ideas of Pseudo Dyonisius and it is only here that he quotes them. In the other parts of the book although the influence is noted, the foundations have been set and are solid and the author or builder can construct with freedom. To prove this thesis, 2 examples are presented: the theme of darkness and the coincidence of opposites. This exercise shows how and why Pseudo Dyonisius has been accepted into the history of the theology. It also deepens the meaning of the Nicolas of Cusa's theology

  18. Generating relativistic pseudo-potentials with explicit incorporation of semi-core states using APE, the Atomic Pseudo-potentials Engine

    Science.gov (United States)

    Oliveira, Micael J. T.; Nogueira, Fernando

    2008-04-01

    We present a computer package designed to generate and test norm-conserving pseudo-potentials within Density Functional Theory. The generated pseudo-potentials can be either non-relativistic, scalar relativistic or fully relativistic and can explicitly include semi-core states. A wide range of exchange-correlation functionals is included. Program summaryProgram title: Atomic Pseudo-potentials Engine (APE) Catalogue identifier: AEAC_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEAC_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: Standard CPC licence, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 88 287 No. of bytes in distributed program, including test data, etc.: 649 959 Distribution format: tar.gz Programming language: Fortran 90, C Computer: any computer architecture, running any flavor of UNIX Operating system: GNU/Linux RAM: APE also has a very sophisticated and user-friendly input system. Running time: The example given in this paper (Si) takes 10 s to run on a Pentium IV machine clocked at 2 GHz.

  19. Chunking in task sequences modulates task inhibition.

    Science.gov (United States)

    Koch, Iring; Philipp, Andrea M; Gade, Miriam

    2006-04-01

    In a study of the formation of representations of task sequences and its influence on task inhibition, participants first performed tasks in a predictable sequence (e.g., ABACBC) and then performed the tasks in a random sequence. Half of the participants were explicitly instructed about the predictable sequence, whereas the other participants did not receive these instructions. Task-sequence learning was inferred from shorter reaction times (RTs) in predictable relative to random sequences. Persisting inhibition of competing tasks was indicated by increased RTs in n- 2 task repetitions (e.g., ABA) compared with n- 2 nonrepetitions (e.g., CBA). The results show task-sequence learning for both groups. However, task inhibition was reduced in predictable relative to random sequences among instructed-learning participants who formed an explicit representation of the task sequence, whereas sequence learning and task inhibition were independent in the noninstructed group. We hypothesize that the explicit instructions led to chunking of the task sequence, and that n- 2 repetitions served as chunk points (ABA-CBC), so that within-chunk facilitation modulated the inhibition effect.

  20. Pharmacokinetics and bioequivalence evaluation of two different atorvastatin calcium 10-mg tablets: A single-dose, randomized-sequence, open-label, two-period crossover study in healthy fasted Chinese adult males.

    Science.gov (United States)

    Liu, Yan-Mei; Pu, Hua-Hua; Liu, Gang-Yi; Jia, Jing-Ying; Weng, Li-Ping; Xu, Rong-Jing; Li, Guo-Xiu; Wang, Wei; Zhang, Meng-Qi; Lu, Chuan; Yu, Chen

    2010-07-01

    Atorvastatin calcium is a 3-hydroxy-3-methylglutaryl-coenzyme A reductase inhibitor indicated for the prevention of cardiovascular disease and for the treatment of dyslipidemia. Information on the pharmacokinetics of atorvastatin in a Chinese population is lacking, and regulatory requirements necessitate a bioequivalence study for the marketing of a generic product in China. The aim of the present study was to assess the pharmacokinetics and bioequivalence of a test and branded reference formulation of atorvastatin calcium 10-mg tablets in healthy fasted Chinese male volunteers. This was a single-dose, randomized-sequence, open-label, 2-period crossover study with a 2-week washout period between doses. Healthy Chinese males were randomly assigned to receive 20 mg of either the test or reference formulation, and 13 blood samples were obtained over a 48-hour interval. Plasma concentrations of parent atorvastatin and ortho-hydroxy-atorvastatin (primary active metabolite) were simultaneously determined using a validated liquid chromatography-isotopic dilution mass spectrometry method. Pharmacokinetic parameters, including C(max), T(max), t((1/2)), AUC(0-t), and AUC(0-infinity)), were calculated. The 2 formulations were to be considered bioequivalent if 90% CIs for the log transformed ratios of AUC and C(max) of atorvastatin were within the predetermined bioequivalence range (0.80-1.25 for AUC and 0.70-1.43 for C(max)) as established by the State Food and Drug Administration of China. Tolerability was evaluated throughout the study by vital signs monitoring, physical examinations, 12-lead ECGs, and subject interviews on adverse events (AEs). A total of 66 subjects were assessed for inclusion; 20 were excluded prior to study initiation. Of the 46 healthy subjects (mean [SD] age, 24.1 [2.5] years; height, 170.8 [5.1] cm; weight, 64.6 [6.4] kg; body mass index (BMI), 22.1 [1.7] kg/m(2)) who completed the study, 45 subjects (mean [SD] age, 24.1 [2.5] years; height, 171.1 [4