Real-time high dynamic range laser scanning microscopy

Science.gov (United States)

Vinegoni, C.; Leon Swisher, C.; Fumene Feruglio, P.; Giedt, R. J.; Rousso, D. L.; Stapleton, S.; Weissleder, R.

2016-04-01

In conventional confocal/multiphoton fluorescence microscopy, images are typically acquired under ideal settings and after extensive optimization of parameters for a given structure or feature, often resulting in information loss from other image attributes. To overcome the problem of selective data display, we developed a new method that extends the imaging dynamic range in optical microscopy and improves the signal-to-noise ratio. Here we demonstrate how real-time and sequential high dynamic range microscopy facilitates automated three-dimensional neural segmentation. We address reconstruction and segmentation performance on samples with different size, anatomy and complexity. Finally, in vivo real-time high dynamic range imaging is also demonstrated, making the technique particularly relevant for longitudinal imaging in the presence of physiological motion and/or for quantification of in vivo fast tracer kinetics during functional imaging.

Reconstructing Interlaced High-Dynamic-Range Video Using Joint Learning.

Science.gov (United States)

Inchang Choi; Seung-Hwan Baek; Kim, Min H

2017-11-01

For extending the dynamic range of video, it is a common practice to capture multiple frames sequentially with different exposures and combine them to extend the dynamic range of each video frame. However, this approach results in typical ghosting artifacts due to fast and complex motion in nature. As an alternative, video imaging with interlaced exposures has been introduced to extend the dynamic range. However, the interlaced approach has been hindered by jaggy artifacts and sensor noise, leading to concerns over image quality. In this paper, we propose a data-driven approach for jointly solving two specific problems of deinterlacing and denoising that arise in interlaced video imaging with different exposures. First, we solve the deinterlacing problem using joint dictionary learning via sparse coding. Since partial information of detail in differently exposed rows is often available via interlacing, we make use of the information to reconstruct details of the extended dynamic range from the interlaced video input. Second, we jointly solve the denoising problem by tailoring sparse coding to better handle additive noise in low-/high-exposure rows, and also adopt multiscale homography flow to temporal sequences for denoising. We anticipate that the proposed method will allow for concurrent capture of higher dynamic range video frames without suffering from ghosting artifacts. We demonstrate the advantages of our interlaced video imaging compared with the state-of-the-art high-dynamic-range video methods.

Range based power control for multi-radio multi-channel wireless mesh networks

CSIR Research Space (South Africa)

Olwal, TO

2009-08-01

Full Text Available Multi-Radio Multi-Channel (MRMC) systems are key to power control problems in Wireless Mesh Networks (WMNs). In this paper, researchers present a range based dynamic power control for MRMC WMNs. First, WMN is represented as a set of disjoint Unified...

Automatic Generation of Wide Dynamic Range Image without Pseudo-Edge Using Integration of Multi-Steps Exposure Images

Science.gov (United States)

Migiyama, Go; Sugimura, Atsuhiko; Osa, Atsushi; Miike, Hidetoshi

Recently, digital cameras are offering technical advantages rapidly. However, the shot image is different from the sight image generated when that scenery is seen with the naked eye. There are blown-out highlights and crushed blacks in the image that photographed the scenery of wide dynamic range. The problems are hardly generated in the sight image. These are contributory cause of difference between the shot image and the sight image. Blown-out highlights and crushed blacks are caused by the difference of dynamic range between the image sensor installed in a digital camera such as CCD and CMOS and the human visual system. Dynamic range of the shot image is narrower than dynamic range of the sight image. In order to solve the problem, we propose an automatic method to decide an effective exposure range in superposition of edges. We integrate multi-step exposure images using the method. In addition, we try to erase pseudo-edges using the process to blend exposure values. Afterwards, we get a pseudo wide dynamic range image automatically.

A stochastic approach to multi-gene expression dynamics

International Nuclear Information System (INIS)

Ochiai, T.; Nacher, J.C.; Akutsu, T.

2005-01-01

In the last years, tens of thousands gene expression profiles for cells of several organisms have been monitored. Gene expression is a complex transcriptional process where mRNA molecules are translated into proteins, which control most of the cell functions. In this process, the correlation among genes is crucial to determine the specific functions of genes. Here, we propose a novel multi-dimensional stochastic approach to deal with the gene correlation phenomena. Interestingly, our stochastic framework suggests that the study of the gene correlation requires only one theoretical assumption-Markov property-and the experimental transition probability, which characterizes the gene correlation system. Finally, a gene expression experiment is proposed for future applications of the model

Enhancement tuning and control for high dynamic range images in multi-scale locally adaptive contrast enhancement algorithms

NARCIS (Netherlands)

Cvetkovic, S.D.; Schirris, J.; With, de P.H.N.

2009-01-01

For real-time imaging in surveillance applications, visibility of details is of primary importance to ensure customer confidence. If we display High Dynamic-Range (HDR) scenes whose contrast spans four or more orders of magnitude on a conventional monitor without additional processing, results are

High dynamic range adaptive real-time smart camera: an overview of the HDR-ARTiST project

Science.gov (United States)

Lapray, Pierre-Jean; Heyrman, Barthélémy; Ginhac, Dominique

2015-04-01

Standard cameras capture only a fraction of the information that is visible to the human visual system. This is specifically true for natural scenes including areas of low and high illumination due to transitions between sunlit and shaded areas. When capturing such a scene, many cameras are unable to store the full Dynamic Range (DR) resulting in low quality video where details are concealed in shadows or washed out by sunlight. The imaging technique that can overcome this problem is called HDR (High Dynamic Range) imaging. This paper describes a complete smart camera built around a standard off-the-shelf LDR (Low Dynamic Range) sensor and a Virtex-6 FPGA board. This smart camera called HDR-ARtiSt (High Dynamic Range Adaptive Real-time Smart camera) is able to produce a real-time HDR live video color stream by recording and combining multiple acquisitions of the same scene while varying the exposure time. This technique appears as one of the most appropriate and cheapest solution to enhance the dynamic range of real-life environments. HDR-ARtiSt embeds real-time multiple captures, HDR processing, data display and transfer of a HDR color video for a full sensor resolution (1280 1024 pixels) at 60 frames per second. The main contributions of this work are: (1) Multiple Exposure Control (MEC) dedicated to the smart image capture with alternating three exposure times that are dynamically evaluated from frame to frame, (2) Multi-streaming Memory Management Unit (MMMU) dedicated to the memory read/write operations of the three parallel video streams, corresponding to the different exposure times, (3) HRD creating by combining the video streams using a specific hardware version of the Devebecs technique, and (4) Global Tone Mapping (GTM) of the HDR scene for display on a standard LCD monitor.

Inferring dynamic gene regulatory networks in cardiac differentiation through the integration of multi-dimensional data.

Science.gov (United States)

Gong, Wuming; Koyano-Nakagawa, Naoko; Li, Tongbin; Garry, Daniel J

2015-03-07

Decoding the temporal control of gene expression patterns is key to the understanding of the complex mechanisms that govern developmental decisions during heart development. High-throughput methods have been employed to systematically study the dynamic and coordinated nature of cardiac differentiation at the global level with multiple dimensions. Therefore, there is a pressing need to develop a systems approach to integrate these data from individual studies and infer the dynamic regulatory networks in an unbiased fashion. We developed a two-step strategy to integrate data from (1) temporal RNA-seq, (2) temporal histone modification ChIP-seq, (3) transcription factor (TF) ChIP-seq and (4) gene perturbation experiments to reconstruct the dynamic network during heart development. First, we trained a logistic regression model to predict the probability (LR score) of any base being bound by 543 TFs with known positional weight matrices. Second, four dimensions of data were combined using a time-varying dynamic Bayesian network model to infer the dynamic networks at four developmental stages in the mouse [mouse embryonic stem cells (ESCs), mesoderm (MES), cardiac progenitors (CP) and cardiomyocytes (CM)]. Our method not only infers the time-varying networks between different stages of heart development, but it also identifies the TF binding sites associated with promoter or enhancers of downstream genes. The LR scores of experimentally verified ESCs and heart enhancers were significantly higher than random regions (p network inference model identified a region with an elevated LR score approximately -9400 bp upstream of the transcriptional start site of Nkx2-5, which overlapped with a previously reported enhancer region (-9435 to -8922 bp). TFs such as Tead1, Gata4, Msx2, and Tgif1 were predicted to bind to this region and participate in the regulation of Nkx2-5 gene expression. Our model also predicted the key regulatory networks for the ESC-MES, MES-CP and CP

Evaluation of color encodings for high dynamic range pixels

Science.gov (United States)

Boitard, Ronan; Mantiuk, Rafal K.; Pouli, Tania

2015-03-01

Traditional Low Dynamic Range (LDR) color spaces encode a small fraction of the visible color gamut, which does not encompass the range of colors produced on upcoming High Dynamic Range (HDR) displays. Future imaging systems will require encoding much wider color gamut and luminance range. Such wide color gamut can be represented using floating point HDR pixel values but those are inefficient to encode. They also lack perceptual uniformity of the luminance and color distribution, which is provided (in approximation) by most LDR color spaces. Therefore, there is a need to devise an efficient, perceptually uniform and integer valued representation for high dynamic range pixel values. In this paper we evaluate several methods for encoding colour HDR pixel values, in particular for use in image and video compression. Unlike other studies we test both luminance and color difference encoding in a rigorous 4AFC threshold experiments to determine the minimum bit-depth required. Results show that the Perceptual Quantizer (PQ) encoding provides the best perceptual uniformity in the considered luminance range, however the gain in bit-depth is rather modest. More significant difference can be observed between color difference encoding schemes, from which YDuDv encoding seems to be the most efficient.

A High Dynamic-Range Beam Position Measurement System for ELSA-2

CERN Document Server

Balleyguier, P; Guimbal, P; Borrion, H

2003-01-01

New beamlines are presently under construction for ELSA, a 20 MeV electron linac located at Bruyères-le-Châtel. These lines need a beam position measurement system filling the following requirements: small footprint, wide dynamic range, single-bunch/multi-bunch capability, simple design. We designed a compact 4-stripline sensor and an electronic treatment chain based on logarithmic amplifiers. This paper presents the design, cold and hot test results.

High dynamic range imaging sensors and architectures

CERN Document Server

Darmont, Arnaud

2013-01-01

Illumination is a crucial element in many applications, matching the luminance of the scene with the operational range of a camera. When luminance cannot be adequately controlled, a high dynamic range (HDR) imaging system may be necessary. These systems are being increasingly used in automotive on-board systems, road traffic monitoring, and other industrial, security, and military applications. This book provides readers with an intermediate discussion of HDR image sensors and techniques for industrial and non-industrial applications. It describes various sensor and pixel architectures capable

A Dynamic Multi-Level Factor Model with Long-Range Dependence

DEFF Research Database (Denmark)

Ergemen, Yunus Emre; Rodríguez-Caballero, Carlos Vladimir

A dynamic multi-level factor model with stationary or nonstationary global and regional factors is proposed. In the model, persistence in global and regional common factors as well as innovations allows for the study of fractional cointegrating relationships. Estimation of global and regional...

A STEP TOWARDS DYNAMIC SCENE ANALYSIS WITH ACTIVE MULTI-VIEW RANGE IMAGING SYSTEMS

Directory of Open Access Journals (Sweden)

M. Weinmann

2012-07-01

Full Text Available Obtaining an appropriate 3D description of the local environment remains a challenging task in photogrammetric research. As terrestrial laser scanners (TLSs perform a highly accurate, but time-dependent spatial scanning of the local environment, they are only suited for capturing static scenes. In contrast, new types of active sensors provide the possibility of simultaneously capturing range and intensity information by images with a single measurement, and the high frame rate also allows for capturing dynamic scenes. However, due to the limited field of view, one observation is not sufficient to obtain a full scene coverage and therefore, typically, multiple observations are collected from different locations. This can be achieved by either placing several fixed sensors at different known locations or by using a moving sensor. In the latter case, the relation between different observations has to be estimated by using information extracted from the captured data and then, a limited field of view may lead to problems if there are too many moving objects within it. Hence, a moving sensor platform with multiple and coupled sensor devices offers the advantages of an extended field of view which results in a stabilized pose estimation, an improved registration of the recorded point clouds and an improved reconstruction of the scene. In this paper, a new experimental setup for investigating the potentials of such multi-view range imaging systems is presented which consists of a moving cable car equipped with two synchronized range imaging devices. The presented setup allows for monitoring in low altitudes and it is suitable for getting dynamic observations which might arise from moving cars or from moving pedestrians. Relying on both 3D geometry and 2D imagery, a reliable and fully automatic approach for co-registration of captured point cloud data is presented which is essential for a high quality of all subsequent tasks. The approach involves using

A high-throughput method for GMO multi-detection using a microfluidic dynamic array.

Science.gov (United States)

Brod, Fábio Cristiano Angonesi; van Dijk, Jeroen P; Voorhuijzen, Marleen M; Dinon, Andréia Zilio; Guimarães, Luis Henrique S; Scholtens, Ingrid M J; Arisi, Ana Carolina Maisonnave; Kok, Esther J

2014-02-01

The ever-increasing production of genetically modified crops generates a demand for high-throughput DNA-based methods for the enforcement of genetically modified organisms (GMO) labelling requirements. The application of standard real-time PCR will become increasingly costly with the growth of the number of GMOs that is potentially present in an individual sample. The present work presents the results of an innovative approach in genetically modified crops analysis by DNA based methods, which is the use of a microfluidic dynamic array as a high throughput multi-detection system. In order to evaluate the system, six test samples with an increasing degree of complexity were prepared, preamplified and subsequently analysed in the Fluidigm system. Twenty-eight assays targeting different DNA elements, GM events and species-specific reference genes were used in the experiment. The large majority of the assays tested presented expected results. The power of low level detection was assessed and elements present at concentrations as low as 0.06 % were successfully detected. The approach proposed in this work presents the Fluidigm system as a suitable and promising platform for GMO multi-detection.

High Dynamic Range Imaging at the Quantum Limit with Single Photon Avalanche Diode-Based Image Sensors †

Science.gov (United States)

Mattioli Della Rocca, Francescopaolo

2018-01-01

This paper examines methods to best exploit the High Dynamic Range (HDR) of the single photon avalanche diode (SPAD) in a high fill-factor HDR photon counting pixel that is scalable to megapixel arrays. The proposed method combines multi-exposure HDR with temporal oversampling in-pixel. We present a silicon demonstration IC with 96 × 40 array of 8.25 µm pitch 66% fill-factor SPAD-based pixels achieving >100 dB dynamic range with 3 back-to-back exposures (short, mid, long). Each pixel sums 15 bit-planes or binary field images internally to constitute one frame providing 3.75× data compression, hence the 1k frames per second (FPS) output off-chip represents 45,000 individual field images per second on chip. Two future projections of this work are described: scaling SPAD-based image sensors to HDR 1 MPixel formats and shrinking the pixel pitch to 1–3 µm. PMID:29641479

OTDM Networking for Short Range High-Capacity Highly Dynamic Networks

DEFF Research Database (Denmark)

Medhin, Ashenafi Kiros

This PhD thesis aims at investigating the possibility of designing energy-efficient high-capacity (up to Tbit/s) optical network scenarios, leveraging on the effect of collective switching of many bits simultaneously, as is inherent in high bit rate serial optical data signals. The focus...... is on short range highly dynamic networks, catering to data center needs. The investigation concerns optical network scenarios, and experimental implementations of high bit rate serial data packet generation and reception, scalable optical packet labeling, simple optical label extraction and stable ultra...

Image Alignment for Multiple Camera High Dynamic Range Microscopy.

Science.gov (United States)

Eastwood, Brian S; Childs, Elisabeth C

2012-01-09

This paper investigates the problem of image alignment for multiple camera high dynamic range (HDR) imaging. HDR imaging combines information from images taken with different exposure settings. Combining information from multiple cameras requires an alignment process that is robust to the intensity differences in the images. HDR applications that use a limited number of component images require an alignment technique that is robust to large exposure differences. We evaluate the suitability for HDR alignment of three exposure-robust techniques. We conclude that image alignment based on matching feature descriptors extracted from radiant power images from calibrated cameras yields the most accurate and robust solution. We demonstrate the use of this alignment technique in a high dynamic range video microscope that enables live specimen imaging with a greater level of detail than can be captured with a single camera.

Non-equilibrium QCD of high-energy multi-gluon dynamics

International Nuclear Information System (INIS)

Geiger, K.

1996-01-01

A non-equilibrium QCD description of multiparticle dynamics in space-time is of both fundamental and phenomenological interest. Here the authors discusses an attempt to derive from first principles, a real-time formalism to study the dynamical interplay of quantum and statistical-kinetic properties of non-equilibrium multi-parton systems produced in high-energy QCD processes. The ultimate goal (from which one is still far away) is to have a practically applicable description of the space-time evolution of a general initial system of gluons and quarks, characterized by some large energy or momentum scale, that expands, diffuses and dissipates according to the self- and mutual-interactions, and eventually converts dynamically into final state hadrons. For example, the evolution of parton showers in the mechanism of parton-hadron conversion in high-energy hadronic collisions, or, the description of formation, evolution and freezeout of a quark-gluon plasma, in ultra-relativistic heavy-ion collisions

Gamut mapping in a high-dynamic-range color space

Science.gov (United States)

Preiss, Jens; Fairchild, Mark D.; Ferwerda, James A.; Urban, Philipp

2014-01-01

In this paper, we present a novel approach of tone mapping as gamut mapping in a high-dynamic-range (HDR) color space. High- and low-dynamic-range (LDR) images as well as device gamut boundaries can simultaneously be represented within such a color space. This enables a unified transformation of the HDR image into the gamut of an output device (in this paper called HDR gamut mapping). An additional aim of this paper is to investigate the suitability of a specific HDR color space to serve as a working color space for the proposed HDR gamut mapping. For the HDR gamut mapping, we use a recent approach that iteratively minimizes an image-difference metric subject to in-gamut images. A psychophysical experiment on an HDR display shows that the standard reproduction workflow of two subsequent transformations - tone mapping and then gamut mapping - may be improved by HDR gamut mapping.

A Dynamic Range Enhanced Readout Technique with a Two-Step TDC for High Speed Linear CMOS Image Sensors

Directory of Open Access Journals (Sweden)

Zhiyuan Gao

2015-11-01

Full Text Available This paper presents a dynamic range (DR enhanced readout technique with a two-step time-to-digital converter (TDC for high speed linear CMOS image sensors. A multi-capacitor and self-regulated capacitive trans-impedance amplifier (CTIA structure is employed to extend the dynamic range. The gain of the CTIA is auto adjusted by switching different capacitors to the integration node asynchronously according to the output voltage. A column-parallel ADC based on a two-step TDC is utilized to improve the conversion rate. The conversion is divided into coarse phase and fine phase. An error calibration scheme is also proposed to correct quantization errors caused by propagation delay skew within −Tclk~+Tclk. A linear CMOS image sensor pixel array is designed in the 0.13 μm CMOS process to verify this DR-enhanced high speed readout technique. The post simulation results indicate that the dynamic range of readout circuit is 99.02 dB and the ADC achieves 60.22 dB SNDR and 9.71 bit ENOB at a conversion rate of 2 MS/s after calibration, with 14.04 dB and 2.4 bit improvement, compared with SNDR and ENOB of that without calibration.

Hierarchical tone mapping for high dynamic range image visualization

Science.gov (United States)

Qiu, Guoping; Duan, Jiang

2005-07-01

In this paper, we present a computationally efficient, practically easy to use tone mapping techniques for the visualization of high dynamic range (HDR) images in low dynamic range (LDR) reproduction devices. The new method, termed hierarchical nonlinear linear (HNL) tone-mapping operator maps the pixels in two hierarchical steps. The first step allocates appropriate numbers of LDR display levels to different HDR intensity intervals according to the pixel densities of the intervals. The second step linearly maps the HDR intensity intervals to theirs allocated LDR display levels. In the developed HNL scheme, the assignment of LDR display levels to HDR intensity intervals is controlled by a very simple and flexible formula with a single adjustable parameter. We also show that our new operators can be used for the effective enhancement of ordinary images.

A high speed, wide dynamic range digitizer circuit for photomultiplier tubes

Energy Technology Data Exchange (ETDEWEB)

Yarema, R.J.; Foster, G.W.; Knickerbocker, K.; Sarraj, M.; Tschirhart, R.; Whitmore, J.; Zimmerman, T. [Fermi National Accelerator Lab., Batavia, IL (United States); Lindgren, M. [Univ. of California, Los Angeles, CA (United States). Physics Dept.

1994-06-01

High energy physics experiments running at high interaction rates frequently require long record lengths for determining a level 1 trigger. The easiest way to provide a long event record is by digital means. In applications requiring wide dynamic range, however, digitization of an analog signal to obtain the digital record has been impossible due to lack of high speed, wide range FADCs. One such application is the readout of thousands of photomultiplier tubes in fixed target and colliding beam experiment calorimeters. A circuit has been designed for digitizing PMT signals over a wide dynamic range (17--18 bits) with 8 bits of resolution at rates up to 53 MHz. Output from the circuit is in a floating point format with a 4 bit exponent and an 8 bit mantissa. The heart of the circuit is a full custom integrated circuit called the QIE (Charge Integrator and Encoder). The design of the QIE and associated circuitry reported here permits operation over a 17 bit dynamic range. Tests of the circuit with a PMT input and a pulsed laser have provided respectable results with little off line correction. Performance of the circuit for demanding applications can be significantly enhanced with additional off line correction. Circuit design, packaging issues, and test results of a multirange device are presented for the first time.

A high speed, wide dynamic range digitizer circuit for photomultiplier tubes

International Nuclear Information System (INIS)

Yarema, R.J.; Foster, G.W.; Knickerbocker, K.; Sarraj, M.; Tschirhart, R.; Whitmore, J.; Zimmerman, T.; Lindgren, M.

1994-06-01

High energy physics experiments running at high interaction rates frequently require long record lengths for determining a level 1 trigger. The easiest way to provide a long event record is by digital means. In applications requiring wide dynamic range, however, digitization of an analog signal to obtain the digital record has been impossible due to lack of high speed, wide range FADCs. One such application is the readout of thousands of photomultiplier tubes in fixed target and colliding beam experiment calorimeters. A circuit has been designed for digitizing PMT signals over a wide dynamic range (17--18 bits) with 8 bits of resolution at rates up to 53 MHz. Output from the circuit is in a floating point format with a 4 bit exponent and an 8 bit mantissa. The heart of the circuit is a full custom integrated circuit called the QIE (Charge Integrator and Encoder). The design of the QIE and associated circuitry reported here permits operation over a 17 bit dynamic range. Tests of the circuit with a PMT input and a pulsed laser have provided respectable results with little off line correction. Performance of the circuit for demanding applications can be significantly enhanced with additional off line correction. Circuit design, packaging issues, and test results of a multirange device are presented for the first time

Dynamic Gesture Recognition with a Terahertz Radar Based on Range Profile Sequences and Doppler Signatures.

Science.gov (United States)

Zhou, Zhi; Cao, Zongjie; Pi, Yiming

2017-12-21

The frequency of terahertz radar ranges from 0.1 THz to 10 THz, which is higher than that of microwaves. Multi-modal signals, including high-resolution range profile (HRRP) and Doppler signatures, can be acquired by the terahertz radar system. These two kinds of information are commonly used in automatic target recognition; however, dynamic gesture recognition is rarely discussed in the terahertz regime. In this paper, a dynamic gesture recognition system using a terahertz radar is proposed, based on multi-modal signals. The HRRP sequences and Doppler signatures were first achieved from the radar echoes. Considering the electromagnetic scattering characteristics, a feature extraction model is designed using location parameter estimation of scattering centers. Dynamic Time Warping (DTW) extended to multi-modal signals is used to accomplish the classifications. Ten types of gesture signals, collected from a terahertz radar, are applied to validate the analysis and the recognition system. The results of the experiment indicate that the recognition rate reaches more than 91%. This research verifies the potential applications of dynamic gesture recognition using a terahertz radar.

The high dynamic range pixel array detector (HDR-PAD): Concept and design

Energy Technology Data Exchange (ETDEWEB)

Shanks, Katherine S.; Philipp, Hugh T.; Weiss, Joel T.; Becker, Julian; Tate, Mark W. [Laboratory of Atomic and Solid State Physics, Cornell University, Ithaca, NY 14853 (United States); Gruner, Sol M., E-mail: smg26@cornell.edu [Laboratory of Atomic and Solid State Physics, Cornell University, Ithaca, NY 14853 (United States); Cornell High Energy Synchrotron Source (CHESS), Cornell University, Ithaca, NY 14853 (United States)

2016-07-27

Experiments at storage ring light sources as well as at next-generation light sources increasingly require detectors capable of high dynamic range operation, combining low-noise detection of single photons with large pixel well depth. XFEL sources in particular provide pulse intensities sufficiently high that a purely photon-counting approach is impractical. The High Dynamic Range Pixel Array Detector (HDR-PAD) project aims to provide a dynamic range extending from single-photon sensitivity to 10{sup 6} photons/pixel in a single XFEL pulse while maintaining the ability to tolerate a sustained flux of 10{sup 11} ph/s/pixel at a storage ring source. Achieving these goals involves the development of fast pixel front-end electronics as well as, in the XFEL case, leveraging the delayed charge collection due to plasma effects in the sensor. A first prototype of essential electronic components of the HDR-PAD readout ASIC, exploring different options for the pixel front-end, has been fabricated. Here, the HDR-PAD concept and preliminary design will be described.

High Dynamic Range adaptive ΔΣ-based Focal Plane Array architecture

KAUST Repository

Yao, Shun; Kavusi, Sam; Salama, Khaled N.

2012-01-01

In this paper, an Adaptive Delta-Sigma based architecture for High Dynamic Range (HDR) Focal Plane Arrays is presented. The noise shaping effect of the Delta-Sigma modulation in the low end, and the distortion noise induced in the high end of Photo

A Low-Power High-Dynamic-Range Receiver System for In-Probe 3-D Ultrasonic Imaging.

Science.gov (United States)

Attarzadeh, Hourieh; Xu, Ye; Ytterdal, Trond

2017-10-01

In this paper, a dual-mode low-power, high dynamic-range receiver circuit is designed for the interface with a capacitive micromachined ultrasonic transducer. The proposed ultrasound receiver chip enables the development of an in-probe digital beamforming imaging system. The flexibility of having two operation modes offers a high dynamic range with minimum power sacrifice. A prototype of the chip containing one receive channel, with one variable transimpedance amplifier (TIA) and one analog to digital converter (ADC) circuit is implemented. Combining variable gain TIA functionality with ADC gain settings achieves an enhanced overall high dynamic range, while low power dissipation is maintained. The chip is designed and fabricated in a 65 nm standard CMOS process technology. The test chip occupies an area of 76[Formula: see text] 170 [Formula: see text]. A total average power range of 60-240 [Formula: see text] for a sampling frequency of 30 MHz, and a center frequency of 5 MHz is measured. An instantaneous dynamic range of 50.5 dB with an overall dynamic range of 72 dB is obtained from the receiver circuit.

Note: A high dynamic range, linear response transimpedance amplifier.

Science.gov (United States)

Eckel, S; Sushkov, A O; Lamoreaux, S K

2012-02-01

We have built a high dynamic range (nine decade) transimpedance amplifier with a linear response. The amplifier uses junction-gate field effect transistors (JFETs) to switch between three different resistors in the feedback of a low input bias current operational amplifier. This allows for the creation of multiple outputs, each with a linear response and a different transimpedance gain. The overall bandwidth of the transimpedance amplifier is set by the bandwidth of the most sensitive range. For our application, we demonstrate a three-stage amplifier with transimpedance gains of approximately 10(9)Ω, 3 × 10(7)Ω, and 10(4)Ω with a bandwidth of 100 Hz.

Image Alignment for Multiple Camera High Dynamic Range Microscopy

OpenAIRE

Eastwood, Brian S.; Childs, Elisabeth C.

2012-01-01

This paper investigates the problem of image alignment for multiple camera high dynamic range (HDR) imaging. HDR imaging combines information from images taken with different exposure settings. Combining information from multiple cameras requires an alignment process that is robust to the intensity differences in the images. HDR applications that use a limited number of component images require an alignment technique that is robust to large exposure differences. We evaluate the suitability fo...

Usefulness of multi-plane dynamic subtraction CT (MPDS-CT) for intracranial high density lesions

Energy Technology Data Exchange (ETDEWEB)

Takagi, Ryo; Kumazaki, Tatsuo [Nippon Medical School, Tokyo (Japan)

1996-02-01

We present a new CT technique using the high speed CT scanner in detection and evaluation of temporal and spatial contrast enhancement of intracranial high density lesions. A multi-plane dynamic subtraction CT (MPDS-CT) was performed in 21 patients with intracranial high density lesions. These lesions consisted of 10 brain tumors, 7 intracerebral hemorrhages and 4 vascular malformations (2 untreated, 2 post-embolization). Baseline study was first performed, and 5 sequential planes of covering total high density lesions were selected. After obtaining the 5 sequential CT images as mask images, three series of multi-plane dynamic CT were performed for the same 5 planes with an intravenous bolus injection of contrast medium. MPDS-CT images were reconstructed by subtracting dynamic CT images from the mask ones. MPDS-CT were compared with conventional contrast-enhanced CT. MPDS-CT images showed the definite contrast enhancement of high density brain tumors and vascular malformations which were not clearly identified on conventional contrast-enhanced CT images because of calcified or hemorrhagic lesions and embolic materials, enabling us to eliminate enhanced abnormalities with non-enhanced areas such as unusual intracerebral hemorrhages. MPDS-CT will provide us further accurate and objective information and will be greatly helpful for interpreting pathophysiologic condition. (author).

NuChart: an R package to study gene spatial neighbourhoods with multi-omics annotations.

Directory of Open Access Journals (Sweden)

Ivan Merelli

Full Text Available Long-range chromosomal associations between genomic regions, and their repositioning in the 3D space of the nucleus, are now considered to be key contributors to the regulation of gene expression and important links have been highlighted with other genomic features involved in DNA rearrangements. Recent Chromosome Conformation Capture (3C measurements performed with high throughput sequencing (Hi-C and molecular dynamics studies show that there is a large correlation between colocalization and coregulation of genes, but these important researches are hampered by the lack of biologists-friendly analysis and visualisation software. Here, we describe NuChart, an R package that allows the user to annotate and statistically analyse a list of input genes with information relying on Hi-C data, integrating knowledge about genomic features that are involved in the chromosome spatial organization. NuChart works directly with sequenced reads to identify the related Hi-C fragments, with the aim of creating gene-centric neighbourhood graphs on which multi-omics features can be mapped. Predictions about CTCF binding sites, isochores and cryptic Recombination Signal Sequences are provided directly with the package for mapping, although other annotation data in bed format can be used (such as methylation profiles and histone patterns. Gene expression data can be automatically retrieved and processed from the Gene Expression Omnibus and ArrayExpress repositories to highlight the expression profile of genes in the identified neighbourhood. Moreover, statistical inferences about the graph structure and correlations between its topology and multi-omics features can be performed using Exponential-family Random Graph Models. The Hi-C fragment visualisation provided by NuChart allows the comparisons of cells in different conditions, thus providing the possibility of novel biomarkers identification. NuChart is compliant with the Bioconductor standard and it is freely

A high linearity current mode multiplier/divider with a wide dynamic range

International Nuclear Information System (INIS)

Liao Pengfei; Luo Ping; Zhang Bo; Li Zhaoji

2012-01-01

A high linearity current mode multiplier/divider (CMM/D) with a wide dynamic range is presented. The proposed CMM/D is based on the voltage—current characteristic of the diode, thus wide dynamic range is achieved. In addition, high linearity is achieved because high accuracy current mirrors are adopted and the output current is insensitive to the temperature and device parameters of the fabrication process. Furthermore, no extra bias current for all input signals is required and thus power saving is realized. With proper selection of establishing the input terminal, the proposed circuit can perform as a multifunction circuit to be operated as a multiplier/divider, without changing its topology. The proposed circuit is implemented in a 0.25 μm BCD process and the chip area is 0.26 × 0.24 mm 2 . The simulation and measurement results show that the maximum static linearity error is ±1.8% and the total harmonic distortion is 0.4% while the input current ranges from 0 to 200 μA. (semiconductor integrated circuits)

Robust image registration for multiple exposure high dynamic range image synthesis

Science.gov (United States)

Yao, Susu

2011-03-01

Image registration is an important preprocessing technique in high dynamic range (HDR) image synthesis. This paper proposed a robust image registration method for aligning a group of low dynamic range images (LDR) that are captured with different exposure times. Illumination change and photometric distortion between two images would result in inaccurate registration. We propose to transform intensity image data into phase congruency to eliminate the effect of the changes in image brightness and use phase cross correlation in the Fourier transform domain to perform image registration. Considering the presence of non-overlapped regions due to photometric distortion, evolutionary programming is applied to search for the accurate translation parameters so that the accuracy of registration is able to be achieved at a hundredth of a pixel level. The proposed algorithm works well for under and over-exposed image registration. It has been applied to align LDR images for synthesizing high quality HDR images..

In-Vivo High Dynamic Range Vector Flow Imaging

DEFF Research Database (Denmark)

Villagómez Hoyos, Carlos Armando; Stuart, Matthias Bo; Jensen, Jørgen Arendt

2015-01-01

example with a high dynamic velocity range. Velocities with an order of magnitude apart are detected on the femoral artery of a 41 years old healthy individual. Three distinct heart cycles are captured during a 3 secs acquisition. The estimated vector velocities are compared against each other within...... the heart cycle. The relative standard deviation of the measured velocity magnitude between the three peak systoles was found to be 5.11% with a standard deviation on the detected angle of 1.06◦ . In the diastole, it was 1.46% and 6.18◦ , respectively. Results proves that the method is able to estimate flow...

A highly sensitive RF-to-DC power converter with an extended dynamic range

KAUST Repository

Almansouri, Abdullah Saud Mohammed

2017-10-24

This paper proposes a highly sensitive RF-to-DC power converter with an extended dynamic range that is designed to operate at the medical band 433 MHz and simulated using 0.18 μm CMOS technology. Compared to the conventional fully cross-coupled rectifier, the proposed design offers 3.2× the dynamic range. It is also highly sensitive and requires −18 dBm of input power to produce a 1 V-output voltage when operating with a 100 kΩ load. Furthermore, the proposed design offers an open circuit sensitivity of −23.4 dBm and a peak power conversion efficiency of 67%.

Elastic dynamic research of high speed multi-link precision press considering structural stiffness of rotation joints

Energy Technology Data Exchange (ETDEWEB)

Hu, Feng Feng; Sun, Yu; Peng, Bin Bin [School of Mechanical Engineering, Nanjing University of Science and Technology, Nanjing (China)

2016-10-15

An elastic dynamic model of high-speed multi-link precision press considering structural stiffness of rotation joints was established by the finite element method. In the finite element model, rotation joint was established by four bar elements with equivalent stiffness, and connected link was established by beam element. Then, the elastic dynamics equation of the system was established, and modal superposition method was used to solve the dynamic response. Compared with the traditional elastic dynamic model with perfect constraint of the rotation joints, the elastic dynamic response value of the improved model is larger. To validate the presented new method of elastic dynamics analysis with stiffness of rotation joints, a related test of slider Bottom dead center (BDC) position in different speed was designed. The test shows that the model with stiffness of rotation joints is more reasonable. So it provides a reasonable theory and method for dynamic characteristics research of such a multi-link machine.

A high gain wide dynamic range transimpedance amplifier for optical receivers

International Nuclear Information System (INIS)

Liu Lianxi; Zou Jiao; Liu Shubin; Niu Yue; Zhu Zhangming; Yang Yintang; En Yunfei

2014-01-01

As the front-end preamplifiers in optical receivers, transimpedance amplifiers (TIAs) are commonly required to have a high gain and low input noise to amplify the weak and susceptible input signal. At the same time, the TIAs should possess a wide dynamic range (DR) to prevent the circuit from becoming saturated by high input currents. Based on the above, this paper presents a CMOS transimpedance amplifier with high gain and a wide DR for 2.5 Gbit/s communications. The TIA proposed consists of a three-stage cascade pull push inverter, an automatic gain control circuit, and a shunt transistor controlled by the resistive divider. The inductive-series peaking technique is used to further extend the bandwidth. The TIA proposed displays a maximum transimpedance gain of 88.3 dBΩ with the −3 dB bandwidth of 1.8 GHz, exhibits an input current dynamic range from 100 nA to 10 mA. The output voltage noise is less than 48.23 nV/√Hz within the −3 dB bandwidth. The circuit is fabricated using an SMIC 0.18 μm 1P6M RFCMOS process and dissipates a dc power of 9.4 mW with 1.8 V supply voltage. (semiconductor integrated circuits)

Implementing Molecular Dynamics for Hybrid High Performance Computers - 1. Short Range Forces

International Nuclear Information System (INIS)

Brown, W. Michael; Wang, Peng; Plimpton, Steven J.; Tharrington, Arnold N.

2011-01-01

The use of accelerators such as general-purpose graphics processing units (GPGPUs) have become popular in scientific computing applications due to their low cost, impressive floating-point capabilities, high memory bandwidth, and low electrical power requirements. Hybrid high performance computers, machines with more than one type of floating-point processor, are now becoming more prevalent due to these advantages. In this work, we discuss several important issues in porting a large molecular dynamics code for use on parallel hybrid machines - (1) choosing a hybrid parallel decomposition that works on central processing units (CPUs) with distributed memory and accelerator cores with shared memory, (2) minimizing the amount of code that must be ported for efficient acceleration, (3) utilizing the available processing power from both many-core CPUs and accelerators, and (4) choosing a programming model for acceleration. We present our solution to each of these issues for short-range force calculation in the molecular dynamics package LAMMPS. We describe algorithms for efficient short range force calculation on hybrid high performance machines. We describe a new approach for dynamic load balancing of work between CPU and accelerator cores. We describe the Geryon library that allows a single code to compile with both CUDA and OpenCL for use on a variety of accelerators. Finally, we present results on a parallel test cluster containing 32 Fermi GPGPUs and 180 CPU cores.

Stereo Vision-Based High Dynamic Range Imaging Using Differently-Exposed Image Pair

Directory of Open Access Journals (Sweden)

Won-Jae Park

2017-06-01

Full Text Available In this paper, a high dynamic range (HDR imaging method based on the stereo vision system is presented. The proposed method uses differently exposed low dynamic range (LDR images captured from a stereo camera. The stereo LDR images are first converted to initial stereo HDR images using the inverse camera response function estimated from the LDR images. However, due to the limited dynamic range of the stereo LDR camera, the radiance values in under/over-exposed regions of the initial main-view (MV HDR image can be lost. To restore these radiance values, the proposed stereo matching and hole-filling algorithms are applied to the stereo HDR images. Specifically, the auxiliary-view (AV HDR image is warped by using the estimated disparity between initial the stereo HDR images and then effective hole-filling is applied to the warped AV HDR image. To reconstruct the final MV HDR, the warped and hole-filled AV HDR image is fused with the initial MV HDR image using the weight map. The experimental results demonstrate objectively and subjectively that the proposed stereo HDR imaging method provides better performance compared to the conventional method.

Multi-input wide dynamic range ADC system for use with nuclear detectors

Energy Technology Data Exchange (ETDEWEB)

Austin, R W [National Aeronautics and Space Administration, Huntsville, Ala. (USA). George C. Marshall Space Flight Center

1976-04-15

A wide dynamic range, eight input analog-to-digital converter system has been developed for use in nuclear experiments. The system consists of eight dual-range sample and hold modules, an eight input multiplexer, a ten-bit analog-to-digital converter, and the associated control logic.

High speed display algorithm for 3D medical images using Multi Layer Range Image

International Nuclear Information System (INIS)

Ban, Hideyuki; Suzuki, Ryuuichi

1993-01-01

We propose high speed algorithm that display 3D voxel images obtained from medical imaging systems such as MRI. This algorithm convert voxel image data to 6 Multi Layer Range Image (MLRI) data, which is an augmentation of the range image data. To avoid the calculation for invisible voxels, the algorithm selects at most 3 MLRI data from 6 in accordance with the view direction. The proposed algorithm displays 256 x 256 x 256 voxel data within 0.6 seconds using 22 MIPS Workstation without a special hardware such as Graphics Engine. Real-time display will be possible on 100 MIPS class Workstation by our algorithm. (author)

Population structuring of multi-copy, antigen-encoding genes in Plasmodium falciparum

Science.gov (United States)

Artzy-Randrup, Yael; Rorick, Mary M; Day, Karen; Chen, Donald; Dobson, Andrew P; Pascual, Mercedes

2012-01-01

The coexistence of multiple independently circulating strains in pathogen populations that undergo sexual recombination is a central question of epidemiology with profound implications for control. An agent-based model is developed that extends earlier ‘strain theory’ by addressing the var gene family of Plasmodium falciparum. The model explicitly considers the extensive diversity of multi-copy genes that undergo antigenic variation via sequential, mutually exclusive expression. It tracks the dynamics of all unique var repertoires in a population of hosts, and shows that even under high levels of sexual recombination, strain competition mediated through cross-immunity structures the parasite population into a subset of coexisting dominant repertoires of var genes whose degree of antigenic overlap depends on transmission intensity. Empirical comparison of patterns of genetic variation at antigenic and neutral sites supports this role for immune selection in structuring parasite diversity. DOI: http://dx.doi.org/10.7554/eLife.00093.001 PMID:23251784

High Dynamic Range adaptive ΔΣ-based Focal Plane Array architecture

KAUST Repository

Yao, Shun

2012-10-16

In this paper, an Adaptive Delta-Sigma based architecture for High Dynamic Range (HDR) Focal Plane Arrays is presented. The noise shaping effect of the Delta-Sigma modulation in the low end, and the distortion noise induced in the high end of Photo-diode current were analyzed in detail. The proposed architecture can extend the DR for about 20N log2 dB at the high end of Photo-diode current with an N bit Up-Down counter. At the low end, it can compensate for the larger readout noise by employing Extended Counting. The Adaptive Delta-Sigma architecture employing a 4-bit Up-Down counter achieved about 160dB in the DR, with a Peak SNR (PSNR) of 80dB at the high end. Compared to the other HDR architectures, the Adaptive Delta-Sigma based architecture provides the widest DR with the best SNR performance in the extended range.

Extensive lineage-specific gene duplication and evolution of the spiggin multi-gene family in stickleback

Directory of Open Access Journals (Sweden)

Nishida Mutsumi

2007-11-01

Full Text Available Abstract Background The threespine stickleback (Gasterosteus aculeatus has a characteristic reproductive mode; mature males build nests using a secreted glue-like protein called spiggin. Although recent studies reported multiple occurrences of genes that encode this glue-like protein spiggin in threespine and ninespine sticklebacks, it is still unclear how many genes compose the spiggin multi-gene family. Results Genome sequence analysis of threespine stickleback showed that there are at least five spiggin genes and two pseudogenes, whereas a single spiggin homolog occurs in the genomes of other fishes. Comparative genome sequence analysis demonstrated that Muc19, a single-copy mucous gene in human and mouse, is an ortholog of spiggin. Phylogenetic and molecular evolutionary analyses of these sequences suggested that an ancestral spiggin gene originated from a member of the mucin gene family as a single gene in the common ancestor of teleosts, and gene duplications of spiggin have occurred in the stickleback lineage. There was inter-population variation in the copy number of spiggin genes and positive selection on some codons, indicating that additional gene duplication/deletion events and adaptive evolution at some amino acid sites may have occurred in each stickleback population. Conclusion A number of spiggin genes exist in the threespine stickleback genome. Our results provide insight into the origin and dynamic evolutionary process of the spiggin multi-gene family in the threespine stickleback lineage. The dramatic evolution of genes for mucous substrates may have contributed to the generation of distinct characteristics such as "bio-glue" in vertebrates.

Context-dependent JPEG backward-compatible high-dynamic range image compression

Science.gov (United States)

Korshunov, Pavel; Ebrahimi, Touradj

2013-10-01

High-dynamic range (HDR) imaging is expected, together with ultrahigh definition and high-frame rate video, to become a technology that may change photo, TV, and film industries. Many cameras and displays capable of capturing and rendering both HDR images and video are already available in the market. The popularity and full-public adoption of HDR content is, however, hindered by the lack of standards in evaluation of quality, file formats, and compression, as well as large legacy base of low-dynamic range (LDR) displays that are unable to render HDR. To facilitate the wide spread of HDR usage, the backward compatibility of HDR with commonly used legacy technologies for storage, rendering, and compression of video and images are necessary. Although many tone-mapping algorithms are developed for generating viewable LDR content from HDR, there is no consensus of which algorithm to use and under which conditions. We, via a series of subjective evaluations, demonstrate the dependency of the perceptual quality of the tone-mapped LDR images on the context: environmental factors, display parameters, and image content itself. Based on the results of subjective tests, it proposes to extend JPEG file format, the most popular image format, in a backward compatible manner to deal with HDR images also. An architecture to achieve such backward compatibility with JPEG is proposed. A simple implementation of lossy compression demonstrates the efficiency of the proposed architecture compared with the state-of-the-art HDR image compression.

An objective method for High Dynamic Range source content selection

DEFF Research Database (Denmark)

Narwaria, Manish; Mantel, Claire; Da Silva, Matthieu Perreira

2014-01-01

With the aim of improving the immersive experience of the end user, High Dynamic Range (HDR) imaging has been gaining popularity. Therefore, proper validation and performance benchmarking of HDR processing algorithms is a key step towards standardization and commercial deployment. A crucial...... component of such validation studies is the selection of a challenging and balanced set of source (reference) HDR content. In order to facilitate this, we present an objective method based on the premise that a more challenging HDR scene encapsulates higher contrast, and as a result will show up more...

A highly sensitive RF-to-DC power converter with an extended dynamic range

KAUST Repository

Almansouri, Abdullah Saud Mohammed; Ouda, Mahmoud H.; Salama, Khaled N.

2017-01-01

This paper proposes a highly sensitive RF-to-DC power converter with an extended dynamic range that is designed to operate at the medical band 433 MHz and simulated using 0.18 μm CMOS technology. Compared to the conventional fully cross

Intrinsic vs. spurious long-range memory in high-frequency records of environmental radioactivity

International Nuclear Information System (INIS)

Donner, R.V.; Potirakis, S.M.; Barbosa, S.M.; Matos, J.A.O.; Pereira, A.J.S.C.; Neves, L.J.M.F.

2015-01-01

The presence or absence of long-range correlations in the environmental radioactivity fluctuations has recently attracted considerable interest. Among a multiplicity of practically relevant applications, identifying and disentangling the environmental factors controlling the variable concentrations of the radioactive noble gas radon is important for estimating its effect on human health and the efficiency of possible measures for reducing the corresponding exposition. In this work, we present a critical re-assessment of a multiplicity of complementary methods that have been previously applied for evaluating the presence of long-range correlations and fractal scaling in environmental radon variations with a particular focus on the specific properties of the underlying time series. As an illustrative case study, we subsequently re-analyze two high-frequency records of indoor radon concentrations from Coimbra, Portugal, each of which spans several weeks of continuous measurements at a high temporal resolution of five minutes. Our results reveal that at the study site, radon concentrations exhibit complex multi-scale dynamics with qualitatively different properties at different time-scales: (i) essentially white noise in the high-frequency part (up to time-scales of about one hour), (ii) spurious indications of a non-stationary, apparently long-range correlated process (at time scales between some hours and one day) arising from marked periodic components, and (iii) low-frequency variability indicating a true long-range dependent process. In the presence of such multi-scale variability, common estimators of long-range memory in time series are prone to fail if applied to the raw data without previous separation of time-scales with qualitatively different dynamics. (authors)

Dynamical decoupling sequences for multi-qubit dephasing suppression and long-time quantum memory

International Nuclear Information System (INIS)

Paz-Silva, Gerardo A; Lee, Seung-Woo; Green, Todd J; Viola, Lorenza

2016-01-01

We consider a class of multi-qubit dephasing models that combine classical noise sources and linear coupling to a bosonic environment, and are controlled by arbitrary sequences of dynamical decoupling pulses. Building on a general transfer filter-function framework for open-loop control, we provide an exact representation of the controlled dynamics for arbitrary stationary non-Gaussian classical and quantum noise statistics, with analytical expressions emerging when all dephasing sources are Gaussian. This exact characterization is used to establish two main results. First, we construct multi-qubit sequences that ensure maximum high-order error suppression in both the time and frequency domain and that can be exponentially more efficient than existing ones in terms of total pulse number. Next, we show how long-time multi-qubit storage may be achieved by meeting appropriate conditions for the emergence of a fidelity plateau under sequence repetition, thereby generalizing recent results for single-qubit memory under Gaussian dephasing. In both scenarios, the key step is to endow multi-qubit sequences with a suitable displacement anti-symmetry property, which is of independent interest for applications ranging from environment-assisted entanglement generation to multi-qubit noise spectroscopy protocols. (paper)

Dynamic Range Enhancement of High-Speed Electrical Signal Data via Non-Linear Compression

Science.gov (United States)

Laun, Matthew C. (Inventor)

2016-01-01

Systems and methods for high-speed compression of dynamic electrical signal waveforms to extend the measuring capabilities of conventional measuring devices such as oscilloscopes and high-speed data acquisition systems are discussed. Transfer function components and algorithmic transfer functions can be used to accurately measure signals that are within the frequency bandwidth but beyond the voltage range and voltage resolution capabilities of the measuring device.

High Precision Sunphotometer using Wide Dynamic Range (WDR) Camera Tracking

Science.gov (United States)

Liss, J.; Dunagan, S. E.; Johnson, R. R.; Chang, C. S.; LeBlanc, S. E.; Shinozuka, Y.; Redemann, J.; Flynn, C. J.; Segal-Rosenhaimer, M.; Pistone, K.; Kacenelenbogen, M. S.; Fahey, L.

2016-12-01

High Precision Sunphotometer using Wide Dynamic Range (WDR) Camera TrackingThe NASA Ames Sun-photometer-Satellite Group, DOE, PNNL Atmospheric Sciences and Global Change Division, and NASA Goddard's AERONET (AErosol RObotic NETwork) team recently collaborated on the development of a new airborne sunphotometry instrument that provides information on gases and aerosols extending far beyond what can be derived from discrete-channel direct-beam measurements, while preserving or enhancing many of the desirable AATS features (e.g., compactness, versatility, automation, reliability). The enhanced instrument combines the sun-tracking ability of the current 14-Channel NASA Ames AATS-14 with the sky-scanning ability of the ground-based AERONET Sun/sky photometers, while extending both AATS-14 and AERONET capabilities by providing full spectral information from the UV (350 nm) to the SWIR (1,700 nm). Strengths of this measurement approach include many more wavelengths (isolated from gas absorption features) that may be used to characterize aerosols and detailed (oversampled) measurements of the absorption features of specific gas constituents. The Sky Scanning Sun Tracking Airborne Radiometer (3STAR) replicates the radiometer functionality of the AATS-14 instrument but incorporates modern COTS technologies for all instruments subsystems. A 19-channel radiometer bundle design is borrowed from a commercial water column radiance instrument manufactured by Biospherical Instruments of San Diego California (ref, Morrow and Hooker)) and developed using NASA funds under the Small Business Innovative Research (SBIR) program. The 3STAR design also incorporates the latest in robotic motor technology embodied in Rotary actuators from Oriental motor Corp. having better than 15 arc seconds of positioning accuracy. Control system was designed, tested and simulated using a Hybrid-Dynamical modeling methodology. The design also replaces the classic quadrant detector tracking sensor with a

High Dynamic Range Video

CERN Document Server

Myszkowski, Karol

2008-01-01

This book presents a complete pipeline forHDR image and video processing fromacquisition, through compression and quality evaluation, to display. At the HDR image and video acquisition stage specialized HDR sensors or multi-exposure techniques suitable for traditional cameras are discussed. Then, we present a practical solution for pixel values calibration in terms of photometric or radiometric quantities, which are required in some technically oriented applications. Also, we cover the problem of efficient image and video compression and encoding either for storage or transmission purposes, in

Benchmarks for dynamic multi-objective optimisation

CSIR Research Space (South Africa)

Helbig, M

2013-06-01

Full Text Available When algorithms solve dynamic multi-objective optimisation problems (DMOOPs), benchmark functions should be used to determine whether the algorithm can overcome specific difficulties that can occur in real-world problems. However, for dynamic multi...

Switching dynamics of multi-agent learning

NARCIS (Netherlands)

Vrancx, P.; Tuyls, K.P.; Westra, R.

2008-01-01

This paper presents the dynamics of multi-agent reinforcement learning in multiple state problems. We extend previous work that formally modelled the relation between reinforcement learning agents and replicator dynamics in stateless multi-agent games. More precisely, in this work we use a

Low Power High Dynamic Range A/D Conversion Channel

DEFF Research Database (Denmark)

Marker-Villumsen, Niels; Rombach, Pirmin

in the conversion channel in order to avoid distortion for large input signals. In combination with a low resolution A/D converter (ADC) and a digital gain block, the adaptive A/D conversion channel achieves an extended dynamic range beyond that of the ADC. This in turn reduces the current consumption......This work concerns the analysis of an adaptive analog-to-digital (A/D) conversion channel for use with a micro electromechanical system (MEMS) microphone for audio applications. The adaptive A/D conversion channel uses an automatic gain control (AGC) for adjusting the analog preamplifier gain...... of the conversion channel in comparison to a static A/D conversion channel; this at the cost of a reduced peak signal-to-noise ratio (SNR). The adaptive A/D conversion channel compensates for the change in analog gain by a digital gain, thus achieving a constant channel gain in the full dynamic range. However...

SiGe HBT linear-in-dB high dynamic range RF envelope detectors and wideband high linearity amplifiers

OpenAIRE

Pan, Hsuan-yu

2010-01-01

This research work aims on exploiting SiGe HBT technologies in high dynamic range wideband RF linear-in- dB envelope detectors and linear amplifiers. First, an improved all-npn broadband highly linear SiGe HBT differential amplifier is presented based on a variation of Caprio's Quad. A broadband linear amplifier with 46dBm OIP₃ at 20MHz, 34dBm OIP₃ at 1GHz, 6dB noise figure and 10.3dBm P₁dB is demonstrated. Second, an improved exact dynamic model of a fast-settling linear-in-dB Automatic Gain...

High-dynamic-range coherent diffractive imaging: ptychography using the mixed-mode pixel array detector

Energy Technology Data Exchange (ETDEWEB)

Giewekemeyer, Klaus, E-mail: klaus.giewekemeyer@xfel.eu [European XFEL GmbH, Hamburg (Germany); Philipp, Hugh T. [Cornell University, Ithaca, NY (United States); Wilke, Robin N. [Georg-August-Universität Göttingen, Göttingen (Germany); Aquila, Andrew [European XFEL GmbH, Hamburg (Germany); Osterhoff, Markus [Georg-August-Universität Göttingen, Göttingen (Germany); Tate, Mark W.; Shanks, Katherine S. [Cornell University, Ithaca, NY (United States); Zozulya, Alexey V. [Deutsches Elektronen-Synchrotron DESY, Hamburg (Germany); Salditt, Tim [Georg-August-Universität Göttingen, Göttingen (Germany); Gruner, Sol M. [Cornell University, Ithaca, NY (United States); Cornell University, Ithaca, NY (United States); Kavli Institute of Cornell for Nanoscience, Ithaca, NY (United States); Mancuso, Adrian P. [European XFEL GmbH, Hamburg (Germany)

2014-08-07

The advantages of a novel wide dynamic range hard X-ray detector are demonstrated for (ptychographic) coherent X-ray diffractive imaging. Coherent (X-ray) diffractive imaging (CDI) is an increasingly popular form of X-ray microscopy, mainly due to its potential to produce high-resolution images and the lack of an objective lens between the sample and its corresponding imaging detector. One challenge, however, is that very high dynamic range diffraction data must be collected to produce both quantitative and high-resolution images. In this work, hard X-ray ptychographic coherent diffractive imaging has been performed at the P10 beamline of the PETRA III synchrotron to demonstrate the potential of a very wide dynamic range imaging X-ray detector (the Mixed-Mode Pixel Array Detector, or MM-PAD). The detector is capable of single photon detection, detecting fluxes exceeding 1 × 10{sup 8} 8-keV photons pixel{sup −1} s{sup −1}, and framing at 1 kHz. A ptychographic reconstruction was performed using a peak focal intensity on the order of 1 × 10{sup 10} photons µm{sup −2} s{sup −1} within an area of approximately 325 nm × 603 nm. This was done without need of a beam stop and with a very modest attenuation, while ‘still’ images of the empty beam far-field intensity were recorded without any attenuation. The treatment of the detector frames and CDI methodology for reconstruction of non-sensitive detector regions, partially also extending the active detector area, are described.

The analysis on dynamic range of industrial CT system

International Nuclear Information System (INIS)

Wang Huiqian; Wang Jue; Tan Hui

2011-01-01

Concerning the limitations of the definition of the dynamic range of industrial computed tomography (ICT) system, it researches the definition, measuring method and influencing factors of the dynamic range of industrial computed tomography (ICT) system from the concept of quantization and system. First, the character of the input-output curve was analyzed, and the method of obtaining the dynamic range of industrial computed tomography (ICT) system was proposed. Then, an experiment model was designed to gain dynamic range, based on 6 MeV high-energy industrial computed tomography (ICT) system. The results show that the larger the photosurface is, the smaller the dynamic range is, when the other parameters are unchanged. (authors)

Coexisting chaotic and multi-periodic dynamics in a model of cardiac alternans

Energy Technology Data Exchange (ETDEWEB)

Skardal, Per Sebastian, E-mail: skardals@gmail.com [Departament d' Enginyeria Informàtica i Matemàtiques, Universitat Rovira i Virgili, 43007 Tarragona (Spain); Restrepo, Juan G., E-mail: juanga@colorado.edu [Department of Applied Mathematics, University of Colorado, Boulder, Colorado 80309 (United States)

2014-12-15

The spatiotemporal dynamics of cardiac tissue is an active area of research for biologists, physicists, and mathematicians. Of particular interest is the study of period-doubling bifurcations and chaos due to their link with cardiac arrhythmogenesis. In this paper, we study the spatiotemporal dynamics of a recently developed model for calcium-driven alternans in a one dimensional cable of tissue. In particular, we observe in the cable coexistence of regions with chaotic and multi-periodic dynamics over wide ranges of parameters. We study these dynamics using global and local Lyapunov exponents and spatial trajectory correlations. Interestingly, near nodes—or phase reversals—low-periodic dynamics prevail, while away from the nodes, the dynamics tend to be higher-periodic and eventually chaotic. Finally, we show that similar coexisting multi-periodic and chaotic dynamics can also be observed in a detailed ionic model.

High dynamic range vision sensor for automotive applications

Science.gov (United States)

Grenet, Eric; Gyger, Steve; Heim, Pascal; Heitger, Friedrich; Kaess, Francois; Nussbaum, Pascal; Ruedi, Pierre-Francois

2005-02-01

A 128 x 128 pixels, 120 dB vision sensor extracting at the pixel level the contrast magnitude and direction of local image features is used to implement a lane tracking system. The contrast representation (relative change of illumination) delivered by the sensor is independent of the illumination level. Together with the high dynamic range of the sensor, it ensures a very stable image feature representation even with high spatial and temporal inhomogeneities of the illumination. Dispatching off chip image feature is done according to the contrast magnitude, prioritizing features with high contrast magnitude. This allows to reduce drastically the amount of data transmitted out of the chip, hence the processing power required for subsequent processing stages. To compensate for the low fill factor (9%) of the sensor, micro-lenses have been deposited which increase the sensitivity by a factor of 5, corresponding to an equivalent of 2000 ASA. An algorithm exploiting the contrast representation output by the vision sensor has been developed to estimate the position of a vehicle relative to the road markings. The algorithm first detects the road markings based on the contrast direction map. Then, it performs quadratic fits on selected kernel of 3 by 3 pixels to achieve sub-pixel accuracy on the estimation of the lane marking positions. The resulting precision on the estimation of the vehicle lateral position is 1 cm. The algorithm performs efficiently under a wide variety of environmental conditions, including night and rainy conditions.

An Integrated Tone Mapping for High Dynamic Range Image Visualization

Science.gov (United States)

Liang, Lei; Pan, Jeng-Shyang; Zhuang, Yongjun

2018-01-01

There are two type tone mapping operators for high dynamic range (HDR) image visualization. HDR image mapped by perceptual operators have strong sense of reality, but will lose local details. Empirical operators can maximize local detail information of HDR image, but realism is not strong. A common tone mapping operator suitable for all applications is not available. This paper proposes a novel integrated tone mapping framework which can achieve conversion between empirical operators and perceptual operators. In this framework, the empirical operator is rendered based on improved saliency map, which simulates the visual attention mechanism of the human eye to the natural scene. The results of objective evaluation prove the effectiveness of the proposed solution.

A design of an on-orbit radiometric calibration device for high dynamic range infrared remote sensors

Science.gov (United States)

Sheng, Yicheng; Jin, Weiqi; Dun, Xiong; Zhou, Feng; Xiao, Si

2017-10-01

With the demand of quantitative remote sensing technology growing, high reliability as well as high accuracy radiometric calibration technology, especially the on-orbit radiometric calibration device has become an essential orientation in term of quantitative remote sensing technology. In recent years, global launches of remote sensing satellites are equipped with innovative on-orbit radiometric calibration devices. In order to meet the requirements of covering a very wide dynamic range and no-shielding radiometric calibration system, we designed a projection-type radiometric calibration device for high dynamic range sensors based on the Schmidt telescope system. In this internal radiometric calibration device, we select the EF-8530 light source as the calibration blackbody. EF-8530 is a high emittance Nichrome (Ni-Cr) reference source. It can operate in steady or pulsed state mode at a peak temperature of 973K. The irradiance from the source was projected to the IRFPA. The irradiance needs to ensure that the IRFPA can obtain different amplitude of the uniform irradiance through the narrow IR passbands and cover the very wide dynamic range. Combining the internal on-orbit radiometric calibration device with the specially designed adaptive radiometric calibration algorithms, an on-orbit dynamic non-uniformity correction can be accomplished without blocking the optical beam from outside the telescope. The design optimizes optics, source design, and power supply electronics for irradiance accuracy and uniformity. The internal on-orbit radiometric calibration device not only satisfies a series of indexes such as stability, accuracy, large dynamic range and uniformity of irradiance, but also has the advantages of short heating and cooling time, small volume, lightweight, low power consumption and many other features. It can realize the fast and efficient relative radiometric calibration without shielding the field of view. The device can applied to the design and

Kernel optimization for short-range molecular dynamics

Science.gov (United States)

Hu, Changjun; Wang, Xianmeng; Li, Jianjiang; He, Xinfu; Li, Shigang; Feng, Yangde; Yang, Shaofeng; Bai, He

2017-02-01

To optimize short-range force computations in Molecular Dynamics (MD) simulations, multi-threading and SIMD optimizations are presented in this paper. With respect to multi-threading optimization, a Partition-and-Separate-Calculation (PSC) method is designed to avoid write conflicts caused by using Newton's third law. Serial bottlenecks are eliminated with no additional memory usage. The method is implemented by using the OpenMP model. Furthermore, the PSC method is employed on Intel Xeon Phi coprocessors in both native and offload models. We also evaluate the performance of the PSC method under different thread affinities on the MIC architecture. In the SIMD execution, we explain the performance influence in the PSC method, considering the "if-clause" of the cutoff radius check. The experiment results show that our PSC method is relatively more efficient compared to some traditional methods. In double precision, our 256-bit SIMD implementation is about 3 times faster than the scalar version.

Clinical evaluation of a medical high dynamic range display

International Nuclear Information System (INIS)

Marchessoux, Cedric; Paepe, Lode de; Vanovermeire, Olivier; Albani, Luigi

2016-01-01

Purpose: Recent new medical displays do have higher contrast and higher luminance but do not have a High Dynamic Range (HDR). HDR implies a minimum luminance value close to zero. A medical HDR display prototype based on two Liquid Crystal layers has been developed. The goal of this study is to evaluate the potential clinical benefit of such display in comparison with a low dynamic range (LDR) display. Methods: The study evaluated the clinical performance of the displays in a search and detection task. Eight radiologists read chest x-ray images some of which contained simulated lung nodules. The study used a JAFROC (Jacknife Free Receiver Operating Characteristic) approach for analyzing FROC data. The calculated figure of merit (FoM) is the probability that a lesion is rated higher than all rated nonlesions on all images. Time per case and accuracy for locating the center of the nodules were also compared. The nodules were simulated using Samei’s model. 214 CR and DR images [half were “healthy images” (chest nodule-free) and half “diseased images”] were used resulting in a total number of nodules equal to 199 with 25 images with 1 nodule, 51 images with 2 nodules, and 24 images with 3 nodules. A dedicated software interface was designed for visualizing the images for each session. For the JAFROC1 statistical analysis, the study is done per nodule category: all nodules, difficult nodules, and very difficult nodules. Results: For all nodules, the averaged FoM HDR is slightly higher than FoM LDR with 0.09% of difference. For the difficult nodules, the averaged FoM HDR is slightly higher than FoM LDR with 1.38% of difference. The averaged FoM HDR is slightly higher than FoM LDR with 0.71% of difference. For the true positive fraction (TPF), both displays (the HDR and the LDR ones) have similar TPF for all nodules, but looking at difficult and very difficult nodules, there are more TP for the HDR display. The true positive fraction has been also computed in

The dynamic range of ultra-high-resolution cryogenic gamma-ray spectrometers

Energy Technology Data Exchange (ETDEWEB)

Ali, Shafinaz [Advanced Detector Group, Lawrence Livermore National Laboratory, 7000 East Avenue, L-270, Livermore, CA 94550 (United States); Terracol, Stephane F. [Advanced Detector Group, Lawrence Livermore National Laboratory, 7000 East Avenue, L-270, Livermore, CA 94550 (United States); Drury, Owen B. [Advanced Detector Group, Lawrence Livermore National Laboratory, 7000 East Avenue, L-270, Livermore, CA 94550 (United States); Friedrich, Stephan [Advanced Detector Group, Lawrence Livermore National Laboratory, 7000 East Avenue, L-270, Livermore, CA 94550 (United States)]. E-mail: friedrich1@llnl.gov

2006-04-15

We are developing high-resolution cryogenic gamma-ray spectrometers for nuclear science and non-proliferation applications. The gamma-ray detectors are composed of a bulk superconducting Sn foil absorber attached to a multilayer Mo/Cu transition-edge sensor (TES). The energy resolution of a detector with a 1x1x0.25 mm{sup 3} Sn absorber is 50-90 eV FWHM for {gamma}-rays up to 100 keV, and it decreases for larger absorbers. Here, we present the detector performance for different absorber volumes, and discuss the trade-offs between energy resolution and dynamic range.

The Dynamic Range of Ultra-High Resolution Cryogenic Gamma-ray Spectrometers

International Nuclear Information System (INIS)

Ali, S; Terracol, S F; Drury, O B; Friedrich, S

2005-01-01

We are developing high-resolution cryogenic gamma-ray spectrometers for nuclear science and non-proliferation applications. The gamma-ray detectors are composed of a bulk superconducting Sn foil absorber attached to multilayer Mo/Cu transition-edge sensors (TES). The energy resolution achieved with a 1 x 1 x 0.25 mm 3 Sn absorber is 50 -90eV for γ-rays up to 100 keV and it decreases for large absorber sizes. We discuss the trade-offs between energy resolution and dynamic range, as well as development of TES arrays for higher count rates and better sensitivity

Dynamic configuration management of a multi-standard and multi-mode reconfigurable multi-ASIP architecture for turbo decoding

Science.gov (United States)

Lapotre, Vianney; Gogniat, Guy; Baghdadi, Amer; Diguet, Jean-Philippe

2017-12-01

The multiplication of connected devices goes along with a large variety of applications and traffic types needing diverse requirements. Accompanying this connectivity evolution, the last years have seen considerable evolutions of wireless communication standards in the domain of mobile telephone networks, local/wide wireless area networks, and Digital Video Broadcasting (DVB). In this context, intensive research has been conducted to provide flexible turbo decoder targeting high throughput, multi-mode, multi-standard, and power consumption efficiency. However, flexible turbo decoder implementations have not often considered dynamic reconfiguration issues in this context that requires high speed configuration switching. Starting from this assessment, this paper proposes the first solution that allows frame-by-frame run-time configuration management of a multi-processor turbo decoder without compromising the decoding performances.

Adaptive digital fringe projection technique for high dynamic range three-dimensional shape measurement.

Science.gov (United States)

Lin, Hui; Gao, Jian; Mei, Qing; He, Yunbo; Liu, Junxiu; Wang, Xingjin

2016-04-04

It is a challenge for any optical method to measure objects with a large range of reflectivity variation across the surface. Image saturation results in incorrect intensities in captured fringe pattern images, leading to phase and measurement errors. This paper presents a new adaptive digital fringe projection technique which avoids image saturation and has a high signal to noise ratio (SNR) in the three-dimensional (3-D) shape measurement of objects that has a large range of reflectivity variation across the surface. Compared to previous high dynamic range 3-D scan methods using many exposures and fringe pattern projections, which consumes a lot of time, the proposed technique uses only two preliminary steps of fringe pattern projection and image capture to generate the adapted fringe patterns, by adaptively adjusting the pixel-wise intensity of the projected fringe patterns based on the saturated pixels in the captured images of the surface being measured. For the bright regions due to high surface reflectivity and high illumination by the ambient light and surfaces interreflections, the projected intensity is reduced just to be low enough to avoid image saturation. Simultaneously, the maximum intensity of 255 is used for those dark regions with low surface reflectivity to maintain high SNR. Our experiments demonstrate that the proposed technique can achieve higher 3-D measurement accuracy across a surface with a large range of reflectivity variation.

A high speed, wide dynamic range digitizer circuit for photomultiplier tubes

International Nuclear Information System (INIS)

Yarema, R.J.; Foster, G.W.; Knickerbocker, K.; Sarraj, M.; Tschirhart, R.; Whitmore, J.; Zimmerman, T.; Lindgren, M.

1995-01-01

A circuit has been designed for digitizing PMT signals over a wide dynamic range (17-18 bits) with 8 bits of resolution at rates up to 53 MHz. Output from the circuit is in a floating point format with a 4 bit exponent and an 8 bit mantissa. The heart of the circuit is a full custom integrated circuit called the QIE (Charge Integrator and Encoder). The design of the QIE and associated circuitry reported here permits operation over a 17 bit dynamic range. Test results of a multirange device are presented for the first time. (orig.)

Quantum system driven by incoherent a.c fields: Multi-crossing Landau Zener dynamics

Energy Technology Data Exchange (ETDEWEB)

Jipdi, M.N., E-mail: jmichaelnicky@yahoo.fr; Fai, L.C.; Tchoffo, M.

2016-10-23

The paper investigates the multi-crossing dynamics of a Landau–Zener (LZ) system driven by two sinusoidal a.c fields applying the Dynamic Matrix approach (DMA). The system is shown to follow one-crossing and multi-crossing dynamics for low and high frequency regime respectively. It is shown that in low frequency regime, the resonance phenomenon occurs and leads to the decoupling of basis states; the effective gap vanishes and then the complete blockage of the system. For high frequency, the system achieves multi-crossing dynamics with two fictitious crossings; the system models a Landau–Zener–Stückelberg (LZS) interferometer with critical parameters that tailor probabilities. The system is then shown to depend only on the phase that permits the easiest control with possible application in implementing logic gates.

Multi-stage gene normalization for full-text articles with context-based species filtering for dynamic dictionary entry selection.

Science.gov (United States)

Tsai, Richard Tzong-Han; Lai, Po-Ting

2011-10-03

Gene normalization (GN) is the task of identifying the unique database IDs of genes and proteins in literature. The best-known public competition of GN systems is the GN task of the BioCreative challenge, which has been held four times since 2003. The last two BioCreatives, II.5 & III, had two significant differences from earlier tasks: firstly, they provided full-length articles in addition to abstracts; and secondly, they included multiple species without providing species ID information. Full papers introduce more complex targets for GN processing, while the inclusion of multiple species vastly increases the potential size of dictionaries needed for GN. BioCreative III GN uses Threshold Average Precision at a median of k errors per query (TAP-k), a new measure closely related to the well-known average precision, but also reflecting the reliability of the score provided by each GN system. To use full-paper text, we employed a multi-stage GN algorithm and a ranking method which exploit information in different sections and parts of a paper. To handle the inclusion of multiple unknown species, we developed two context-based dynamic strategies to select dictionary entries related to the species that appear in the paper-section-wide and article-wide context. Our originally submitted BioCreative III system uses a static dictionary containing only the most common species entries. It already exceeds the BioCreative III average team performance by at least 24% in every evaluation. However, using our proposed dynamic dictionary strategies, we were able to further improve TAP-5, TAP-10, and TAP-20 by 16.47%, 13.57% and 6.01%, respectively in the Gold 50 test set. Our best dynamic strategy outperforms the best BioCreative III systems in TAP-10 on the Silver 50 test set and in TAP-5 on the Silver 507 set. Our experimental results demonstrate the superiority of our proposed dynamic dictionary selection strategies over our original static strategy and most BioCreative III

Multi-label literature classification based on the Gene Ontology graph

Directory of Open Access Journals (Sweden)

Lu Xinghua

2008-12-01

Full Text Available Abstract Background The Gene Ontology is a controlled vocabulary for representing knowledge related to genes and proteins in a computable form. The current effort of manually annotating proteins with the Gene Ontology is outpaced by the rate of accumulation of biomedical knowledge in literature, which urges the development of text mining approaches to facilitate the process by automatically extracting the Gene Ontology annotation from literature. The task is usually cast as a text classification problem, and contemporary methods are confronted with unbalanced training data and the difficulties associated with multi-label classification. Results In this research, we investigated the methods of enhancing automatic multi-label classification of biomedical literature by utilizing the structure of the Gene Ontology graph. We have studied three graph-based multi-label classification algorithms, including a novel stochastic algorithm and two top-down hierarchical classification methods for multi-label literature classification. We systematically evaluated and compared these graph-based classification algorithms to a conventional flat multi-label algorithm. The results indicate that, through utilizing the information from the structure of the Gene Ontology graph, the graph-based multi-label classification methods can significantly improve predictions of the Gene Ontology terms implied by the analyzed text. Furthermore, the graph-based multi-label classifiers are capable of suggesting Gene Ontology annotations (to curators that are closely related to the true annotations even if they fail to predict the true ones directly. A software package implementing the studied algorithms is available for the research community. Conclusion Through utilizing the information from the structure of the Gene Ontology graph, the graph-based multi-label classification methods have better potential than the conventional flat multi-label classification approach to facilitate

The Dynamic Multi-Period Vehicle Routing Problem

DEFF Research Database (Denmark)

Wen, Min; Cordeau, Jean-Francois; Laporte, Gilbert

This paper considers the Dynamic Multi-Period Vehicle Routing Problem which deals with the distribution of orders from a depot to a set of customers over a multi-period time horizon. Customer orders and their feasible service periods are dynamically revealed over time. The objectives are to minim......This paper considers the Dynamic Multi-Period Vehicle Routing Problem which deals with the distribution of orders from a depot to a set of customers over a multi-period time horizon. Customer orders and their feasible service periods are dynamically revealed over time. The objectives...... are to minimize total travel costs and customer waiting, and to balance the daily workload over the planning horizon. This problem originates from a large distributor operating in Sweden. It is modeled as a mixed integer linear program, and solved by means of a three-phase heuristic that works over a rolling...... planning horizon. The multi-objective aspect of the problem is handled through a scalar technique approach. Computational results show that our solutions improve upon those of the Swedish distributor....

Dynamic and stochastic multi-project planning

CERN Document Server

Melchiors, Philipp

2015-01-01

This book deals with dynamic and stochastic methods for multi-project planning. Based on the idea of using queueing networks for the analysis of dynamic-stochastic multi-project environments this book addresses two problems: detailed scheduling of project activities, and integrated order acceptance and capacity planning. In an extensive simulation study, the book thoroughly investigates existing scheduling policies. To obtain optimal and near optimal scheduling policies new models and algorithms are proposed based on the theory of Markov decision processes and Approximate Dynamic programming.

A research on radiation calibration of high dynamic range based on the dual channel CMOS

Science.gov (United States)

Ma, Kai; Shi, Zhan; Pan, Xiaodong; Wang, Yongsheng; Wang, Jianghua

2017-10-01

The dual channel complementary metal-oxide semiconductor (CMOS) can get high dynamic range (HDR) image through extending the gray level of the image by using image fusion with high gain channel image and low gain channel image in a same frame. In the process of image fusion with dual channel, it adopts the coefficients of radiation response of a pixel from dual channel in a same frame, and then calculates the gray level of the pixel in the HDR image. For the coefficients of radiation response play a crucial role in image fusion, it has to find an effective method to acquire these parameters. In this article, it makes a research on radiation calibration of high dynamic range based on the dual channel CMOS, and designs an experiment to calibrate the coefficients of radiation response for the sensor it used. In the end, it applies these response parameters in the dual channel CMOS which calibrates, and verifies the correctness and feasibility of the method mentioned in this paper.

On Dynamic Range Limitations of CMOS Current Conveyors

DEFF Research Database (Denmark)

Bruun, Erik

1999-01-01

frequency band and for the situation where the conveyor is used over the full bandwidth achievable. Finally, the optimisation of the current input range is related to the distortion characteristics and it is pointed out that to a first order approximation the distortion is independent of the current range.......This paper is concerned with the dynamic range of continuous time CMOS current mode circuits. As a representative current mode device a class AB current conveyor is examined. First, the voltage input range of the high impedance Y input is investigated. Next, the current input range of the low...... impedance X input is investigated. It is compared to the thermal noise in the X to Z signal path in order to evaluate the dynamic range, and the dependencies of the dynamic range on the supply voltage and the transistor lay-out is derived, both for the situation where the conveyor is used over a narrow...

L1 Adaptive Control Augmentation System with Application to the X-29 Lateral/Directional Dynamics: A Multi-Input Multi-Output Approach

Science.gov (United States)

Griffin, Brian Joseph; Burken, John J.; Xargay, Enric

2010-01-01

This paper presents an L(sub 1) adaptive control augmentation system design for multi-input multi-output nonlinear systems in the presence of unmatched uncertainties which may exhibit significant cross-coupling effects. A piecewise continuous adaptive law is adopted and extended for applicability to multi-input multi-output systems that explicitly compensates for dynamic cross-coupling. In addition, explicit use of high-fidelity actuator models are added to the L1 architecture to reduce uncertainties in the system. The L(sub 1) multi-input multi-output adaptive control architecture is applied to the X-29 lateral/directional dynamics and results are evaluated against a similar single-input single-output design approach.

First full dynamic range calibration of the JUNGFRAU photon detector

Science.gov (United States)

Redford, S.; Andrä, M.; Barten, R.; Bergamaschi, A.; Brückner, M.; Dinapoli, R.; Fröjdh, E.; Greiffenberg, D.; Lopez-Cuenca, C.; Mezza, D.; Mozzanica, A.; Ramilli, M.; Ruat, M.; Ruder, C.; Schmitt, B.; Shi, X.; Thattil, D.; Tinti, G.; Vetter, S.; Zhang, J.

2018-01-01

The JUNGFRAU detector is a charge integrating hybrid silicon pixel detector developed at the Paul Scherrer Institut for photon science applications, in particular for the upcoming free electron laser SwissFEL. With a high dynamic range, analogue readout, low noise and three automatically switching gains, JUNGFRAU promises excellent performance not only at XFELs but also at synchrotrons in areas such as protein crystallography, ptychography, pump-probe and time resolved measurements. To achieve its full potential, the detector must be calibrated on a pixel-by-pixel basis. This contribution presents the current status of the JUNGFRAU calibration project, in which a variety of input charge sources are used to parametrise the energy response of the detector across four orders of magnitude of dynamic range. Building on preliminary studies, the first full calibration procedure of a JUNGFRAU 0.5 Mpixel module is described. The calibration is validated using alternative sources of charge deposition, including laboratory experiments and measurements at ESRF and LCLS. The findings from these measurements are presented. Calibrated modules have already been used in proof-of-principle style protein crystallography experiments at the SLS. A first look at selected results is shown. Aspects such as the conversion of charge to number of photons, treatment of multi-size pixels and the origin of non-linear response are also discussed.

Quantitative high dynamic range beam profiling for fluorescence microscopy

International Nuclear Information System (INIS)

Mitchell, T. J.; Saunter, C. D.; O’Nions, W.; Girkin, J. M.; Love, G. D.

2014-01-01

Modern developmental biology relies on optically sectioning fluorescence microscope techniques to produce non-destructive in vivo images of developing specimens at high resolution in three dimensions. As optimal performance of these techniques is reliant on the three-dimensional (3D) intensity profile of the illumination employed, the ability to directly record and analyze these profiles is of great use to the fluorescence microscopist or instrument builder. Though excitation beam profiles can be measured indirectly using a sample of fluorescent beads and recording the emission along the microscope detection path, we demonstrate an alternative approach where a miniature camera sensor is used directly within the illumination beam. Measurements taken using our approach are solely concerned with the illumination optics as the detection optics are not involved. We present a miniature beam profiling device and high dynamic range flux reconstruction algorithm that together are capable of accurately reproducing quantitative 3D flux maps over a large focal volume. Performance of this beam profiling system is verified within an optical test bench and demonstrated for fluorescence microscopy by profiling the low NA illumination beam of a single plane illumination microscope. The generality and success of this approach showcases a widely flexible beam amplitude diagnostic tool for use within the life sciences

Unattended real-time re-establishment of visibility in high dynamic range video and stills

Science.gov (United States)

Abidi, B.

2014-05-01

We describe a portable unattended persistent surveillance system that corrects for harsh illumination conditions, where bright sun light creates mixed contrast effects, i.e., heavy shadows and washouts. These effects result in high dynamic range scenes, where illuminance can vary from few luxes to a 6 figure value. When using regular monitors and cameras, such wide span of illuminations can only be visualized if the actual range of values is compressed, leading to the creation of saturated and/or dark noisy areas and a loss of information in these areas. Images containing extreme mixed contrast cannot be fully enhanced from a single exposure, simply because all information is not present in the original data. The active intervention in the acquisition process is required. A software package, capable of integrating multiple types of COTS and custom cameras, ranging from Unmanned Aerial Systems (UAS) data links to digital single-lens reflex cameras (DSLR), is described. Hardware and software are integrated via a novel smart data acquisition algorithm, which communicates to the camera the parameters that would maximize information content in the final processed scene. A fusion mechanism is then applied to the smartly acquired data, resulting in an enhanced scene where information in both dark and bright areas is revealed. Multi-threading and parallel processing are exploited to produce automatic real time full motion corrected video. A novel enhancement algorithm was also devised to process data from legacy and non-controllable cameras. The software accepts and processes pre-recorded sequences and stills, enhances visible, night vision, and Infrared data, and successfully applies to night time and dark scenes. Various user options are available, integrating custom functionalities of the application into intuitive and easy to use graphical interfaces. The ensuing increase in visibility in surveillance video and intelligence imagery will expand the performance and

Binaural model-based dynamic-range compression.

Science.gov (United States)

Ernst, Stephan M A; Kortlang, Steffen; Grimm, Giso; Bisitz, Thomas; Kollmeier, Birger; Ewert, Stephan D

2018-01-26

Binaural cues such as interaural level differences (ILDs) are used to organise auditory perception and to segregate sound sources in complex acoustical environments. In bilaterally fitted hearing aids, dynamic-range compression operating independently at each ear potentially alters these ILDs, thus distorting binaural perception and sound source segregation. A binaurally-linked model-based fast-acting dynamic compression algorithm designed to approximate the normal-hearing basilar membrane (BM) input-output function in hearing-impaired listeners is suggested. A multi-center evaluation in comparison with an alternative binaural and two bilateral fittings was performed to assess the effect of binaural synchronisation on (a) speech intelligibility and (b) perceived quality in realistic conditions. 30 and 12 hearing impaired (HI) listeners were aided individually with the algorithms for both experimental parts, respectively. A small preference towards the proposed model-based algorithm in the direct quality comparison was found. However, no benefit of binaural-synchronisation regarding speech intelligibility was found, suggesting a dominant role of the better ear in all experimental conditions. The suggested binaural synchronisation of compression algorithms showed a limited effect on the tested outcome measures, however, linking could be situationally beneficial to preserve a natural binaural perception of the acoustical environment.

Host range of antibiotic resistance genes in wastewater treatment plant influent and effluent.

Science.gov (United States)

Hultman, Jenni; Tamminen, Manu; Pärnänen, Katariina; Cairns, Johannes; Karkman, Antti; Virta, Marko

2018-04-01

Wastewater treatment plants (WWTPs) collect wastewater from various sources for a multi-step treatment process. By mixing a large variety of bacteria and promoting their proximity, WWTPs constitute potential hotspots for the emergence of antibiotic resistant bacteria. Concerns have been expressed regarding the potential of WWTPs to spread antibiotic resistance genes (ARGs) from environmental reservoirs to human pathogens. We utilized epicPCR (Emulsion, Paired Isolation and Concatenation PCR) to detect the bacterial hosts of ARGs in two WWTPs. We identified the host distribution of four resistance-associated genes (tetM, int1, qacEΔ1and blaOXA-58) in influent and effluent. The bacterial hosts of these resistance genes varied between the WWTP influent and effluent, with a generally decreasing host range in the effluent. Through 16S rRNA gene sequencing, it was determined that the resistance gene carrying bacteria include both abundant and rare taxa. Our results suggest that the studied WWTPs mostly succeed in decreasing the host range of the resistance genes during the treatment process. Still, there were instances where effluent contained resistance genes in bacterial groups not carrying these genes in the influent. By permitting exhaustive profiling of resistance-associated gene hosts in WWTP bacterial communities, the application of epicPCR provides a new level of precision to our resistance gene risk estimates.

Observation of plasma-facing-wall via high dynamic range imaging

International Nuclear Information System (INIS)

Villamayor, Michelle Marie S.; Rosario, Leo Mendel D.; Viloan, Rommel Paulo B.

2013-01-01

Pictures of plasmas and deposits in a discharge chamber taken by varying shutter speeds have been integrated into high dynamic range (HDR) images. The HDR images of a graphite target surface of a compact planar magnetron (CPM) discharge device have clearly indicated the erosion pattern of the target, which are correlated to the light intensity distribution of plasma during operation. Based upon the HDR image technique coupled to colorimetry, a formation history of dust-like deposits inside of the CPM chamber has been recorded. The obtained HDR images have shown how the patterns of deposits changed in accordance with discharge duration. Results show that deposition takes place near the evacuation ports during the early stage of the plasma discharge. Discoloration of the plasma-facing-walls indicating erosion and redeposition eventually spreads at the periphery after several hours of operation. (author)

Rabbit System. Low cost, high reliability front end electronics featuring 16 bit dynamic range

International Nuclear Information System (INIS)

Drake, G.; Droege, T.F.; Nelson, C.A. Jr.; Turner, K.J.; Ohska, T.K.

1985-10-01

A new crate-based front end system has been built which features low cost, compact packaging, command capability, 16 bit dynamic range digitization, and a high degree of redundancy. The crate can contain a variety of instrumentation modules, and is designed to be situated close to the detector. The system is suitable for readout of a large number of channels via parallel multiprocessor data acquisition

A wideband large dynamic range and high linearity RF front-end for U-band mobile DTV

International Nuclear Information System (INIS)

Liu Rongjiang; Liu Shengyou; Guo Guiliang; Cheng Xu; Yan Yuepeng

2013-01-01

A wideband large dynamic range and high linearity U-band RF front-end for mobile DTV is introduced, and includes a noise-cancelling low-noise amplifier (LNA), an RF programmable gain amplifier (RFPGA) and a current communicating passive mixer. The noise/distortion cancelling structure and RC post-distortion compensation are employed to improve the linearity of the LNA. An RFPGA with five stages provides large dynamic range and fine gain resolution. A simple resistor voltage network in the passive mixer decreases the gate bias voltage of the mixing transistor, and optimum linearity and symmetrical mixing is obtained at the same time. The RF front-end is implemented in a 0.25 μm CMOS process. Tests show that it achieves an IIP3 (third-order intercept point) of −17 dBm, a conversion gain of 39 dB, and a noise figure of 5.8 dB. The RFPGA achieves a dynamic range of −36.2 to 23.5 dB with a resolution of 0.32 dB. (semiconductor integrated circuits)

Multi-scale variability and long-range memory in indoor Radon concentrations from Coimbra, Portugal

Science.gov (United States)

Donner, Reik V.; Potirakis, Stelios; Barbosa, Susana

2014-05-01

The presence or absence of long-range correlations in the variations of indoor Radon concentrations has recently attracted considerable interest. As a radioactive gas naturally emitted from the ground in certain geological settings, understanding environmental factors controlling Radon concentrations and their dynamics is important for estimating its effect on human health and the efficiency of possible measures for reducing the corresponding exposition. In this work, we re-analyze two high-resolution records of indoor Radon concentrations from Coimbra, Portugal, each of which spans several months of continuous measurements. In order to evaluate the presence of long-range correlations and fractal scaling, we utilize a multiplicity of complementary methods, including power spectral analysis, ARFIMA modeling, classical and multi-fractal detrended fluctuation analysis, and two different estimators of the signals' fractal dimensions. Power spectra and fluctuation functions reveal some complex behavior with qualitatively different properties on different time-scales: white noise in the high-frequency part, indications of some long-range correlated process dominating time scales of several hours to days, and pronounced low-frequency variability associated with tidal and/or meteorological forcing. In order to further decompose these different scales of variability, we apply two different approaches. On the one hand, applying multi-resolution analysis based on the discrete wavelet transform allows separately studying contributions on different time scales and characterize their specific correlation and scaling properties. On the other hand, singular system analysis (SSA) provides a reconstruction of the essential modes of variability. Specifically, by considering only the first leading SSA modes, we achieve an efficient de-noising of our environmental signals, highlighting the low-frequency variations together with some distinct scaling on sub-daily time-scales resembling

Multi-targeted priming for genome-wide gene expression assays

Directory of Open Access Journals (Sweden)

Adomas Aleksandra B

2010-08-01

Full Text Available Abstract Background Complementary approaches to assaying global gene expression are needed to assess gene expression in regions that are poorly assayed by current methodologies. A key component of nearly all gene expression assays is the reverse transcription of transcribed sequences that has traditionally been performed by priming the poly-A tails on many of the transcribed genes in eukaryotes with oligo-dT, or by priming RNA indiscriminately with random hexamers. We designed an algorithm to find common sequence motifs that were present within most protein-coding genes of Saccharomyces cerevisiae and of Neurospora crassa, but that were not present within their ribosomal RNA or transfer RNA genes. We then experimentally tested whether degenerately priming these motifs with multi-targeted primers improved the accuracy and completeness of transcriptomic assays. Results We discovered two multi-targeted primers that would prime a preponderance of genes in the genomes of Saccharomyces cerevisiae and Neurospora crassa while avoiding priming ribosomal RNA or transfer RNA. Examining the response of Saccharomyces cerevisiae to nitrogen deficiency and profiling Neurospora crassa early sexual development, we demonstrated that using multi-targeted primers in reverse transcription led to superior performance of microarray profiling and next-generation RNA tag sequencing. Priming with multi-targeted primers in addition to oligo-dT resulted in higher sensitivity, a larger number of well-measured genes and greater power to detect differences in gene expression. Conclusions Our results provide the most complete and detailed expression profiles of the yeast nitrogen starvation response and N. crassa early sexual development to date. Furthermore, our multi-targeting priming methodology for genome-wide gene expression assays provides selective targeting of multiple sequences and counter-selection against undesirable sequences, facilitating a more complete and

Multi-scale Dynamical Processes in Space and Astrophysical Plasmas

CERN Document Server

Vörös, Zoltán; IAFA 2011 - International Astrophysics Forum 2011 : Frontiers in Space Environment Research

2012-01-01

Magnetized plasmas in the universe exhibit complex dynamical behavior over a huge range of scales. The fundamental mechanisms of energy transport, redistribution and conversion occur at multiple scales. The driving mechanisms often include energy accumulation, free-energy-excited relaxation processes, dissipation and self-organization. The plasma processes associated with energy conversion, transport and self-organization, such as magnetic reconnection, instabilities, linear and nonlinear waves, wave-particle interactions, dynamo processes, turbulence, heating, diffusion and convection represent fundamental physical effects. They demonstrate similar dynamical behavior in near-Earth space, on the Sun, in the heliosphere and in astrophysical environments. 'Multi-scale Dynamical Processes in Space and Astrophysical Plasmas' presents the proceedings of the International Astrophysics Forum Alpbach 2011. The contributions discuss the latest advances in the exploration of dynamical behavior in space plasmas environm...

Method of Obtaining High Resolution Intrinsic Wire Boom Damping Parameters for Multi-Body Dynamics Simulations

Science.gov (United States)

Yew, Alvin G.; Chai, Dean J.; Olney, David J.

2010-01-01

The goal of NASA's Magnetospheric MultiScale (MMS) mission is to understand magnetic reconnection with sensor measurements from four spinning satellites flown in a tight tetrahedron formation. Four of the six electric field sensors on each satellite are located at the end of 60- meter wire booms to increase measurement sensitivity in the spin plane and to minimize motion coupling from perturbations on the main body. A propulsion burn however, might induce boom oscillations that could impact science measurements if oscillations do not damp to values on the order of 0.1 degree in a timely fashion. Large damping time constants could also adversely affect flight dynamics and attitude control performance. In this paper, we will discuss the implementation of a high resolution method for calculating the boom's intrinsic damping, which was used in multi-body dynamics simulations. In summary, experimental data was obtained with a scaled-down boom, which was suspended as a pendulum in vacuum. Optical techniques were designed to accurately measure the natural decay of angular position and subsequently, data processing algorithms resulted in excellent spatial and temporal resolutions. This method was repeated in a parametric study for various lengths, root tensions and vacuum levels. For all data sets, regression models for damping were applied, including: nonlinear viscous, frequency-independent hysteretic, coulomb and some combination of them. Our data analysis and dynamics models have shown that the intrinsic damping for the baseline boom is insufficient, thereby forcing project management to explore mitigation strategies.

Expanding the linear dynamic range for quantitative liquid chromatography-high resolution mass spectrometry utilizing natural isotopologue signals

International Nuclear Information System (INIS)

Liu, Hanghui; Lam, Lily; Yan, Lin; Chi, Bert; Dasgupta, Purnendu K.

2014-01-01

Highlights: • Less abundant isotopologue ions were utilized to decrease detector saturation. • A 25–50 fold increase in the upper limit of dynamic range was demonstrated. • Linear dynamic range was expanded without compromising mass resolution. - Abstract: The linear dynamic range (LDR) for quantitative liquid chromatography–mass spectrometry can be extended until ionization saturation is reached by using a number of target isotopologue ions in addition to the normally used target ion that provides the highest sensitivity. Less abundant isotopologue ions extend the LDR: the lower ion abundance decreases the probability of ion detector saturation. Effectively the sensitivity decreases and the upper limit of the LDR increases. We show in this paper that the technique is particularly powerful with a high resolution time of flight mass spectrometer because the data for all ions are automatically acquired, and we demonstrated this for four small organic molecules; the upper limits of LDRs increased by 25–50 times

Numerical analysis for finite-range multitype stochastic contact financial market dynamic systems

International Nuclear Information System (INIS)

Yang, Ge; Wang, Jun; Fang, Wen

2015-01-01

In an attempt to reproduce and study the dynamics of financial markets, a random agent-based financial price model is developed and investigated by the finite-range multitype contact dynamic system, in which the interaction and dispersal of different types of investment attitudes in a stock market are imitated by viruses spreading. With different parameters of birth rates and finite-range, the normalized return series are simulated by Monte Carlo simulation method and numerical studied by power-law distribution analysis and autocorrelation analysis. To better understand the nonlinear dynamics of the return series, a q-order autocorrelation function and a multi-autocorrelation function are also defined in this work. The comparisons of statistical behaviors of return series from the agent-based model and the daily historical market returns of Shanghai Composite Index and Shenzhen Component Index indicate that the proposed model is a reasonable qualitative explanation for the price formation process of stock market systems

Numerical analysis for finite-range multitype stochastic contact financial market dynamic systems

Science.gov (United States)

Yang, Ge; Wang, Jun; Fang, Wen

2015-04-01

In an attempt to reproduce and study the dynamics of financial markets, a random agent-based financial price model is developed and investigated by the finite-range multitype contact dynamic system, in which the interaction and dispersal of different types of investment attitudes in a stock market are imitated by viruses spreading. With different parameters of birth rates and finite-range, the normalized return series are simulated by Monte Carlo simulation method and numerical studied by power-law distribution analysis and autocorrelation analysis. To better understand the nonlinear dynamics of the return series, a q-order autocorrelation function and a multi-autocorrelation function are also defined in this work. The comparisons of statistical behaviors of return series from the agent-based model and the daily historical market returns of Shanghai Composite Index and Shenzhen Component Index indicate that the proposed model is a reasonable qualitative explanation for the price formation process of stock market systems.

Numerical analysis for finite-range multitype stochastic contact financial market dynamic systems

Energy Technology Data Exchange (ETDEWEB)

Yang, Ge; Wang, Jun [School of Science, Beijing Jiaotong University, Beijing 100044 (China); Fang, Wen, E-mail: fangwen@bjtu.edu.cn [School of Economics and Management, Beijing Jiaotong University, Beijing 100044 (China)

2015-04-15

In an attempt to reproduce and study the dynamics of financial markets, a random agent-based financial price model is developed and investigated by the finite-range multitype contact dynamic system, in which the interaction and dispersal of different types of investment attitudes in a stock market are imitated by viruses spreading. With different parameters of birth rates and finite-range, the normalized return series are simulated by Monte Carlo simulation method and numerical studied by power-law distribution analysis and autocorrelation analysis. To better understand the nonlinear dynamics of the return series, a q-order autocorrelation function and a multi-autocorrelation function are also defined in this work. The comparisons of statistical behaviors of return series from the agent-based model and the daily historical market returns of Shanghai Composite Index and Shenzhen Component Index indicate that the proposed model is a reasonable qualitative explanation for the price formation process of stock market systems.

Dynamic gene expression for metabolic engineering of mammalian cells in culture.

Science.gov (United States)

Le, Huong; Vishwanathan, Nandita; Kantardjieff, Anne; Doo, Inseok; Srienc, Michael; Zheng, Xiaolu; Somia, Nikunj; Hu, Wei-Shou

2013-11-01

Recombinant mammalian cells are the major hosts for the production of protein therapeutics. In addition to high expression of the product gene, a hyper-producer must also harbor superior phenotypic traits related to metabolism, protein secretion, and growth control. Introduction of genes endowing the relevant hyper-productivity traits is a strategy frequently used to enhance the productivity. Most of such cell engineering efforts have been performed using constitutive expression systems. However, cells respond to various environmental cues and cellular events dynamically according to cellular needs. The use of inducible systems allows for time dependent expression, but requires external manipulation. Ideally, a transgene's expression should be synchronous to the host cell's own rhythm, and at levels appropriate for the objective. To that end, we identified genes with different expression dynamics and intensity ranges using pooled transcriptome data. Their promoters may be used to drive the expression of the transgenes following the desired dynamics. We isolated the promoter of the Thioredoxin-interacting protein (Txnip) gene and demonstrated its capability to drive transgene expression in concert with cell growth. We further employed this Chinese hamster promoter to engineer dynamic expression of the mouse GLUT5 fructose transporter in Chinese hamster ovary (CHO) cells, enabling them to utilize sugar according to cellular needs rather than in excess as typically seen in culture. Thus, less lactate was produced, resulting in a better growth rate, prolonged culture duration, and higher product titer. This approach illustrates a novel concept in metabolic engineering which can potentially be used to achieve dynamic control of cellular behaviors for enhanced process characteristics. © 2013 Published by Elsevier Inc.

Development of a High Dynamic Range Pixel Array Detector for Synchrotrons and XFELs

Science.gov (United States)

Weiss, Joel Todd

Advances in synchrotron radiation light source technology have opened new lines of inquiry in material science, biology, and everything in between. However, x-ray detector capabilities must advance in concert with light source technology to fully realize experimental possibilities. X-ray free electron lasers (XFELs) place particularly large demands on the capabilities of detectors, and developments towards diffraction-limited storage ring sources also necessitate detectors capable of measuring very high flux [1-3]. The detector described herein builds on the Mixed Mode Pixel Array Detector (MM-PAD) framework, developed previously by our group to perform high dynamic range imaging, and the Adaptive Gain Integrating Pixel Detector (AGIPD) developed for the European XFEL by a collaboration between Deustsches Elektronen-Synchrotron (DESY), the Paul-Scherrer-Institute (PSI), the University of Hamburg, and the University of Bonn, led by Heinz Graafsma [4, 5]. The feasibility of combining adaptive gain with charge removal techniques to increase dynamic range in XFEL experiments is assessed by simulating XFEL scatter with a pulsed infrared laser. The strategy is incorporated into pixel prototypes which are evaluated with direct current injection to simulate very high incident x-ray flux. A fully functional 16x16 pixel hybrid integrating x-ray detector featuring several different pixel architectures based on the prototypes was developed. This dissertation describes its operation and characterization. To extend dynamic range, charge is removed from the integration node of the front-end amplifier without interrupting integration. The number of times this process occurs is recorded by a digital counter in the pixel. The parameter limiting full well is thereby shifted from the size of an integration capacitor to the depth of a digital counter. The result is similar to that achieved by counting pixel array detectors, but the integrators presented here are designed to tolerate a

New segmentation-based tone mapping algorithm for high dynamic range image

Science.gov (United States)

Duan, Weiwei; Guo, Huinan; Zhou, Zuofeng; Huang, Huimin; Cao, Jianzhong

2017-07-01

The traditional tone mapping algorithm for the display of high dynamic range (HDR) image has the drawback of losing the impression of brightness, contrast and color information. To overcome this phenomenon, we propose a new tone mapping algorithm based on dividing the image into different exposure regions in this paper. Firstly, the over-exposure region is determined using the Local Binary Pattern information of HDR image. Then, based on the peak and average gray of the histogram, the under-exposure and normal-exposure region of HDR image are selected separately. Finally, the different exposure regions are mapped by differentiated tone mapping methods to get the final result. The experiment results show that the proposed algorithm achieve the better performance both in visual quality and objective contrast criterion than other algorithms.

Elasto/visco-plastic dynamic response of multi-layered shells of revolution

International Nuclear Information System (INIS)

Takezono, S.; Tao, K.; Taguchi, T.

1989-01-01

Many investigations of the elasto/visco-plastic dynamic response of shells have been conducted. These investigations, however, have been mostly concerned with the case of single-layered shells, and few studies on multi-layered shells have been reported in spite of their importance in engineering. In this paper, the authors study the elasto/visco-plastic dynamic response of the multi-layered shells of revolution subjected to impulsive loads. The equations of motion and the relations between the strains and displacements are derived by extending Sanders' theory for elastic thin shells. As the constitutive relation, Hooke's law is used in the linear elastic range, and the elasto/visco-plastic equations are employed in the plastic range. The criterion for yielding used in the analysis is the von Mises yield theory. In the numerical analysis of the fundamental equations for incremental values an usual finite difference form is employed for the spatial derivatives and the inertia terms are treated with the backward difference formula. The solutions are obtained by summation of the incremental values

A high sensitive 66 dB linear dynamic range receiver for 3-D laser radar

Science.gov (United States)

Ma, Rui; Zheng, Hao; Zhu, Zhangming

2017-08-01

This study presents a CMOS receiver chip realized in 0.18 μm standard CMOS technology and intended for high precision 3-D laser radar. The chip includes an adjustable gain transimpedance pre-amplifier, a post-amplifier and two timing comparators. An additional feedback is employed in the regulated cascode transimpedance amplifier to decrease the input impedance, and a variable gain transimpedance amplifier controlled by digital switches and analog multiplexer is utilized to realize four gain modes, extending the input dynamic range. The measurement shows that the highest transimpedance of the channel is 50 k {{Ω }}, the uncompensated walk error is 1.44 ns in a wide linear dynamic range of 66 dB (1:2000), and the input referred noise current is 2.3 pA/\\sqrt{{Hz}} (rms), resulting in a very low detectable input current of 1 μA with SNR = 5.

Isolation and characterization of CXC receptor genes in a range of elasmobranchs.

Science.gov (United States)

Goostrey, Anna; Jones, Gareth; Secombes, Christopher J

2005-01-01

The CXC group of chemokines exert their cellular effects via the CXCR group of G-protein coupled receptors. Six CXCR genes have been identified in humans (CXCR1-6), and homologues to some of these have been isolated from a range of vertebrate species. Here we isolate and characterize CXCR genes from a range of elasmobranch species. One CXCR1/2 gene fragment isolated from Scyliorhinus caniculus (lesser spotted catshark), and two CXCR1/2 copies from each of the elasmobranchs, Cetorhinus maximus (basking shark), Carcharodon carcharias (great white shark), and Raja naevus (cuckoo ray), exhibit high similarity to both CXCR1 and CXCR2. The two copies evident in the cuckoo ray and lamniform sharks provide strong evidence of CXCR1/2 lineage specific duplication in rays and sharks. A CXCR fragment isolated from Lamna ditropis (salmon shark) shows high similarity to a range of CXCR4 genes and strong clustering with CXCR4 gene homologues was apparent during phylogenetic reconstruction.

Development and testing of a fast Fourier transform high dynamic-range spectral diagnostics for millimeter wave characterization

International Nuclear Information System (INIS)

Thoen, D. J.; Bongers, W. A.; Westerhof, E.; Baar, M. R. de; Berg, M. A. van den; Beveren, V. van; Goede, A. P. H.; Graswinckel, M. F.; Schueller, F. C.; Oosterbeek, J. W.; Buerger, A.; Hennen, B. A.

2009-01-01

A fast Fourier transform (FFT) based wide range millimeter wave diagnostics for spectral characterization of scattered millimeter waves in plasmas has been successfully brought into operation. The scattered millimeter waves are heterodyne downconverted and directly digitized using a fast analog-digital converter and a compact peripheral component interconnect computer. Frequency spectra are obtained by FFT in the time domain of the intermediate frequency signal. The scattered millimeter waves are generated during high power electron cyclotron resonance heating experiments on the TEXTOR tokamak and demonstrate the performance of the diagnostics and, in particular, the usability of direct digitizing and Fourier transformation of millimeter wave signals. The diagnostics is able to acquire 4 GHz wide spectra of signals in the range of 136-140 GHz. The rate of spectra is tunable and has been tested between 200 000 spectra/s with a frequency resolution of 100 MHz and 120 spectra/s with a frequency resolution of 25 kHz. The respective dynamic ranges are 52 and 88 dB. Major benefits of the new diagnostics are a tunable time and frequency resolution due to postdetection, near-real time processing of the acquired data. This diagnostics has a wider application in astrophysics, earth observation, plasma physics, and molecular spectroscopy for the detection and analysis of millimeter wave radiation, providing high-resolution spectra at high temporal resolution and large dynamic range.

Preamplifier development for high count-rate, large dynamic range readout of inorganic scintillators

Energy Technology Data Exchange (ETDEWEB)

Keshelashvili, Irakli; Erni, Werner; Steinacher, Michael; Krusche, Bernd; Collaboration: PANDA-Collaboration

2013-07-01

Electromagnetic calorimeter are central component of many experiments in nuclear and particle physics. Modern ''trigger less'' detectors run with very high count-rates, require good time and energy resolution, and large dynamic range. In addition photosensors and preamplifiers must work in hostile environments (magnetic fields). Due to later constraints mainly Avalanche Photo Diodes (APD's), Vacuum Photo Triodes (VPT's), and Vacuum Photo Tetrodes (VPTT's) are used. A disadvantage is their low gain which together with other requirements is a challenge for the preamplifier design. Our group has developed special Low Noise / Low Power (LNP) preamplifier for this purpose. They will be used to equip PANDA EMC forward end-cap (dynamic range 15'000, rate 1MHz), where the PWO II crystals and preamplifier have to run in an environment cooled down to -25{sup o}C. Further application is the upgrade of the Crystal Barrel detector at the Bonn ELSA accelerator with APD readout for which special temperature comparison of the APD gain and good time resolution is necessary. Development and all test procedures after the mass production done by our group during past several years in Basel University will be reported.

An improved method to estimate reflectance parameters for high dynamic range imaging

Science.gov (United States)

Li, Shiying; Deguchi, Koichiro; Li, Renfa; Manabe, Yoshitsugu; Chihara, Kunihiro

2008-01-01

Two methods are described to accurately estimate diffuse and specular reflectance parameters for colors, gloss intensity and surface roughness, over the dynamic range of the camera used to capture input images. Neither method needs to segment color areas on an image, or to reconstruct a high dynamic range (HDR) image. The second method improves on the first, bypassing the requirement for specific separation of diffuse and specular reflection components. For the latter method, diffuse and specular reflectance parameters are estimated separately, using the least squares method. Reflection values are initially assumed to be diffuse-only reflection components, and are subjected to the least squares method to estimate diffuse reflectance parameters. Specular reflection components, obtained by subtracting the computed diffuse reflection components from reflection values, are then subjected to a logarithmically transformed equation of the Torrance-Sparrow reflection model, and specular reflectance parameters for gloss intensity and surface roughness are finally estimated using the least squares method. Experiments were carried out using both methods, with simulation data at different saturation levels, generated according to the Lambert and Torrance-Sparrow reflection models, and the second method, with spectral images captured by an imaging spectrograph and a moving light source. Our results show that the second method can estimate the diffuse and specular reflectance parameters for colors, gloss intensity and surface roughness more accurately and faster than the first one, so that colors and gloss can be reproduced more efficiently for HDR imaging.

High dynamic range isotope ratio measurements using an analog electron multiplier

Czech Academy of Sciences Publication Activity Database

Williams, P.; Lorinčík, Jan; Franzreb, K.; Herwig, R.

2013-01-01

Roč. 45, č. 1 (2013), s. 549-552 ISSN 0142-2421 R&D Projects: GA MŠk ME 894 Institutional support: RVO:67985882 Keywords : Isotope ratios * electron multiplier * dynamic range Subject RIV: JA - Electronics ; Optoelectronics, Electrical Engineering Impact factor: 1.393, year: 2013

Tunable and reconfigurable multi-tap microwave photonic filter based on dynamic Brillouin gratings in fibers.

Science.gov (United States)

Sancho, J; Primerov, N; Chin, S; Antman, Y; Zadok, A; Sales, S; Thévenaz, L

2012-03-12

We propose and experimentally demonstrate new architectures to realize multi-tap microwave photonic filters, based on the generation of a single or multiple dynamic Brillouin gratings in polarization maintaining fibers. The spectral range and selectivity of the proposed periodic filters is extensively tunable, simply by reconfiguring the positions and the number of dynamic gratings along the fiber respectively. In this paper, we present a complete analysis of three different configurations comprising a microwave photonic filter implementation: a simple notch-type Mach-Zehnder approach with a single movable dynamic grating, a multi-tap performance based on multiple dynamic gratings and finally a stationary grating configuration based on the phase modulation of two counter-propagating optical waves by a common pseudo-random bit sequence (PRBS).

A multi-Poisson dynamic mixture model to cluster developmental patterns of gene expression by RNA-seq.

Science.gov (United States)

Ye, Meixia; Wang, Zhong; Wang, Yaqun; Wu, Rongling

2015-03-01

Dynamic changes of gene expression reflect an intrinsic mechanism of how an organism responds to developmental and environmental signals. With the increasing availability of expression data across a time-space scale by RNA-seq, the classification of genes as per their biological function using RNA-seq data has become one of the most significant challenges in contemporary biology. Here we develop a clustering mixture model to discover distinct groups of genes expressed during a period of organ development. By integrating the density function of multivariate Poisson distribution, the model accommodates the discrete property of read counts characteristic of RNA-seq data. The temporal dependence of gene expression is modeled by the first-order autoregressive process. The model is implemented with the Expectation-Maximization algorithm and model selection to determine the optimal number of gene clusters and obtain the estimates of Poisson parameters that describe the pattern of time-dependent expression of genes from each cluster. The model has been demonstrated by analyzing a real data from an experiment aimed to link the pattern of gene expression to catkin development in white poplar. The usefulness of the model has been validated through computer simulation. The model provides a valuable tool for clustering RNA-seq data, facilitating our global view of expression dynamics and understanding of gene regulation mechanisms. © The Author 2014. Published by Oxford University Press. For Permissions, please email: journals.permissions@oup.com.

Long range personalized cancer treatment strategies incorporating evolutionary dynamics.

Science.gov (United States)

Yeang, Chen-Hsiang; Beckman, Robert A

2016-10-22

approaches, by far the majority show an advantage of multi-step or ALTO over single-step optimization. ALTO-SMO delivers cure rates superior or equal to those of single- or multi-step optimization, in 2 and 3 drug cases respectively. In selected virtual patients incurable by dynamic precision medicine using single-step optimization, analogous strategies that "think ahead" can deliver long-term survival and cure without any disadvantage for non-responders. When therapies require dose reduction in combination (due to toxicity), optimal strategies feature complex patterns involving rapidly interleaved pulses of combinations and high dose monotherapy. This article was reviewed by Wendy Cornell, Marek Kimmel, and Andrzej Swierniak. Wendy Cornell and Andrzej Swierniak are external reviewers (not members of the Biology Direct editorial board). Andrzej Swierniak was nominated by Marek Kimmel.

High Dynamic Range RF Front End with Noise Cancellation and Linearization for WiMAX Receivers

Directory of Open Access Journals (Sweden)

J.-M. Wu

2012-06-01

Full Text Available This research deals with verification of the high dynamic range for a heterodyne radio frequency (RF front end. A 2.6 GHz RF front end is designed and implemented in a hybrid microwave integrated circuit (HMIC for worldwide interoperability for microwave access (WiMAX receivers. The heterodyne RF front end consists of a low-noise amplifier (LNA with noise cancellation, an RF bandpass filter (BPF, a downconverter with linearization, and an intermediate frequency (IF BPF. A noise canceling technique used in the low-noise amplifier eliminates a thermal noise and then reduces the noise figure (NF of the RF front end by 0.9 dB. Use of a downconverter with diode linearizer also compensates for gain compression, which increases the input-referred third-order intercept point (IIP3 of the RF front end by 4.3 dB. The proposed method substantially increases the spurious-free dynamic range (DRf of the RF front end by 3.5 dB.

Multi-GNSS high-rate RTK, PPP and novel direct phase observation processing method: application to precise dynamic displacement detection

Science.gov (United States)

Paziewski, Jacek; Sieradzki, Rafal; Baryla, Radoslaw

2018-03-01

This paper provides the methodology and performance assessment of multi-GNSS signal processing for the detection of small-scale high-rate dynamic displacements. For this purpose, we used methods of relative (RTK) and absolute positioning (PPP), and a novel direct signal processing approach. The first two methods are recognized as providing accurate information on position in many navigation and surveying applications. The latter is an innovative method for dynamic displacement determination with the use of GNSS phase signal processing. This method is based on the developed functional model with parametrized epoch-wise topocentric relative coordinates derived from filtered GNSS observations. Current regular kinematic PPP positioning, as well as medium/long range RTK, may not offer coordinate estimates with subcentimeter precision. Thus, extended processing strategies of absolute and relative GNSS positioning have been developed and applied for displacement detection. The study also aimed to comparatively analyze the developed methods as well as to analyze the impact of combined GPS and BDS processing and the dependence of the results of the relative methods on the baseline length. All the methods were implemented with in-house developed software allowing for high-rate precise GNSS positioning and signal processing. The phase and pseudorange observations collected with a rate of 50 Hz during the field test served as the experiment’s data set. The displacements at the rover station were triggered in the horizontal plane using a device which was designed and constructed to ensure a periodic motion of GNSS antenna with an amplitude of ~3 cm and a frequency of ~4.5 Hz. Finally, a medium range RTK, PPP, and direct phase observation processing method demonstrated the capability of providing reliable and consistent results with the precision of the determined dynamic displacements at the millimeter level. Specifically, the research shows that the standard deviation of

A Multi-Actor Dynamic Integrated Assessment Model (MADIAM)

OpenAIRE

Weber, Michael

2004-01-01

The interactions between climate and the socio-economic system are investigated with a Multi-Actor Dynamic Integrated Assessment Model (MADIAM) obtained by coupling a nonlinear impulse response model of the climate sub-system (NICCS) to a multi-actor dynamic economic model (MADEM). The main goal is to initiate a model development that is able to treat the dynamics of the coupled climate socio-economic system, including endogenous technological change, in a non-equilibrium situation, thereby o...

Dynamic bowtie filter for cone-beam/multi-slice CT.

Directory of Open Access Journals (Sweden)

Fenglin Liu

Full Text Available A pre-patient attenuator ("bowtie filter" or "bowtie" is used to modulate an incoming x-ray beam as a function of the angle of the x-ray with respect to a patient to balance the photon flux on a detector array. While the current dynamic bowtie design is focused on fan-beam geometry, in this study we propose a methodology for dynamic bowtie design in multi-slice/cone-beam geometry. The proposed 3D dynamic bowtie is an extension of the 2D prior art. The 3D bowtie consists of a highly attenuating bowtie (HB filled in with heavy liquid and a weakly attenuating bowtie (WB immersed in the liquid of the HB. The HB targets a balanced flux distribution on a detector array when no object is in the field of view (FOV. The WB compensates for an object in the FOV, and hence is a scaled-down version of the object. The WB is rotated and translated in synchrony with the source rotation and patient translation so that the overall flux balance is maintained on the detector array. First, the mathematical models of different scanning modes are established for an elliptical water phantom. Then, a numerical simulation study is performed to compare the performance of the scanning modes in the cases of the water phantom and a patient cross-section without any bowtie and with a dynamic bowtie. The dynamic bowtie can equalize the numbers of detected photons in the case of the water phantom. In practical cases, the dynamic bowtie can effectively reduce the dynamic range of detected signals inside the FOV. Furthermore, the WB can be individualized using a 3D printing technique as the gold standard. We have extended the dynamic bowtie concept from 2D to 3D by using highly attenuating liquid and moving a scale-reduced negative copy of an object being scanned. Our methodology can be applied to reduce radiation dose and facilitate photon-counting detection.

MultiLoc2: integrating phylogeny and Gene Ontology terms improves subcellular protein localization prediction

Directory of Open Access Journals (Sweden)

Kohlbacher Oliver

2009-09-01

Full Text Available Abstract Background Knowledge of subcellular localization of proteins is crucial to proteomics, drug target discovery and systems biology since localization and biological function are highly correlated. In recent years, numerous computational prediction methods have been developed. Nevertheless, there is still a need for prediction methods that show more robustness and higher accuracy. Results We extended our previous MultiLoc predictor by incorporating phylogenetic profiles and Gene Ontology terms. Two different datasets were used for training the system, resulting in two versions of this high-accuracy prediction method. One version is specialized for globular proteins and predicts up to five localizations, whereas a second version covers all eleven main eukaryotic subcellular localizations. In a benchmark study with five localizations, MultiLoc2 performs considerably better than other methods for animal and plant proteins and comparably for fungal proteins. Furthermore, MultiLoc2 performs clearly better when using a second dataset that extends the benchmark study to all eleven main eukaryotic subcellular localizations. Conclusion MultiLoc2 is an extensive high-performance subcellular protein localization prediction system. By incorporating phylogenetic profiles and Gene Ontology terms MultiLoc2 yields higher accuracies compared to its previous version. Moreover, it outperforms other prediction systems in two benchmarks studies. MultiLoc2 is available as user-friendly and free web-service, available at: http://www-bs.informatik.uni-tuebingen.de/Services/MultiLoc2.

Nonlinear dynamic range transformation in visual communication channels.

Science.gov (United States)

Alter-Gartenberg, R

1996-01-01

The article evaluates nonlinear dynamic range transformation in the context of the end-to-end continuous-input/discrete processing/continuous-display imaging process. Dynamic range transformation is required when we have the following: (i) the wide dynamic range encountered in nature is compressed into the relatively narrow dynamic range of the display, particularly for spatially varying irradiance (e.g., shadow); (ii) coarse quantization is expanded to the wider dynamic range of the display; and (iii) nonlinear tone scale transformation compensates for the correction in the camera amplifier.

Contributions of dopamine-related genes and environmental factors to highly sensitive personality: a multi-step neuronal system-level approach.

Directory of Open Access Journals (Sweden)

Chunhui Chen

Full Text Available Traditional behavioral genetic studies (e.g., twin, adoption studies have shown that human personality has moderate to high heritability, but recent molecular behavioral genetic studies have failed to identify quantitative trait loci (QTL with consistent effects. The current study adopted a multi-step approach (ANOVA followed by multiple regression and permutation to assess the cumulative effects of multiple QTLs. Using a system-level (dopamine system genetic approach, we investigated a personality trait deeply rooted in the nervous system (the Highly Sensitive Personality, HSP. 480 healthy Chinese college students were given the HSP scale and genotyped for 98 representative polymorphisms in all major dopamine neurotransmitter genes. In addition, two environment factors (stressful life events and parental warmth that have been implicated for their contributions to personality development were included to investigate their relative contributions as compared to genetic factors. In Step 1, using ANOVA, we identified 10 polymorphisms that made statistically significant contributions to HSP. In Step 2, these polymorphism's main effects and interactions were assessed using multiple regression. This model accounted for 15% of the variance of HSP (p<0.001. Recent stressful life events accounted for an additional 2% of the variance. Finally, permutation analyses ascertained the probability of obtaining these findings by chance to be very low, p ranging from 0.001 to 0.006. Dividing these loci by the subsystems of dopamine synthesis, degradation/transport, receptor and modulation, we found that the modulation and receptor subsystems made the most significant contribution to HSP. The results of this study demonstrate the utility of a multi-step neuronal system-level approach in assessing genetic contributions to individual differences in human behavior. It can potentially bridge the gap between the high heritability estimates based on traditional

Phylogenetics and Gene Structure Dynamics of Polygalacturonase Genes in Aspergillus and Neurospora crassa

Directory of Open Access Journals (Sweden)

Jin-Sung Hong

2013-09-01

Full Text Available Polygalacturonase (PG gene is a typical gene family present in eukaryotes. Forty-nine PGs were mined from the genomes of Neurospora crassa and five Aspergillus species. The PGs were classified into 3 clades such as clade 1 for rhamno-PGs, clade 2 for exo-PGs and clade 3 for exo- and endo-PGs, which were further grouped into 13 sub-clades based on the polypeptide sequence similarity. In gene structure analysis, a total of 124 introns were present in 44 genes and five genes lacked introns to give an average of 2.5 introns per gene. Intron phase distribution was 64.5% for phase 0, 21.8% for phase 1, and 13.7% for phase 2, respectively. The introns varied in their sequences and their lengths ranged from 20 bp to 424 bp with an average of 65.9 bp, which is approximately half the size of introns in other fungal genes. There were 29 homologous intron blocks and 26 of those were sub-clade specific. Intron losses were counted in 18 introns in which no obvious phase preference for intron loss was observed. Eighteen introns were placed at novel positions, which is considerably higher than those of plant PGs. In an evolutionary sense both intron loss and gain must have taken place for shaping the current PGs in these fungi. Together with the small intron size, low conservation of homologous intron blocks and higher number of novel introns, PGs of fungal species seem to have recently undergone highly dynamic evolution.

Modeling and Simulation of the Multi-module High Temperature Gas-cooled Reactor

International Nuclear Information System (INIS)

Liu Dan; Sun Jun; Sui Zhe; Xu Xiaolin; Ma Yuanle; Sun Yuliang

2014-01-01

The modular high temperature gas-cooled reactor (MHTGR) is characterized with the inherent safety. To enhance its economic benefit, the capital cost of MHTGR can be decreased by combining more reactor modules into one unit and realize the batch constructions in the concept of modularization. In the research and design of the multi-module reactors, one difficulty is to clarify the coupling effects of different modules in operating the reactors due to the shared feed water and main steam systems in the secondary loop. In the advantages of real-time simulation and coupling calculations of different modules and sub-systems, the operation of multi-module reactors can be studied and analyzed to understand the range and extent of the coupling effects. In the current paper; the engineering simulator for the multi-module reactors was realized and able to run in high performance computers, based on the research experience of the HTR-PM engineering simulator. The models were detailed introduced including the primary and secondary loops. The steady state of full power operation was demonstrated to show the good performance of six-module reactors. Typical dynamic processes, such as adjusting feed water flow rates and shutting down one reactor; were also tested to study the coupling effects in multi-module reactors. (author)

Dynamic Multi-Coil Shimming of the Human Brain at 7 Tesla

Science.gov (United States)

Juchem, Christoph; Nixon, Terence W.; McIntyre, Scott; Boer, Vincent O.; Rothman, Douglas L.; de Graaf, Robin A.

2011-01-01

High quality magnetic field homogenization of the human brain (i.e. shimming) for MR imaging and spectroscopy is a demanding task. The susceptibility differences between air and tissue are a longstanding problem as they induce complex field distortions in the prefrontal cortex and the temporal lobes. To date, the theoretical gains of high field MR have only been realized partially in the human brain due to limited magnetic field homogeneity. A novel shimming technique for the human brain is presented that is based on the combination of non-orthogonal basis fields from 48 individual, circular coils. Custom-built amplifier electronics enabled the dynamic application of the multi-coil shim fields in a slice-specific fashion. Dynamic multi-coil (DMC) shimming is shown to eliminate most of the magnetic field inhomogeneity apparent in the human brain at 7 Tesla and provided improved performance compared to state-of-the-art dynamic shim updating with zero through third order spherical harmonic functions. The novel technique paves the way for high field MR applications of the human brain for which excellent magnetic field homogeneity is a prerequisite. PMID:21824794

Video Enhancement and Dynamic Range Control of HDR Sequences for Automotive Applications

Directory of Open Access Journals (Sweden)

Giovanni Ramponi

2007-01-01

Full Text Available CMOS video cameras with high dynamic range (HDR output are particularly suitable for driving assistance applications, where lighting conditions can strongly vary, going from direct sunlight to dark areas in tunnels. However, common visualization devices can only handle a low dynamic range, and thus a dynamic range reduction is needed. Many algorithms have been proposed in the literature to reduce the dynamic range of still pictures. Anyway, extending the available methods to video is not straightforward, due to the peculiar nature of video data. We propose an algorithm for both reducing the dynamic range of video sequences and enhancing its appearance, thus improving visual quality and reducing temporal artifacts. We also provide an optimized version of our algorithm for a viable hardware implementation on an FPGA. The feasibility of this implementation is demonstrated by means of a case study.

Comparison of three different concepts of high dynamic range and dependability optimised current measurement digitisers for beam loss systems

CERN Document Server

Viganò, W; Effinger, E; Venturini, G G; Zamantzas, C

2012-01-01

Three Different Concepts of High Dynamic Range and Dependability Optimised Current Measurement Digitisers for Beam Loss Systems will be compared on this paper. The first concept is based on Current to Frequency Conversion, enhanced with an ADC for extending the dynamic range and decreasing the response time. A summary of 3 years’ worth of operational experience with such a system for LHC beam loss monitoring will be given. The second principle is based on an Adaptive Current to Frequency Converter implemented in an ASIC. The basic parameters of the circuit are discussed and compared with measurements. Several measures are taken to harden both circuits against single event effects and to make them tolerant for operation in radioactive environments. The third circuit is based on a Fully Differential Integrator for enhanced dynamic range, where laboratory and test installation measurements will be presented. All circuits are designed to avoid any dead time in the acquisition and have reliability and fail safe...

Dynamical scales for multi-TeV top-pair production at the LHC

Energy Technology Data Exchange (ETDEWEB)

Czakon, Michał [Institut für Theoretische Teilchenphysik und Kosmologie, RWTH Aachen University,Aachen, D-52056 (Germany); Heymes, David; Mitov, Alexander [Cavendish Laboratory, University of Cambridge,Cambridge, CB3 0HE (United Kingdom)

2017-04-12

We calculate all major differential distributions with stable top-quarks at the LHC. The calculation covers the multi-TeV range that will be explored during LHC Run II and beyond. Our results are in the form of high-quality binned distributions. We offer predictions based on three different parton distribution function (pdf) sets. In the near future we will make our results available also in the more flexible fastNLO format that allows fast re-computation with any other pdf set. In order to be able to extend our calculation into the multi-TeV range we have had to derive a set of dynamic scales. Such scales are selected based on the principle of fastest perturbative convergence applied to the differential and inclusive cross-section. Many observations from our study are likely to be applicable and useful to other precision processes at the LHC. With scale uncertainty now under good control, pdfs arise as the leading source of uncertainty for TeV top production. Based on our findings, true precision in the boosted regime will likely only be possible after new and improved pdf sets appear. We expect that LHC top-quark data will play an important role in this process.

Optimizing the Performance of Reactive Molecular Dynamics Simulations for Multi-core Architectures

Energy Technology Data Exchange (ETDEWEB)

Aktulga, Hasan Metin [Michigan State Univ., East Lansing, MI (United States); Coffman, Paul [Argonne National Lab. (ANL), Argonne, IL (United States); Shan, Tzu-Ray [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Knight, Chris [Argonne National Lab. (ANL), Argonne, IL (United States); Jiang, Wei [Argonne National Lab. (ANL), Argonne, IL (United States)

2015-12-01

Hybrid parallelism allows high performance computing applications to better leverage the increasing on-node parallelism of modern supercomputers. In this paper, we present a hybrid parallel implementation of the widely used LAMMPS/ReaxC package, where the construction of bonded and nonbonded lists and evaluation of complex ReaxFF interactions are implemented efficiently using OpenMP parallelism. Additionally, the performance of the QEq charge equilibration scheme is examined and a dual-solver is implemented. We present the performance of the resulting ReaxC-OMP package on a state-of-the-art multi-core architecture Mira, an IBM BlueGene/Q supercomputer. For system sizes ranging from 32 thousand to 16.6 million particles, speedups in the range of 1.5-4.5x are observed using the new ReaxC-OMP software. Sustained performance improvements have been observed for up to 262,144 cores (1,048,576 processes) of Mira with a weak scaling efficiency of 91.5% in larger simulations containing 16.6 million particles.

Increase of the dynamic range of catchup experiments by high-pass filtering

Energy Technology Data Exchange (ETDEWEB)

Erskine, D.J.

1995-08-01

The release-catchup shock experiment is an important tool for measuring the speed of sound in compressed matter. The catchup of the release wave to the leading shock is sensitively detected optically, through an indicating fluid which produces light approximately to the 4th power of the shock pressure. However, this sensitivity demands a dynamic range which exceeds the capabilities of our digitizer. The catchup signature lies at the top of a flat pulse, thus any signal clipping is a catastrophic loss of data. We have invented a simple and accurate method for recording the catchup signature that is insensitive to signal clipping. A high pass circuit prior to the digitizer is used with post experiment integration. The insensitivity to clipping allows recording the catchup signature at higher gain, and thus with an improved signal to noise ratio.

On multi-dissipative dynamic systems

DEFF Research Database (Denmark)

Thygesen, Uffe Høgsbro

1999-01-01

We consider deterministic dynamic systems with state space representations which are dissipative in the sense of Willems (1972) with respect to several supply rates. This property is of interest in robustness analysis and in multi-objective control. We give conditions under which the convex cone...

Modeling a color-rendering operator for high dynamic range images using a cone-response function

Science.gov (United States)

Choi, Ho-Hyoung; Kim, Gi-Seok; Yun, Byoung-Ju

2015-09-01

Tone-mapping operators are the typical algorithms designed to produce visibility and the overall impression of brightness, contrast, and color of high dynamic range (HDR) images on low dynamic range (LDR) display devices. Although several new tone-mapping operators have been proposed in recent years, the results of these operators have not matched those of the psychophysical experiments based on the human visual system. A color-rendering model that is a combination of tone-mapping and cone-response functions using an XYZ tristimulus color space is presented. In the proposed method, the tone-mapping operator produces visibility and the overall impression of brightness, contrast, and color in HDR images when mapped onto relatively LDR devices. The tone-mapping resultant image is obtained using chromatic and achromatic colors to avoid well-known color distortions shown in the conventional methods. The resulting image is then processed with a cone-response function wherein emphasis is placed on human visual perception (HVP). The proposed method covers the mismatch between the actual scene and the rendered image based on HVP. The experimental results show that the proposed method yields an improved color-rendering performance compared to conventional methods.

Explicit/multi-parametric model predictive control (MPC) of linear discrete-time systems by dynamic and multi-parametric programming

KAUST Repository

Kouramas, K.I.

2011-08-01

This work presents a new algorithm for solving the explicit/multi- parametric model predictive control (or mp-MPC) problem for linear, time-invariant discrete-time systems, based on dynamic programming and multi-parametric programming techniques. The algorithm features two key steps: (i) a dynamic programming step, in which the mp-MPC problem is decomposed into a set of smaller subproblems in which only the current control, state variables, and constraints are considered, and (ii) a multi-parametric programming step, in which each subproblem is solved as a convex multi-parametric programming problem, to derive the control variables as an explicit function of the states. The key feature of the proposed method is that it overcomes potential limitations of previous methods for solving multi-parametric programming problems with dynamic programming, such as the need for global optimization for each subproblem of the dynamic programming step. © 2011 Elsevier Ltd. All rights reserved.

Optimization of multi-response dynamic systems integrating multiple ...

African Journals Online (AJOL)

regression and Taguchi's dynamic signal-to-noise ratio concept ..... algorithm for dynamic multi-response optimization based on goal programming approach. .... problem-solving confirmation, if no grave infringement of model suppositions is ...

Increasing Linear Dynamic Range of a CMOS Image Sensor

Science.gov (United States)

Pain, Bedabrata

2007-01-01

A generic design and a corresponding operating sequence have been developed for increasing the linear-response dynamic range of a complementary metal oxide/semiconductor (CMOS) image sensor. The design provides for linear calibrated dual-gain pixels that operate at high gain at a low signal level and at low gain at a signal level above a preset threshold. Unlike most prior designs for increasing dynamic range of an image sensor, this design does not entail any increase in noise (including fixed-pattern noise), decrease in responsivity or linearity, or degradation of photometric calibration. The figure is a simplified schematic diagram showing the circuit of one pixel and pertinent parts of its column readout circuitry. The conventional part of the pixel circuit includes a photodiode having a small capacitance, CD. The unconventional part includes an additional larger capacitance, CL, that can be connected to the photodiode via a transfer gate controlled in part by a latch. In the high-gain mode, the signal labeled TSR in the figure is held low through the latch, which also helps to adapt the gain on a pixel-by-pixel basis. Light must be coupled to the pixel through a microlens or by back illumination in order to obtain a high effective fill factor; this is necessary to ensure high quantum efficiency, a loss of which would minimize the efficacy of the dynamic- range-enhancement scheme. Once the level of illumination of the pixel exceeds the threshold, TSR is turned on, causing the transfer gate to conduct, thereby adding CL to the pixel capacitance. The added capacitance reduces the conversion gain, and increases the pixel electron-handling capacity, thereby providing an extension of the dynamic range. By use of an array of comparators also at the bottom of the column, photocharge voltages on sampling capacitors in each column are compared with a reference voltage to determine whether it is necessary to switch from the high-gain to the low-gain mode. Depending upon

Multi-species sequence comparison reveals dynamic evolution of the elastin gene that has involved purifying selection and lineage-specific insertions/deletions

Directory of Open Access Journals (Sweden)

Green Eric D

2004-05-01

Full Text Available Abstract Background The elastin gene (ELN is implicated as a factor in both supravalvular aortic stenosis (SVAS and Williams Beuren Syndrome (WBS, two diseases involving pronounced complications in mental or physical development. Although the complete spectrum of functional roles of the processed gene product remains to be established, these roles are inferred to be analogous in human and mouse. This view is supported by genomic sequence comparison, in which there are no large-scale differences in the ~1.8 Mb sequence block encompassing the common region deleted in WBS, with the exception of an overall reversed physical orientation between human and mouse. Results Conserved synteny around ELN does not translate to a high level of conservation in the gene itself. In fact, ELN orthologs in mammals show more sequence divergence than expected for a gene with a critical role in development. The pattern of divergence is non-conventional due to an unusually high ratio of gaps to substitutions. Specifically, multi-sequence alignments of eight mammalian sequences reveal numerous non-aligning regions caused by species-specific insertions and deletions, in spite of the fact that the vast majority of aligning sites appear to be conserved and undergoing purifying selection. Conclusions The pattern of lineage-specific, in-frame insertions/deletions in the coding exons of ELN orthologous genes is unusual and has led to unique features of the gene in each lineage. These differences may indicate that the gene has a slightly different functional mechanism in mammalian lineages, or that the corresponding regions are functionally inert. Identified regions that undergo purifying selection reflect a functional importance associated with evolutionary pressure to retain those features.

Precise regulation of gene expression dynamics favors complex promoter architectures.

Directory of Open Access Journals (Sweden)

Dirk Müller

2009-01-01

Full Text Available Promoters process signals through recruitment of transcription factors and RNA polymerase, and dynamic changes in promoter activity constitute a major noise source in gene expression. However, it is barely understood how complex promoter architectures determine key features of promoter dynamics. Here, we employ prototypical promoters of yeast ribosomal protein genes as well as simplified versions thereof to analyze the relations among promoter design, complexity, and function. These promoters combine the action of a general regulatory factor with that of specific transcription factors, a common motif of many eukaryotic promoters. By comprehensively analyzing stationary and dynamic promoter properties, this model-based approach enables us to pinpoint the structural characteristics underlying the observed behavior. Functional tradeoffs impose constraints on the promoter architecture of ribosomal protein genes. We find that a stable scaffold in the natural design results in low transcriptional noise and strong co-regulation of target genes in the presence of gene silencing. This configuration also exhibits superior shut-off properties, and it can serve as a tunable switch in living cells. Model validation with independent experimental data suggests that the models are sufficiently realistic. When combined, our results offer a mechanistic explanation for why specific factors are associated with low protein noise in vivo. Many of these findings hold for a broad range of model parameters and likely apply to other eukaryotic promoters of similar structure.

Multi-exon deletions of the FBN1 gene in Marfan syndrome

Directory of Open Access Journals (Sweden)

Schrijver Iris

2001-10-01

Full Text Available Abstract Background Mutations in the fibrillin -1 gene (FBN1 cause Marfan syndrome (MFS, an autosomal dominant multi-system connective tissue disorder. The 200 different mutations reported in the 235 kb, 65 exon-containing gene include only one family with a genomic multi-exon deletion. Methods We used long-range RT-PCR for mutation detection and long-range genomic PCR and DNA sequencing for identification of deletion breakpoints, allele-specific transcript analyses to determine stability of the mutant RNA, and pulse-chase studies to quantitate fibrillin synthesis and extracellular matrix deposition in cultured fibroblasts. Southern blots of genomic DNA were probed with three overlapping fragments covering the FBN1 coding exons Results Two novel multi-exon FBN1 deletions were discovered. Identical nucleotide pentamers were found at or near the intronic breakpoints. In a Case with classic MFS, an in-frame deletion of exons 42 and 43 removed the C-terminal 24 amino acids of the 5th LTBP (8-cysteine domain and the adjacent 25th calcium-binding EGF-like (6-cysteine domain. The mutant mRNA was stable, but fibrillin synthesis and matrix deposition were significantly reduced. A Case with severe childhood-onset MFS has a de novo deletion of exons 44–46 that removed three EGF-like domains. Fibrillin protein synthesis was normal, but matrix deposition was strikingly reduced. No genomic rearrangements were detected by Southern analysis of 18 unrelated MFS samples negative for FBN1 mutation screening. Conclusions Two novel deletion cases expand knowledge of mutational mechanisms and genotype/phenotype correlations of fibrillinopathies. Deletions or mutations affecting an LTBP domain may result in unstable mutant protein cleavage products that interfere with microfibril assembly.

Extended-Range High-Resolution Dynamical Downscaling over a Continental-Scale Domain

Science.gov (United States)

Husain, S. Z.; Separovic, L.; Yu, W.; Fernig, D.

2014-12-01

High-resolution mesoscale simulations, when applied for downscaling meteorological fields over large spatial domains and for extended time periods, can provide valuable information for many practical application scenarios including the weather-dependent renewable energy industry. In the present study, a strategy has been proposed to dynamically downscale coarse-resolution meteorological fields from Environment Canada's regional analyses for a period of multiple years over the entire Canadian territory. The study demonstrates that a continuous mesoscale simulation over the entire domain is the most suitable approach in this regard. Large-scale deviations in the different meteorological fields pose the biggest challenge for extended-range simulations over continental scale domains, and the enforcement of the lateral boundary conditions is not sufficient to restrict such deviations. A scheme has therefore been developed to spectrally nudge the simulated high-resolution meteorological fields at the different model vertical levels towards those embedded in the coarse-resolution driving fields derived from the regional analyses. A series of experiments were carried out to determine the optimal nudging strategy including the appropriate nudging length scales, nudging vertical profile and temporal relaxation. A forcing strategy based on grid nudging of the different surface fields, including surface temperature, soil-moisture, and snow conditions, towards their expected values obtained from a high-resolution offline surface scheme was also devised to limit any considerable deviation in the evolving surface fields due to extended-range temporal integrations. The study shows that ensuring large-scale atmospheric similarities helps to deliver near-surface statistical scores for temperature, dew point temperature and horizontal wind speed that are better or comparable to the operational regional forecasts issued by Environment Canada. Furthermore, the meteorological fields

Influence of multi-exciton correlations on nonlinear polariton dynamics in semiconductor microcavities

International Nuclear Information System (INIS)

Wen, P; Nelson, Keith A; Christmann, G; Baumberg, J J

2013-01-01

Using two-dimensional spectroscopy, we resolve multi-polariton coherences in quantum wells embedded inside a semiconductor microcavity and elucidate how multi-exciton correlations mediate polariton nonlinear dynamics. We find that polariton correlation strengths depend on spectral overlap with the biexciton resonance and that up to at least four polaritons can be correlated, a higher-order correlation than observed to date among excitons in bare quantum wells. The high-order correlations can be attributed to coupling through the cavity mode, although the role of high-order Coulomb correlations cannot be excluded. (paper)

A constructive approach to gene expression dynamics

International Nuclear Information System (INIS)

Ochiai, T.; Nacher, J.C.; Akutsu, T.

2004-01-01

Recently, experiments on mRNA abundance (gene expression) have revealed that gene expression shows a stationary organization described by a scale-free distribution. Here we propose a constructive approach to gene expression dynamics which restores the scale-free exponent and describes the intermediate state dynamics. This approach requires only one assumption: Markov property

High Precision Stokes Polarimetry for Scattering Light using Wide Dynamic Range Intensity Detector

Directory of Open Access Journals (Sweden)

Shibata Shuhei

2015-01-01

Full Text Available This paper proposes a Stokes polarimetry for scattering light from a sample surface. To achieve a high accuracy measurement two approaches of an intensity detector and analysis algorism of a Stokes parameter were proposed. The dynamic range of this detector can achieve up to 1010 by combination of change of neutral-density (ND filters having different density and photon counting units. Stokes parameters can be measured by dual rotating of a retarder and an analyzer. The algorism of dual rotating polarimeter can be calibrated small linear diattenuation and linear retardance error of the retarder. This system can measured Stokes parameters from −20° to 70° of its scattering angle. It is possible to measure Stokes parameters of scattering of dust and scratch of optical device with high precision. This paper shows accuracy of this system, checking the polarization change of scattering angle and influence of beam size.

A high resolution large dynamic range TDC circuit implementation

International Nuclear Information System (INIS)

Lei Wuhu; Liu Songqiu; Ye Weiguo; Han Hui; Li Pengyu

2003-01-01

Time measurement technology is usually used in nuclear experimentation. There are many methods of time measurement. The implementation method of Time to Digital Conversion (TDC) by means of electronic is a classical technology. The range and resolution of TDC is different according with different usage. A wide range and high resolution TDC circuit, including its theory and implementation way, is introduced in this paper. The test result is also given. (authors)

A high resolution large dynamic range TDC circuit implementation

International Nuclear Information System (INIS)

Lei Wuhu; Liu Songqiu; Li Pengyu; Han Hui; Ye Yanlin

2005-01-01

Time measurement technology is usually used in nuclear experimentation. There are many methods of time measurement. The implementation method of Time to Digital Conversion (TDC) by means of electronics is a classical technology. The range and resolution of TDC is different according with different usage. A wide range and high resolution TDC circuit, including its theory and implementation way, is introduced in this paper. The test result is also given. (authors)

Mitochondrial uncouplers with an extraordinary dynamic range.

Science.gov (United States)

Lou, Phing-How; Hansen, Birgit S; Olsen, Preben H; Tullin, Søren; Murphy, Michael P; Brand, Martin D

2007-10-01

We have discovered that some weak uncouplers (typified by butylated hydroxytoluene) have a dynamic range of more than 10(6) in vitro: the concentration giving measurable uncoupling is less than one millionth of the concentration causing full uncoupling. They achieve this through a high-affinity interaction with the mitochondrial adenine nucleotide translocase that causes significant but limited uncoupling at extremely low uncoupler concentrations, together with more conventional uncoupling at much higher concentrations. Uncoupling at the translocase is not by a conventional weak acid/anion cycling mechanism since it is also caused by substituted triphenylphosphonium molecules, which are not anionic and cannot protonate. Covalent attachment of the uncoupler to a mitochondrially targeted hydrophobic cation sensitizes it to membrane potential, giving a small additional effect. The wide dynamic range of these uncouplers in isolated mitochondria and intact cells reveals a novel allosteric activation of proton transport through the adenine nucleotide translocase and provides a promising starting point for designing safer uncouplers for obesity therapy.

Development of Multi-Physics Dynamics Models for High-Frequency Large-Amplitude Structural Response Simulation

Science.gov (United States)

Derkevorkian, Armen; Peterson, Lee; Kolaini, Ali R.; Hendricks, Terry J.; Nesmith, Bill J.

2016-01-01

An analytic approach is demonstrated to reveal potential pyroshock -driven dynamic effects causing power losses in the Thermo -Electric (TE) module bars of the Mars Science Laboratory (MSL) Multi -Mission Radioisotope Thermoelectric Generator (MMRTG). This study utilizes high- fidelity finite element analysis with SIERRA/PRESTO codes to estimate wave propagation effects due to large -amplitude suddenly -applied pyro shock loads in the MMRTG. A high fidelity model of the TE module bar was created with approximately 30 million degrees -of-freedom (DOF). First, a quasi -static preload was applied on top of the TE module bar, then transient tri- axial acceleration inputs were simultaneously applied on the preloaded module. The applied input acceleration signals were measured during MMRTG shock qualification tests performed at the Jet Propulsion Laboratory. An explicit finite element solver in the SIERRA/PRESTO computational environment, along with a 3000 processor parallel super -computing framework at NASA -AMES, was used for the simulation. The simulation results were investigated both qualitatively and quantitatively. The predicted shock wave propagation results provide detailed structural responses throughout the TE module bar, and key insights into the dynamic response (i.e., loads, displacements, accelerations) of critical internal spring/piston compression systems, TE materials, and internal component interfaces in the MMRTG TE module bar. They also provide confidence on the viability of this high -fidelity modeling scheme to accurately predict shock wave propagation patterns within complex structures. This analytic approach is envisioned for modeling shock sensitive hardware susceptible to intense shock environments positioned near shock separation devices in modern space vehicles and systems.

Multi-lipofection efficiently transfected genes into astrocytes in primary culture.

Science.gov (United States)

Wu, B Y; Liu, R Y; So, K L; Yu, A C

2000-10-30

This study demonstrated that liposome-mediated transfection - lipofection - is suitable for delivering genes into astrocytes. By repeatedly lipofecting the same astrocyte cultures, a process we call multi-lipofection, the transfection efficiency of the beta-galactosidase (beta-gal) gene was improved from 2.6+/-0.6 to 17. 4+/-1.1%. This is the highest efficiency ever reported in gene-transfer with Lipofectin(R) in a primary culture of mouse cerebral cortical astrocytes. Furthermore, multi-lipofection did not cause observable disturbance to astrocytes as indicated by insignificant changes in the glial fibrillary acidic protein content in the cultures. In order to demonstrate that the transfected gene achieved a physiologically relevant expression level, a plasmid containing the pEF-hsp70 protein gene was lipofected into astrocytes. This produced colonies of astrocytes showing an increased resistance to heat-induced cell death. A similar experiment was performed with the glial-derived neurotrophic factor (GDNF) gene. Control astrocytes had no detectable GDNF. In the transfected astrocytes, the GDNF protein could be identified intracellularly by immunocytochemistry. Western blot analysis revealed, as compared to astrocytes with one lipofection, a 2.9-fold increase of GDNF with four lipofections. GDNF remained detectable in astrocytes 2 weeks after four lipofections. Thus, multi-lipofection provides a mild and efficient means of delivering foreign genes into astrocytes in a primary culture, making astrocytes good candidate vehicle cells for gene/cell therapy in the CNS.

Simple mathematical models of gene regulatory dynamics

CERN Document Server

Mackey, Michael C; Tyran-Kamińska, Marta; Zeron, Eduardo S

2016-01-01

This is a short and self-contained introduction to the field of mathematical modeling of gene-networks in bacteria. As an entry point to the field, we focus on the analysis of simple gene-network dynamics. The notes commence with an introduction to the deterministic modeling of gene-networks, with extensive reference to applicable results coming from dynamical systems theory. The second part of the notes treats extensively several approaches to the study of gene-network dynamics in the presence of noise—either arising from low numbers of molecules involved, or due to noise external to the regulatory process. The third and final part of the notes gives a detailed treatment of three well studied and concrete examples of gene-network dynamics by considering the lactose operon, the tryptophan operon, and the lysis-lysogeny switch. The notes contain an index for easy location of particular topics as well as an extensive bibliography of the current literature. The target audience of these notes are mainly graduat...

High-dynamic range compressive spectral imaging by grayscale coded aperture adaptive filtering

Directory of Open Access Journals (Sweden)

Nelson Eduardo Diaz

2015-09-01

Full Text Available The coded aperture snapshot spectral imaging system (CASSI is an imaging architecture which senses the three dimensional informa-tion of a scene with two dimensional (2D focal plane array (FPA coded projection measurements. A reconstruction algorithm takes advantage of the compressive measurements sparsity to recover the underlying 3D data cube. Traditionally, CASSI uses block-un-block coded apertures (BCA to spatially modulate the light. In CASSI the quality of the reconstructed images depends on the design of these coded apertures and the FPA dynamic range. This work presents a new CASSI architecture based on grayscaled coded apertu-res (GCA which reduce the FPA saturation and increase the dynamic range of the reconstructed images. The set of GCA is calculated in a real-time adaptive manner exploiting the information from the FPA compressive measurements. Extensive simulations show the attained improvement in the quality of the reconstructed images when GCA are employed.  In addition, a comparison between traditional coded apertures and GCA is realized with respect to noise tolerance.

Inferring gene expression dynamics via functional regression analysis

Directory of Open Access Journals (Sweden)

Leng Xiaoyan

2008-01-01

Full Text Available Abstract Background Temporal gene expression profiles characterize the time-dynamics of expression of specific genes and are increasingly collected in current gene expression experiments. In the analysis of experiments where gene expression is obtained over the life cycle, it is of interest to relate temporal patterns of gene expression associated with different developmental stages to each other to study patterns of long-term developmental gene regulation. We use tools from functional data analysis to study dynamic changes by relating temporal gene expression profiles of different developmental stages to each other. Results We demonstrate that functional regression methodology can pinpoint relationships that exist between temporary gene expression profiles for different life cycle phases and incorporates dimension reduction as needed for these high-dimensional data. By applying these tools, gene expression profiles for pupa and adult phases are found to be strongly related to the profiles of the same genes obtained during the embryo phase. Moreover, one can distinguish between gene groups that exhibit relationships with positive and others with negative associations between later life and embryonal expression profiles. Specifically, we find a positive relationship in expression for muscle development related genes, and a negative relationship for strictly maternal genes for Drosophila, using temporal gene expression profiles. Conclusion Our findings point to specific reactivation patterns of gene expression during the Drosophila life cycle which differ in characteristic ways between various gene groups. Functional regression emerges as a useful tool for relating gene expression patterns from different developmental stages, and avoids the problems with large numbers of parameters and multiple testing that affect alternative approaches.

Real-time dynamic range and signal to noise enhancement in beam-scanning microscopy by integration of sensor characteristics, data acquisition hardware, and statistical methods

Science.gov (United States)

Kissick, David J.; Muir, Ryan D.; Sullivan, Shane Z.; Oglesbee, Robert A.; Simpson, Garth J.

2013-02-01

Despite the ubiquitous use of multi-photon and confocal microscopy measurements in biology, the core techniques typically suffer from fundamental compromises between signal to noise (S/N) and linear dynamic range (LDR). In this study, direct synchronous digitization of voltage transients coupled with statistical analysis is shown to allow S/N approaching the theoretical maximum throughout an LDR spanning more than 8 decades, limited only by the dark counts of the detector on the low end and by the intrinsic nonlinearities of the photomultiplier tube (PMT) detector on the high end. Synchronous digitization of each voltage transient represents a fundamental departure from established methods in confocal/multi-photon imaging, which are currently based on either photon counting or signal averaging. High information-density data acquisition (up to 3.2 GB/s of raw data) enables the smooth transition between the two modalities on a pixel-by-pixel basis and the ultimate writing of much smaller files (few kB/s). Modeling of the PMT response allows extraction of key sensor parameters from the histogram of voltage peak-heights. Applications in second harmonic generation (SHG) microscopy are described demonstrating S/N approaching the shot-noise limit of the detector over large dynamic ranges.

Multi-kilobase homozygous targeted gene replacement in human induced pluripotent stem cells.

Science.gov (United States)

Byrne, Susan M; Ortiz, Luis; Mali, Prashant; Aach, John; Church, George M

2015-02-18

Sequence-specific nucleases such as TALEN and the CRISPR/Cas9 system have so far been used to disrupt, correct or insert transgenes at precise locations in mammalian genomes. We demonstrate efficient 'knock-in' targeted replacement of multi-kilobase genes in human induced pluripotent stem cells (iPSC). Using a model system replacing endogenous human genes with their mouse counterpart, we performed a comprehensive study of targeting vector design parameters for homologous recombination. A 2.7 kilobase (kb) homozygous gene replacement was achieved in up to 11% of iPSC without selection. The optimal homology arm length was around 2 kb, with homology length being especially critical on the arm not adjacent to the cut site. Homologous sequence inside the cut sites was detrimental to targeting efficiency, consistent with a synthesis-dependent strand annealing (SDSA) mechanism. Using two nuclease sites, we observed a high degree of gene excisions and inversions, which sometimes occurred more frequently than indel mutations. While homozygous deletions of 86 kb were achieved with up to 8% frequency, deletion frequencies were not solely a function of nuclease activity and deletion size. Our results analyzing the optimal parameters for targeting vector design will inform future gene targeting efforts involving multi-kilobase gene segments, particularly in human iPSC. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

Ultra-Stretchable Ionic Nanocomposites: From Dynamic Bonding to Multi-Responsive Behavior

KAUST Repository

Odent, Jeremy

2017-06-12

Although multi-responsive materials have the potential to revolutionize a wide spectrum of technologies, the design of systems that combine a range of responses to a variety of different external changes without the associated property trade-offs has remained elusive. We herein demonstrate a new family of multi-responsive nanocomposites that leverage the dynamic and reversible nature of electrostatic interactions present in ionic systems with the reinforcement ability of nanoparticles in nanocomposites. This new design leads to a unique property profile that combines simultaneous improvements in stiffness, toughness and extensibility. In addition to their exceptional stretchability, the new, ionic nanocomposites exhibit unique strain-dependent behavior (i.e. the deformation increases with increasing strain rate) and return to normal state after deformation including shape-memory and scratching recovery.

Ultra-Stretchable Ionic Nanocomposites: From Dynamic Bonding to Multi-Responsive Behavior

KAUST Repository

Odent, Jeremy; Raquez, Jean-Marie; Dubois, Philippe; Giannelis, Emmanuel P.

2017-01-01

Although multi-responsive materials have the potential to revolutionize a wide spectrum of technologies, the design of systems that combine a range of responses to a variety of different external changes without the associated property trade-offs has remained elusive. We herein demonstrate a new family of multi-responsive nanocomposites that leverage the dynamic and reversible nature of electrostatic interactions present in ionic systems with the reinforcement ability of nanoparticles in nanocomposites. This new design leads to a unique property profile that combines simultaneous improvements in stiffness, toughness and extensibility. In addition to their exceptional stretchability, the new, ionic nanocomposites exhibit unique strain-dependent behavior (i.e. the deformation increases with increasing strain rate) and return to normal state after deformation including shape-memory and scratching recovery.

Controlling the dynamics of multi-state neural networks

International Nuclear Information System (INIS)

Jin, Tao; Zhao, Hong

2008-01-01

In this paper, we first analyze the distribution of local fields (DLF) which is induced by the memory patterns in the Q-Ising model. It is found that the structure of the DLF is closely correlated with the network dynamics and the system performance. However, the design rule adopted in the Q-Ising model, like the other rules adopted for multi-state neural networks with associative memories, cannot be applied to directly control the DLF for a given set of memory patterns, and thus cannot be applied to further study the relationships between the structure of the DLF and the dynamics of the network. We then extend a design rule, which was presented recently for designing binary-state neural networks, to make it suitable for designing general multi-state neural networks. This rule is able to control the structure of the DLF as expected. We show that controlling the DLF not only can affect the dynamic behaviors of the multi-state neural networks for a given set of memory patterns, but also can improve the storage capacity. With the change of the DLF, the network shows very rich dynamic behaviors, such as the 'chaos phase', the 'memory phase', and the 'mixture phase'. These dynamic behaviors are also observed in the binary-state neural networks; therefore, our results imply that they may be the universal behaviors of feedback neural networks

Multi-strangeness dynamics at PANDA

Energy Technology Data Exchange (ETDEWEB)

Gaitanos, Theodoros; Lenske, Horst; Mosel, Ulrich [Institut fuer Theoretische Physik, Universitaet Giessen (Germany)

2014-07-01

Multi-strange bound hadron systems are excellent candidates for studying in-medium hyperon-hyperon (YY) interactions. A better understanding of the strangeness sector of the hadronic equation of state is crucial for our understanding of astrophysical objects like neutron stars. Furthermore, these studies are being motivated by actual and planed experimental activities on hypernuclear physics (HypHI and PANDA Collaborations). In fact, HypHI has already studied single-strange hypernuclei in heavy-ion collisions, whereas studies on double- and multi-strange nuclear systems are being planed by PANDA. We have reported in the past first studies on single- and double-Λ hypernuclei production in reactions induced by heavy-ions and antiprotons, respectively. The YY-interaction is still little known and many controversial theoretical predictions exist in the literature. We therefore extend our previous works by investigating the influence of various hyperon-hyperon interactions on the production dynamics of multi-Λ hypernuclei in reactions relevant for FAIR. Particular attention is paid to the heavy Ω-baryon (S=-3) and its role to the formation of multi-Λ hypernuclei in reactions induced by antiprotons.

Deposition dynamics of multi-solvent bioinks

Science.gov (United States)

Kaneelil, Paul; Pack, Min; Cui, Chunxiao; Han, Li-Hsin; Sun, Ying

2017-11-01

Inkjet printing cellular scaffolds using bioinks is gaining popularity due to the advancement of printing technology as well as the growing demands of regenerative medicine. Numerous studies have been conducted on printing scaffolds of biomimetic structures that support the cell production of human tissues. However, the underlying physics of the deposition dynamics of bioinks remains elusive. Of particular interest is the unclear deposition dynamics of multi-solvent bioinks, which is often used to tune the micro-architecture formation. Here we systematically studied the effects of jetting frequency, solvent properties, substrate wettability, and temperature on the three-dimensional deposition patterns of bioinks made of Methacrylated Gelatin and Carboxylated Gelatin. The microflows inside the inkjet-printed picolitre drops were visualized using fluorescence tracer particles to decipher the complex processes of multi-solvent evaporation and solute self-assembly. The evolution of droplet shape was observed using interferometry. With the integrated techniques, the interplay of solvent evaporation, biopolymer deposition, and multi-drop interactions were directly observed for various ink and substrate properties, and printing conditions. Such knowledge enables the design and fabrication of a variety of tissue engineering scaffolds for potential use in regenerative medicine.

Modulation of neuronal dynamic range using two different adaptation mechanisms

Directory of Open Access Journals (Sweden)

Lei Wang

2017-01-01

Full Text Available The capability of neurons to discriminate between intensity of external stimulus is measured by its dynamic range. A larger dynamic range indicates a greater probability of neuronal survival. In this study, the potential roles of adaptation mechanisms (ion currents in modulating neuronal dynamic range were numerically investigated. Based on the adaptive exponential integrate-and-fire model, which includes two different adaptation mechanisms, i.e. subthreshold and suprathreshold (spike-triggered adaptation, our results reveal that the two adaptation mechanisms exhibit rather different roles in regulating neuronal dynamic range. Specifically, subthreshold adaptation acts as a negative factor that observably decreases the neuronal dynamic range, while suprathreshold adaptation has little influence on the neuronal dynamic range. Moreover, when stochastic noise was introduced into the adaptation mechanisms, the dynamic range was apparently enhanced, regardless of what state the neuron was in, e.g. adaptive or non-adaptive. Our model results suggested that the neuronal dynamic range can be differentially modulated by different adaptation mechanisms. Additionally, noise was a non-ignorable factor, which could effectively modulate the neuronal dynamic range.

Constructing high-accuracy intermolecular potential energy surface with multi-dimension Morse/Long-Range model

Science.gov (United States)

Zhai, Yu; Li, Hui; Le Roy, Robert J.

2018-04-01

Spectroscopically accurate Potential Energy Surfaces (PESs) are fundamental for explaining and making predictions of the infrared and microwave spectra of van der Waals (vdW) complexes, and the model used for the potential energy function is critically important for providing accurate, robust and portable analytical PESs. The Morse/Long-Range (MLR) model has proved to be one of the most general, flexible and accurate one-dimensional (1D) model potentials, as it has physically meaningful parameters, is flexible, smooth and differentiable everywhere, to all orders and extrapolates sensibly at both long and short ranges. The Multi-Dimensional Morse/Long-Range (mdMLR) potential energy model described herein is based on that 1D MLR model, and has proved to be effective and accurate in the potentiology of various types of vdW complexes. In this paper, we review the current status of development of the mdMLR model and its application to vdW complexes. The future of the mdMLR model is also discussed. This review can serve as a tutorial for the construction of an mdMLR PES.

Multi-configuration time-dependent density-functional theory based on range separation

DEFF Research Database (Denmark)

Fromager, E.; Knecht, S.; Jensen, Hans Jørgen Aagaard

2013-01-01

Multi-configuration range-separated density-functional theory is extended to the time-dependent regime. An exact variational formulation is derived. The approximation, which consists in combining a long-range Multi-Configuration- Self-Consistent Field (MCSCF) treatment with an adiabatic short...... (srGGA) approximations. As expected, when modeling long-range interactions with the MCSCF model instead of the adiabatic Buijse-Baerends density-matrix functional as recently proposed by Pernal [J. Chem. Phys. 136, 184105 (2012)10.1063/1.4712019], the description of both the 1D doubly-excited state...

Simulation and Implementation of Sensorless Control in Multi-Motors Electric Drives with High Dynamics

Directory of Open Access Journals (Sweden)

Marcel Nicola

2017-05-01

Full Text Available In this article we’ll tackle the control of multi-motors electric drives with high dynamic, with rapid changes in torque and speed, with rigid or flexible coupling of motors, where the control strategy is FOC (Field Oriented Control for each drives and the distributed control in local network using the CANopen protocol. In the surface mining industry, from which the electric drive application for this article is selected, the general trend is toward using asynchronous motors with short-circuit rotor, due to the advantages of this motor both in terms of design and operation. In order to achieve the variable speed, must be used the static frequency converters with sensorless control, where speed is estimated using a Model References Adaptive Control Estimator. The global control system proposed in this paper contain this type of MRAC estimator together with PI-control based, who ensures a good dynamic performance but in a lower complexity of structure such that are properly to implement in real time in a distributed control system with DSP in local network using the CANopen protocol with advantages in terms of software technology, as well as control cost and flexibility of use. Following these directions a functional application was implemented and tested in practice.

Sub-Airy disk angular resolution with high dynamic range in the near-infrared

Directory of Open Access Journals (Sweden)

Richichi A.

2011-07-01

Full Text Available Lunar occultations (LO are a simple and effective high angular resolution method, with minimum requirements in instrumentation and telescope time. They rely on the analysis of the diffraction fringes created by the lunar limb. The diffraction phenomen occurs in space, and as a result LO are highly insensitive to most of the degrading effects that limit the performance of traditional single telescope and long-baseline interferometric techniques used for direct detection of faint, close companions to bright stars. We present very recent results obtained with the technique of lunar occultations in the near-IR, showing the detection of companions with very high dynamic range as close as few milliarcseconds to the primary star. We discuss the potential improvements that could be made, to increase further the current performance. Of course, LO are fixed-time events applicable only to sources which happen to lie on the Moon’s apparent orbit. However, with the continuously increasing numbers of potential exoplanets and brown dwarfs beign discovered, the frequency of such events is not negligible. I will list some of the most favorable potential LO in the near future, to be observed from major observatories.

Fast, Highly-Sensitive, and Wide-Dynamic-Range Interdigitated Capacitor Glucose Biosensor Using Solvatochromic Dye-Containing Sensing Membrane.

Science.gov (United States)

Khan, Md Rajibur Rahaman; Khalilian, Alireza; Kang, Shin-Won

2016-02-20

In this paper, we proposed an interdigitated capacitor (IDC)-based glucose biosensor to measure different concentrations of glucose from 1 μM to 1 M. We studied four different types of solvatochromic dyes: Auramine O, Nile red, Rhodamine B, and Reichardt's dye (R-dye). These dyes were individually incorporated into a polymer [polyvinyl chloride (PVC)] and N,N-Dimethylacetamide (DMAC) solution to make the respective dielectric/sensing materials. To the best of our knowledge, we report for the first time an IDC glucose biosensing system utilizing a solvatochromic-dye-containing sensing membrane. These four dielectric or sensing materials were individually placed into the interdigitated electrode (IDE) by spin coating to make four IDC glucose biosensing elements. The proposed IDC glucose biosensor has a high sensing ability over a wide dynamic range and its sensitivity was about 23.32 mV/decade. It also has fast response and recovery times of approximately 7 s and 5 s, respectively, excellent reproducibility with a standard deviation of approximately 0.023, highly stable sensing performance, and real-time monitoring capabilities. The proposed IDC glucose biosensor was compared with an IDC, potentiometric, FET, and fiber-optic glucose sensor with respect to response time, dynamic range width, sensitivity, and linearity. We observed that the designed IDC glucose biosensor offered excellent performance.

Photonic limiters with enhanced dynamic range

Science.gov (United States)

Kononchuk, Rodion; Limberopoulos, Nicholaos; Anisimov, Igor; Vitebskiy, Ilya; Chabanov, Andrey

2018-02-01

Optical limiters transmit low intensity input light while blocking input light with the intensity exceeding certain limiting threshold. Conventional passive limiters utilize nonlinear optical materials, which are transparent at low light intensity and turn absorptive at high intensity. Strong nonlinear absorption, though, can result in over- heating and destruction of the limiter. Another problem is that the limiting threshold provided by the available optical material with nonlinear absorption is too high for many applications. To address the above problems, the nonlinear material can be incorporated in a photonic structure with engineered dispersion. At low intensity, the photonic structure can display resonant transmission via localized mode(s), while at high intensity the resonant transmission can disappear, and the entire stack can become highly re ective (not absorptive) within a broad frequency range. In the proposed design, the transition from the resonant transmission at low intensity to nearly total re ectivity at high intensity does not rely on nonlinear absorption; instead, it requires only a modest change in the refractive index of the nonlinear material. The latter implies a dramatic increase in the dynamic range of the limiter. The main idea is to eliminate the high-intensity resonant transmission by decoupling the localized (resonant) modes from the input light, rather than suppressing those modes using nonlinear absorption. Similar approach can be used for light modulation and switching.

Image processing pipeline for segmentation and material classification based on multispectral high dynamic range polarimetric images.

Science.gov (United States)

Martínez-Domingo, Miguel Ángel; Valero, Eva M; Hernández-Andrés, Javier; Tominaga, Shoji; Horiuchi, Takahiko; Hirai, Keita

2017-11-27

We propose a method for the capture of high dynamic range (HDR), multispectral (MS), polarimetric (Pol) images of indoor scenes using a liquid crystal tunable filter (LCTF). We have included the adaptive exposure estimation (AEE) method to fully automatize the capturing process. We also propose a pre-processing method which can be applied for the registration of HDR images after they are already built as the result of combining different low dynamic range (LDR) images. This method is applied to ensure a correct alignment of the different polarization HDR images for each spectral band. We have focused our efforts in two main applications: object segmentation and classification into metal and dielectric classes. We have simplified the segmentation using mean shift combined with cluster averaging and region merging techniques. We compare the performance of our segmentation with that of Ncut and Watershed methods. For the classification task, we propose to use information not only in the highlight regions but also in their surrounding area, extracted from the degree of linear polarization (DoLP) maps. We present experimental results which proof that the proposed image processing pipeline outperforms previous techniques developed specifically for MSHDRPol image cubes.

A multi-variate discrimination technique based on range-searching

International Nuclear Information System (INIS)

Carli, T.; Koblitz, B.

2003-01-01

We present a fast and transparent multi-variate event classification technique, called PDE-RS, which is based on sampling the signal and background densities in a multi-dimensional phase space using range-searching. The employed algorithm is presented in detail and its behaviour is studied with simple toy examples representing basic patterns of problems often encountered in High Energy Physics data analyses. In addition an example relevant for the search for instanton-induced processes in deep-inelastic scattering at HERA is discussed. For all studied examples, the new presented method performs as good as artificial Neural Networks and has furthermore the advantage to need less computation time. This allows to carefully select the best combination of observables which optimally separate the signal and background and for which the simulations describe the data best. Moreover, the systematic and statistical uncertainties can be easily evaluated. The method is therefore a powerful tool to find a small number of signal events in the large data samples expected at future particle colliders

A big data pipeline: Identifying dynamic gene regulatory networks from time-course Gene Expression Omnibus data with applications to influenza infection.

Science.gov (United States)

Carey, Michelle; Ramírez, Juan Camilo; Wu, Shuang; Wu, Hulin

2018-07-01

A biological host response to an external stimulus or intervention such as a disease or infection is a dynamic process, which is regulated by an intricate network of many genes and their products. Understanding the dynamics of this gene regulatory network allows us to infer the mechanisms involved in a host response to an external stimulus, and hence aids the discovery of biomarkers of phenotype and biological function. In this article, we propose a modeling/analysis pipeline for dynamic gene expression data, called Pipeline4DGEData, which consists of a series of statistical modeling techniques to construct dynamic gene regulatory networks from the large volumes of high-dimensional time-course gene expression data that are freely available in the Gene Expression Omnibus repository. This pipeline has a consistent and scalable structure that allows it to simultaneously analyze a large number of time-course gene expression data sets, and then integrate the results across different studies. We apply the proposed pipeline to influenza infection data from nine studies and demonstrate that interesting biological findings can be discovered with its implementation.

Compressive multi-mode superresolution display

KAUST Repository

Heide, Felix

2014-01-01

Compressive displays are an emerging technology exploring the co-design of new optical device configurations and compressive computation. Previously, research has shown how to improve the dynamic range of displays and facilitate high-quality light field or glasses-free 3D image synthesis. In this paper, we introduce a new multi-mode compressive display architecture that supports switching between 3D and high dynamic range (HDR) modes as well as a new super-resolution mode. The proposed hardware consists of readily-available components and is driven by a novel splitting algorithm that computes the pixel states from a target high-resolution image. In effect, the display pixels present a compressed representation of the target image that is perceived as a single, high resolution image. © 2014 Optical Society of America.

A high dynamic range programmable CMOS front-end filter with a tuning range from 1850 to 2400 MHz

DEFF Research Database (Denmark)

Christensen, Kåre Tais; Lee, Thomas H.; Bruun, Erik

2005-01-01

This paper presents a highly programmable front-end filter and amplifier intended to replace SAW filters and low noise amplifiers (LNA) in multi-mode direct conversion radio receivers. The filter has a 42 MHz bandwidth, is tunable from 1850 to 2400 MHz, achieves a 5.8 dB NF, -25 dBm in-band 1-d...

Robust fault detection for the dynamics of high-speed train with multi-source finite frequency interference.

Science.gov (United States)

Bai, Weiqi; Dong, Hairong; Yao, Xiuming; Ning, Bin

2018-04-01

This paper proposes a composite fault detection scheme for the dynamics of high-speed train (HST), using an unknown input observer-like (UIO-like) fault detection filter, in the presence of wind gust and operating noises which are modeled as disturbance generated by exogenous system and unknown multi-source disturbance within finite frequency domain. Using system input and system output measurements, the fault detection filter is designed to generate the needed residual signals. In order to decouple disturbance from residual signals without truncating the influence of faults, this paper proposes a method to partition the disturbance into two parts. One subset of the disturbance does not appear in residual dynamics, and the influence of the other subset is constrained by H ∞ performance index in a finite frequency domain. A set of detection subspaces are defined, and every different fault is assigned to its own detection subspace to guarantee the residual signals are diagonally affected promptly by the faults. Simulations are conducted to demonstrate the effectiveness and merits of the proposed method. Copyright © 2018 ISA. Published by Elsevier Ltd. All rights reserved.

Dynamic range meter for radiofrequency amplifiers

Directory of Open Access Journals (Sweden)

Drozd S. S.

2009-04-01

Full Text Available The new measurement setup having increased on 20…30 dB the own dynamic range in comparison with the standard circuit of the dynamic range meter is offered and the rated value of an error bringing by setup in the worst case does not exceed ± 2,8 dB. The measurement setup can be applied also to determinate levels of intermodulation components average power amplifiers and powerful amplifiers of a low-frequency at replacement of the quartz filter on meeting low-frequency the LC-filter and the spectrum analyzer.

A data-driven modeling approach to identify disease-specific multi-organ networks driving physiological dysregulation.

Directory of Open Access Journals (Sweden)

Warren D Anderson

2017-07-01

Full Text Available Multiple physiological systems interact throughout the development of a complex disease. Knowledge of the dynamics and connectivity of interactions across physiological systems could facilitate the prevention or mitigation of organ damage underlying complex diseases, many of which are currently refractory to available therapeutics (e.g., hypertension. We studied the regulatory interactions operating within and across organs throughout disease development by integrating in vivo analysis of gene expression dynamics with a reverse engineering approach to infer data-driven dynamic network models of multi-organ gene regulatory influences. We obtained experimental data on the expression of 22 genes across five organs, over a time span that encompassed the development of autonomic nervous system dysfunction and hypertension. We pursued a unique approach for identification of continuous-time models that jointly described the dynamics and structure of multi-organ networks by estimating a sparse subset of ∼12,000 possible gene regulatory interactions. Our analyses revealed that an autonomic dysfunction-specific multi-organ sequence of gene expression activation patterns was associated with a distinct gene regulatory network. We analyzed the model structures for adaptation motifs, and identified disease-specific network motifs involving genes that exhibited aberrant temporal dynamics. Bioinformatic analyses identified disease-specific single nucleotide variants within or near transcription factor binding sites upstream of key genes implicated in maintaining physiological homeostasis. Our approach illustrates a novel framework for investigating the pathogenesis through model-based analysis of multi-organ system dynamics and network properties. Our results yielded novel candidate molecular targets driving the development of cardiovascular disease, metabolic syndrome, and immune dysfunction.

High energy multi-cycle terahertz generation

International Nuclear Information System (INIS)

Ahr, Frederike Beate

2017-10-01

Development of compact electron accelerators and free-electron lasers requires novel acceleration schemes at shorter driving wavelengths. The Axsis project seeks to develop terahertz based electron acceleration as well as the high energy terahertz sources required. This thesis explores the methods and optical material required for the generation of highenergy multi-cycle terahertz pulses. Two experimental concepts to generate high energy terahertz radiation are presented. In addition the theoretical background and the optical properties of pertinent optical materials in the terahertz range are discussed. Investigations of the materials are performed with a terahertz time domain spectrometer and a Fourier transform infrared spectrometer. The nonlinear optical crystal lithium niobate as well as other crystals suitable for the terahertz generation and in addition polymers and other radiation attenuators are characterized in the range from 0.2 to 1 THz. The theory describing the generation of narrowband terahertz radiation is evaluated. The experimental setups to generate terahertz radiation and to characterize its properties are described. The specific crystals - periodically poled lithium niobate (PPLN) - used in the experiments to generate the multi-cycle terahertz radiation are examined to determine e.g. the poling period. The first experimental concept splits the ultra fast, broadband pump pulses into a pulse train in order to pump the PPLN at a higher fluence while increasing the damage limit. The measurements confirm that a pulse train of ultra short, broadband pump pulses increases not only the terahertz energy but also the energy conversion efficiency. The second experimental concept utilizes chirped and delayed infrared laser pulses. This pulse format makes it possible to pump the crystal with high energy pulses resulting in high energy terahertz radiation. The concept is optimized to reach energies up to 127 μJ exceeding the existing results of narrowband

High energy multi-cycle terahertz generation

Energy Technology Data Exchange (ETDEWEB)

Ahr, Frederike Beate

2017-10-15

Development of compact electron accelerators and free-electron lasers requires novel acceleration schemes at shorter driving wavelengths. The Axsis project seeks to develop terahertz based electron acceleration as well as the high energy terahertz sources required. This thesis explores the methods and optical material required for the generation of highenergy multi-cycle terahertz pulses. Two experimental concepts to generate high energy terahertz radiation are presented. In addition the theoretical background and the optical properties of pertinent optical materials in the terahertz range are discussed. Investigations of the materials are performed with a terahertz time domain spectrometer and a Fourier transform infrared spectrometer. The nonlinear optical crystal lithium niobate as well as other crystals suitable for the terahertz generation and in addition polymers and other radiation attenuators are characterized in the range from 0.2 to 1 THz. The theory describing the generation of narrowband terahertz radiation is evaluated. The experimental setups to generate terahertz radiation and to characterize its properties are described. The specific crystals - periodically poled lithium niobate (PPLN) - used in the experiments to generate the multi-cycle terahertz radiation are examined to determine e.g. the poling period. The first experimental concept splits the ultra fast, broadband pump pulses into a pulse train in order to pump the PPLN at a higher fluence while increasing the damage limit. The measurements confirm that a pulse train of ultra short, broadband pump pulses increases not only the terahertz energy but also the energy conversion efficiency. The second experimental concept utilizes chirped and delayed infrared laser pulses. This pulse format makes it possible to pump the crystal with high energy pulses resulting in high energy terahertz radiation. The concept is optimized to reach energies up to 127 μJ exceeding the existing results of narrowband

Wide dynamic range beam profile monitor

International Nuclear Information System (INIS)

Lee, D.M.; Brown, D.; Hardekopf, R.; Bilskie, J.R.; van Dyck, O.B.V.

1985-01-01

An economical harp multiplexer system has been developed to achieve a wide dynamic range. The harp system incorporates a pneumatically actuated harp detector with ceramic boards and carbon wires; a high-sensitivity multiplexer packaged in a double-wide NIM module; and flat, shielded ribbon cable consisting of individual twisted pairs. The system multiplexes 30 wires in each of the x and y planes simultaneously and operates with or without computer control. The system has operated in beams of 100 nA to 1 mA, 1- to 120-Hz repetition rate, with a signal-to-noise ratio of greater than 10/1

Thrombolysis using multi-frequency high intensity focused ultrasound at MHz range: an in vitro study

International Nuclear Information System (INIS)

Suo, Dingjie; Guo, Sijia; Jiang, Xiaoning; Jing, Yun; Lin, Weili

2015-01-01

High intensity focused ultrasound (HIFU) based thrombolysis has emerged as a promising drug-free treatment approach for ischemic stroke. The large amount of acoustic power required by this approach, however, poses a critical challenge to the future clinical translation. In this study, multi-frequency acoustic waves at MHz range (near 1.5 MHz) were introduced as HIFU excitations to reduce the required power for treatment as well as the treatment time. In vitro bovine blood clots weighing around 150 mg were treated by single-frequency and multi-frequency HIFU. The pulse length was 2 ms for all experiments except the ones where the duty cycle was changed. It was found that dual-frequency thrombolysis efficiency was statistically better than single-frequency under the same acoustic power and excitation condition. When varying the acoustic power but fixing the duty cycle at 5%, it was found that dual-frequency ultrasound can save almost 30% power in order to achieve the same thrombolysis efficiency. In the experiment where the duty cycle was increased from 0.5% to 10%, it was shown that dual-frequency ultrasound can achieve the same thrombolysis efficiency with only half of the duty cycle of single-frequency. Dual-frequency ultrasound could also accelerate the thrombolysis by a factor of 2–4 as demonstrated in this study. No significant differences were found between dual-frequencies with different frequency differences (0.025, 0.05, and 0.1 MHz) and between dual-frequency and triple-frequency. The measured cavitation doses of dual-frequency and triple-frequency excitations were at about the same level but both were significantly higher than that of single-frequency. (paper)

Issues with performance measures for dynamic multi-objective optimisation

CSIR Research Space (South Africa)

Helbig, M

2013-06-01

Full Text Available Symposium on Computational Intelligence in Dynamic and Uncertain Environments (CIDUE), Mexico, 20-23 June 2013 Issues with Performance Measures for Dynamic Multi-objective Optimisation Mard´e Helbig CSIR: Meraka Institute Brummeria, South Africa...

Fast, Highly-Sensitive, and Wide-Dynamic-Range Interdigitated Capacitor Glucose Biosensor Using Solvatochromic Dye-Containing Sensing Membrane

Directory of Open Access Journals (Sweden)

Md. Rajibur Rahaman Khan

2016-02-01

Full Text Available In this paper, we proposed an interdigitated capacitor (IDC-based glucose biosensor to measure different concentrations of glucose from 1 μM to 1 M. We studied four different types of solvatochromic dyes: Auramine O, Nile red, Rhodamine B, and Reichardt’s dye (R-dye. These dyes were individually incorporated into a polymer [polyvinyl chloride (PVC] and N,N-Dimethylacetamide (DMAC solution to make the respective dielectric/sensing materials. To the best of our knowledge, we report for the first time an IDC glucose biosensing system utilizing a solvatochromic-dye-containing sensing membrane. These four dielectric or sensing materials were individually placed into the interdigitated electrode (IDE by spin coating to make four IDC glucose biosensing elements. The proposed IDC glucose biosensor has a high sensing ability over a wide dynamic range and its sensitivity was about 23.32 mV/decade. It also has fast response and recovery times of approximately 7 s and 5 s, respectively, excellent reproducibility with a standard deviation of approximately 0.023, highly stable sensing performance, and real-time monitoring capabilities. The proposed IDC glucose biosensor was compared with an IDC, potentiometric, FET, and fiber-optic glucose sensor with respect to response time, dynamic range width, sensitivity, and linearity. We observed that the designed IDC glucose biosensor offered excellent performance.

Nonlinear mapping of the luminance in dual-layer high dynamic range displays

Science.gov (United States)

Guarnieri, Gabriele; Ramponi, Giovanni; Bonfiglio, Silvio; Albani, Luigi

2009-02-01

It has long been known that the human visual system (HVS) has a nonlinear response to luminance. This nonlinearity can be quantified using the concept of just noticeable difference (JND), which represents the minimum amplitude of a specified test pattern an average observer can discern from a uniform background. The JND depends on the background luminance following a threshold versus intensity (TVI) function. It is possible to define a curve which maps physical luminances into a perceptually linearized domain. This mapping can be used to optimize a digital encoding, by minimizing the visibility of quantization noise. It is also commonly used in medical applications to display images adapting to the characteristics of the display device. High dynamic range (HDR) displays, which are beginning to appear on the market, can display luminance levels outside the range in which most standard mapping curves are defined. In particular, dual-layer LCD displays are able to extend the gamut of luminance offered by conventional liquid crystals towards the black region; in such areas suitable and HVS-compliant luminance transformations need to be determined. In this paper we propose a method, which is primarily targeted to the extension of the DICOM curve used in medical imaging, but also has a more general application. The method can be modified in order to compensate for the ambient light, which can be significantly greater than the black level of an HDR display and consequently reduce the visibility of the details in dark areas.

Dynamic and Control Analysis of Modular Multi-Parallel Rectifiers (MMR)

DEFF Research Database (Denmark)

Zare, Firuz; Ghosh, Arindam; Davari, Pooya

2017-01-01

This paper presents dynamic analysis of a Modular Multi-Parallel Rectifier (MMR) based on state-space modelling and analysis. The proposed topology is suitable for high power application which can reduce line current harmonics emissions significantly. However, a proper controller is required...... to share and control current through each rectifier. Mathematical analysis and preliminary simulations have been carried out to verify the proposed controller under different operating conditions....

Dynamic Range Across Music Genres and the Perception of Dynamic Compression in Hearing-Impaired Listeners

Directory of Open Access Journals (Sweden)

Martin Kirchberger

2016-02-01

Full Text Available Dynamic range compression serves different purposes in the music and hearing-aid industries. In the music industry, it is used to make music louder and more attractive to normal-hearing listeners. In the hearing-aid industry, it is used to map the variable dynamic range of acoustic signals to the reduced dynamic range of hearing-impaired listeners. Hence, hearing-aided listeners will typically receive a dual dose of compression when listening to recorded music. The present study involved an acoustic analysis of dynamic range across a cross section of recorded music as well as a perceptual study comparing the efficacy of different compression schemes. The acoustic analysis revealed that the dynamic range of samples from popular genres, such as rock or rap, was generally smaller than the dynamic range of samples from classical genres, such as opera and orchestra. By comparison, the dynamic range of speech, based on recordings of monologues in quiet, was larger than the dynamic range of all music genres tested. The perceptual study compared the effect of the prescription rule NAL-NL2 with a semicompressive and a linear scheme. Music subjected to linear processing had the highest ratings for dynamics and quality, followed by the semicompressive and the NAL-NL2 setting. These findings advise against NAL-NL2 as a prescription rule for recorded music and recommend linear settings.

Dynamic Range Across Music Genres and the Perception of Dynamic Compression in Hearing-Impaired Listeners

Science.gov (United States)

Kirchberger, Martin

2016-01-01

Dynamic range compression serves different purposes in the music and hearing-aid industries. In the music industry, it is used to make music louder and more attractive to normal-hearing listeners. In the hearing-aid industry, it is used to map the variable dynamic range of acoustic signals to the reduced dynamic range of hearing-impaired listeners. Hence, hearing-aided listeners will typically receive a dual dose of compression when listening to recorded music. The present study involved an acoustic analysis of dynamic range across a cross section of recorded music as well as a perceptual study comparing the efficacy of different compression schemes. The acoustic analysis revealed that the dynamic range of samples from popular genres, such as rock or rap, was generally smaller than the dynamic range of samples from classical genres, such as opera and orchestra. By comparison, the dynamic range of speech, based on recordings of monologues in quiet, was larger than the dynamic range of all music genres tested. The perceptual study compared the effect of the prescription rule NAL-NL2 with a semicompressive and a linear scheme. Music subjected to linear processing had the highest ratings for dynamics and quality, followed by the semicompressive and the NAL-NL2 setting. These findings advise against NAL-NL2 as a prescription rule for recorded music and recommend linear settings. PMID:26868955

Dynamic Range Across Music Genres and the Perception of Dynamic Compression in Hearing-Impaired Listeners.

Science.gov (United States)

Kirchberger, Martin; Russo, Frank A

2016-02-10

Dynamic range compression serves different purposes in the music and hearing-aid industries. In the music industry, it is used to make music louder and more attractive to normal-hearing listeners. In the hearing-aid industry, it is used to map the variable dynamic range of acoustic signals to the reduced dynamic range of hearing-impaired listeners. Hence, hearing-aided listeners will typically receive a dual dose of compression when listening to recorded music. The present study involved an acoustic analysis of dynamic range across a cross section of recorded music as well as a perceptual study comparing the efficacy of different compression schemes. The acoustic analysis revealed that the dynamic range of samples from popular genres, such as rock or rap, was generally smaller than the dynamic range of samples from classical genres, such as opera and orchestra. By comparison, the dynamic range of speech, based on recordings of monologues in quiet, was larger than the dynamic range of all music genres tested. The perceptual study compared the effect of the prescription rule NAL-NL2 with a semicompressive and a linear scheme. Music subjected to linear processing had the highest ratings for dynamics and quality, followed by the semicompressive and the NAL-NL2 setting. These findings advise against NAL-NL2 as a prescription rule for recorded music and recommend linear settings. © The Author(s) 2016.

Comparison of linear intrascan and interscan dynamic ranges of Orbitrap and ion-mobility time-of-flight mass spectrometers.

Science.gov (United States)

Kaufmann, Anton; Walker, Stephan

2017-11-30

The linear intrascan and interscan dynamic ranges of mass spectrometers are important in metabolome and residue analysis. A large linear dynamic range is mandatory if both low- and high-abundance ions have to be detected and quantitated in heavy matrix samples. These performance criteria, as provided by modern high-resolution mass spectrometry (HRMS), were systematically investigated. The comparison included two generations of Orbitraps, and an ion mobility quadrupole time-of-flight (QTOF) system In addition, different scan modes, as provided by the utilized instruments, were investigated. Calibration curves of different compounds covering a concentration range of five orders of magnitude were measured to evaluate the linear interscan dynamic range. The linear intrascan dynamic range and the resulting mass accuracy were evaluated by repeating these measurements in the presence of a very intense background. Modern HRMS instruments can show linear dynamic ranges of five orders of magnitude. Often, however, the linear dynamic range is limited by the detection capability (sensitivity and selectivity) and by the electrospray ionization. Orbitraps, as opposed to TOF instruments, show a reduced intrascan dynamic range. This is due to the limited C-trap and Orbitrap capacity. The tested TOF instrument shows poorer mass accuracies than the Orbitraps. In contrast, hyphenation with an ion-mobility device seems not to affect the linear dynamic range. The linear dynamic range of modern HRMS instrumentation has been significantly improved. This also refers to the virtual absence of systematic mass shifts at high ion abundances. The intrascan dynamic range of the current Orbitrap technology may still be a limitation when analyzing complex matrix extracts. On the other hand, the linear dynamic range is not only limited by the detector technology, but can also be shortened by peripheral devices, where the ionization and transfer of ions take place. Copyright © 2017 John Wiley

High-resolution multi-slice PET

International Nuclear Information System (INIS)

Yasillo, N.J.; Chintu Chen; Ordonez, C.E.; Kapp, O.H.; Sosnowski, J.; Beck, R.N.

1992-01-01

This report evaluates the progress to test the feasibility and to initiate the design of a high resolution multi-slice PET system. The following specific areas were evaluated: detector development and testing; electronics configuration and design; mechanical design; and system simulation. The design and construction of a multiple-slice, high-resolution positron tomograph will provide substantial improvements in the accuracy and reproducibility of measurements of the distribution of activity concentrations in the brain. The range of functional brain research and our understanding of local brain function will be greatly extended when the development of this instrumentation is completed

Nonlinear Dynamics in Gene Regulation Promote Robustness and Evolvability of Gene Expression Levels.

Science.gov (United States)

Steinacher, Arno; Bates, Declan G; Akman, Ozgur E; Soyer, Orkun S

2016-01-01

Cellular phenotypes underpinned by regulatory networks need to respond to evolutionary pressures to allow adaptation, but at the same time be robust to perturbations. This creates a conflict in which mutations affecting regulatory networks must both generate variance but also be tolerated at the phenotype level. Here, we perform mathematical analyses and simulations of regulatory networks to better understand the potential trade-off between robustness and evolvability. Examining the phenotypic effects of mutations, we find an inverse correlation between robustness and evolvability that breaks only with nonlinearity in the network dynamics, through the creation of regions presenting sudden changes in phenotype with small changes in genotype. For genotypes embedding low levels of nonlinearity, robustness and evolvability correlate negatively and almost perfectly. By contrast, genotypes embedding nonlinear dynamics allow expression levels to be robust to small perturbations, while generating high diversity (evolvability) under larger perturbations. Thus, nonlinearity breaks the robustness-evolvability trade-off in gene expression levels by allowing disparate responses to different mutations. Using analytical derivations of robustness and system sensitivity, we show that these findings extend to a large class of gene regulatory network architectures and also hold for experimentally observed parameter regimes. Further, the effect of nonlinearity on the robustness-evolvability trade-off is ensured as long as key parameters of the system display specific relations irrespective of their absolute values. We find that within this parameter regime genotypes display low and noisy expression levels. Examining the phenotypic effects of mutations, we find an inverse correlation between robustness and evolvability that breaks only with nonlinearity in the network dynamics. Our results provide a possible solution to the robustness-evolvability trade-off, suggest an explanation for

Nonlinear Dynamics in Gene Regulation Promote Robustness and Evolvability of Gene Expression Levels.

Directory of Open Access Journals (Sweden)

Arno Steinacher

Full Text Available Cellular phenotypes underpinned by regulatory networks need to respond to evolutionary pressures to allow adaptation, but at the same time be robust to perturbations. This creates a conflict in which mutations affecting regulatory networks must both generate variance but also be tolerated at the phenotype level. Here, we perform mathematical analyses and simulations of regulatory networks to better understand the potential trade-off between robustness and evolvability. Examining the phenotypic effects of mutations, we find an inverse correlation between robustness and evolvability that breaks only with nonlinearity in the network dynamics, through the creation of regions presenting sudden changes in phenotype with small changes in genotype. For genotypes embedding low levels of nonlinearity, robustness and evolvability correlate negatively and almost perfectly. By contrast, genotypes embedding nonlinear dynamics allow expression levels to be robust to small perturbations, while generating high diversity (evolvability under larger perturbations. Thus, nonlinearity breaks the robustness-evolvability trade-off in gene expression levels by allowing disparate responses to different mutations. Using analytical derivations of robustness and system sensitivity, we show that these findings extend to a large class of gene regulatory network architectures and also hold for experimentally observed parameter regimes. Further, the effect of nonlinearity on the robustness-evolvability trade-off is ensured as long as key parameters of the system display specific relations irrespective of their absolute values. We find that within this parameter regime genotypes display low and noisy expression levels. Examining the phenotypic effects of mutations, we find an inverse correlation between robustness and evolvability that breaks only with nonlinearity in the network dynamics. Our results provide a possible solution to the robustness-evolvability trade-off, suggest

Dichotomous noise models of gene switches

Energy Technology Data Exchange (ETDEWEB)

Potoyan, Davit A., E-mail: potoyan@rice.edu; Wolynes, Peter G., E-mail: pwolynes@rice.edu [Department of Chemistry and Center for Theoretical Biological Physics, Rice University, Houston, Texas 77005 (United States)

2015-11-21

Molecular noise in gene regulatory networks has two intrinsic components, one part being due to fluctuations caused by the birth and death of protein or mRNA molecules which are often present in small numbers and the other part arising from gene state switching, a single molecule event. Stochastic dynamics of gene regulatory circuits appears to be largely responsible for bifurcations into a set of multi-attractor states that encode different cell phenotypes. The interplay of dichotomous single molecule gene noise with the nonlinear architecture of genetic networks generates rich and complex phenomena. In this paper, we elaborate on an approximate framework that leads to simple hybrid multi-scale schemes well suited for the quantitative exploration of the steady state properties of large-scale cellular genetic circuits. Through a path sum based analysis of trajectory statistics, we elucidate the connection of these hybrid schemes to the underlying master equation and provide a rigorous justification for using dichotomous noise based models to study genetic networks. Numerical simulations of circuit models reveal that the contribution of the genetic noise of single molecule origin to the total noise is significant for a wide range of kinetic regimes.

Intrinsic vs. spurious long-range memory in high-frequency records of environmental radioactivity. Critical re-assessment and application to indoor 222Rn concentrations from Coimbra, Portugal

Science.gov (United States)

Donner, R. V.; Potirakis, S. M.; Barbosa, S. M.; Matos, J. A. O.; Pereira, A. J. S. C.; Neves, L. J. P. F.

2015-05-01

The presence or absence of long-range correlations in the environmental radioactivity fluctuations has recently attracted considerable interest. Among a multiplicity of practically relevant applications, identifying and disentangling the environmental factors controlling the variable concentrations of the radioactive noble gas radon is important for estimating its effect on human health and the efficiency of possible measures for reducing the corresponding exposition. In this work, we present a critical re-assessment of a multiplicity of complementary methods that have been previously applied for evaluating the presence of long-range correlations and fractal scaling in environmental radon variations with a particular focus on the specific properties of the underlying time series. As an illustrative case study, we subsequently re-analyze two high-frequency records of indoor radon concentrations from Coimbra, Portugal, each of which spans several weeks of continuous measurements at a high temporal resolution of five minutes.Our results reveal that at the study site, radon concentrations exhibit complex multi-scale dynamics with qualitatively different properties at different time-scales: (i) essentially white noise in the high-frequency part (up to time-scales of about one hour), (ii) spurious indications of a non-stationary, apparently long-range correlated process (at time scales between some hours and one day) arising from marked periodic components, and (iii) low-frequency variability indicating a true long-range dependent process. In the presence of such multi-scale variability, common estimators of long-range memory in time series are prone to fail if applied to the raw data without previous separation of time-scales with qualitatively different dynamics.

On dynamical multi-team Cournot game in exploitation of a renewable resource

International Nuclear Information System (INIS)

Asker, S.S.

2007-01-01

A dynamical multi-team Cournot game is formulated for a renewable resource (harvest fish and sell it in a market). Puu's imperfect information to dynamic standard game is generalized to multi-team Cournot game. The asymptotic stability of the equilibrium solution of the resulting game is studied

Multi-UAV Doppler Information Fusion for Target Tracking Based on Distributed High Degrees Information Filters

Directory of Open Access Journals (Sweden)

Hamza Benzerrouk

2018-03-01

Full Text Available Multi-Unmanned Aerial Vehicle (UAV Doppler-based target tracking has not been widely investigated, specifically when using modern nonlinear information filters. A high-degree Gauss–Hermite information filter, as well as a seventh-degree cubature information filter (CIF, is developed to improve the fifth-degree and third-degree CIFs proposed in the most recent related literature. These algorithms are applied to maneuvering target tracking based on Radar Doppler range/range rate signals. To achieve this purpose, different measurement models such as range-only, range rate, and bearing-only tracking are used in the simulations. In this paper, the mobile sensor target tracking problem is addressed and solved by a higher-degree class of quadrature information filters (HQIFs. A centralized fusion architecture based on distributed information filtering is proposed, and yielded excellent results. Three high dynamic UAVs are simulated with synchronized Doppler measurement broadcasted in parallel channels to the control center for global information fusion. Interesting results are obtained, with the superiority of certain classes of higher-degree quadrature information filters.

Ownership dynamics in local multi-stakeholder initiatives

NARCIS (Netherlands)

K. Biekart (Kees); A.F. Fowler (Alan)

2018-01-01

textabstractThe nature and dynamics of ownership are often neglected features of multi-stakeholder initiatives (MSIs). Seventeen cases in four countries illustrate characteristics of narrow government or broad societal ownership and forces for change over time. Refinements to the application of

Characterising Dynamic Instability in High Water-Cut Oil-Water Flows Using High-Resolution Microwave Sensor Signals

Science.gov (United States)

Liu, Weixin; Jin, Ningde; Han, Yunfeng; Ma, Jing

2018-06-01

In the present study, multi-scale entropy algorithm was used to characterise the complex flow phenomena of turbulent droplets in high water-cut oil-water two-phase flow. First, we compared multi-scale weighted permutation entropy (MWPE), multi-scale approximate entropy (MAE), multi-scale sample entropy (MSE) and multi-scale complexity measure (MCM) for typical nonlinear systems. The results show that MWPE presents satisfied variability with scale and anti-noise ability. Accordingly, we conducted an experiment of vertical upward oil-water two-phase flow with high water-cut and collected the signals of a high-resolution microwave resonant sensor, based on which two indexes, the entropy rate and mean value of MWPE, were extracted. Besides, the effects of total flow rate and water-cut on these two indexes were analysed. Our researches show that MWPE is an effective method to uncover the dynamic instability of oil-water two-phase flow with high water-cut.

Multi-Gigahertz radar range processing of baseband and RF carrier modulated signals in Tm:YAG

International Nuclear Information System (INIS)

Merkel, K.D.; Krishna Mohan, R.; Cole, Z.; Chang, T.; Olson, A.; Babbitt, W.R.

2004-01-01

An optical device is described and demonstrated that uses a spatial-spectral holographic material to perform coherent signal processing operations on analog, high-bandwidth optical signals with large time-bandwidth-products. Signal processing is performed as the material records the coherent spectral interference (or cross-power spectrum) of modulated optical signals as a spatial-spectral population grating between electronic transition states. Multiple exposures of processing pulse sequences are integrated with increasing grating strength. The device, coined as the Spatial-Spectral Coherent Holographic Integrating Processor (or S 2 -CHIP), is described as currently envisioned for a broadband, mid-to-high pulse repetition frequency range-Doppler radar signal processing system. Experiments were performed in Tm:YAG (0.1 at% at 5 K) to demonstrate time delay variation, integration dynamics, and effects of coding as applied to a radar range processor. These demonstrations used baseband modulation with a 1 gigabit per second (GPBS) bit rate and code length of 512 bits (512 ns), where delays up to 1.0 μs were resolved with greater than a 40 dB peak to RMS sidelobe ratio after 800 processing shots. Multi-GHz processing was demonstrated using a bit rate of 2.5 GBPS (baseband modulation) and code length of 2048 bits (819.2 ns). Processing of double-sideband modulated signals on a radio frequency (RF) carrier was demonstrated, where 512 bit, 1.0 GBPS codes were modulated on a 1.75 GHz carrier and then modulated on the optical carrier

High-dynamic-range microscope imaging based on exposure bracketing in full-field optical coherence tomography.

Science.gov (United States)

Leong-Hoi, Audrey; Montgomery, Paul C; Serio, Bruno; Twardowski, Patrice; Uhring, Wilfried

2016-04-01

By applying the proposed high-dynamic-range (HDR) technique based on exposure bracketing, we demonstrate a meaningful reduction in the spatial noise in image frames acquired with a CCD camera so as to improve the fringe contrast in full-field optical coherence tomography (FF-OCT). This new signal processing method thus allows improved probing within transparent or semitransparent samples. The proposed method is demonstrated on 3 μm thick transparent polymer films of Mylar, which, due to their transparency, produce low contrast fringe patterns in white-light interference microscopy. High-resolution tomographic analysis is performed using the technique. After performing appropriate signal processing, resulting XZ sections are observed. Submicrometer-sized defects can be lost in the noise that is present in the CCD images. With the proposed method, we show that by increasing the signal-to-noise ratio of the images, submicrometer-sized defect structures can thus be detected.

A terahertz EO detector with large dynamical range, high modulation depth and signal-noise ratio

Science.gov (United States)

Pan, Xinjian; Cai, Yi; Zeng, Xuanke; Zheng, Shuiqin; Li, Jingzhen; Xu, Shixiang

2017-05-01

The paper presents a novel design for terahertz (THz) free-space time domain electro-optic (EO) detection where the static birefringent phases of the two balanced arms are set close to zero but opposite to each other. Our theoretical and numerical analyses show this design has much stronger ability to cancel the optical background noise than both THz ellipsometer and traditional crossed polarizer geometry (CPG). Its optical modulation depth is about twice as high as that of traditional CPG, but about ten times as high as that of THz ellipsometer. As for the dynamical range, our improved design is comparable to the THz ellipsometer but obviously larger than the traditional CPG. Some experiments for comparing our improved CPG with traditional CPG agree well with the corresponding theoretical predictions. Our experiments also show that the splitting ratio of the used non-polarization beam splitter is critical for the performance of our design.

Multi-mode-multi-state quantum dynamics of key five-membered heterocycles: spectroscopy and ultrafast internal conversion

International Nuclear Information System (INIS)

Koeppel, H.; Gromov, E.V.; Trofimov, A.B.

2004-01-01

The multi-mode and multi-state vibronic interactions in the heterocyclic molecules furan, pyrrole, thiophene and their radical cations are investigated theoretically, employing a linear vibronic coupling scheme. The underlying system parameters are determined from large-scale ab initio computations. Previous time-independent dynamical calculations on the radical cations are extended by wave-packet propagations (using the MCTDH method) confirming the strong nonadiabatic coupling effects. For the singlet excited states of furan and thiophene quantum dynamical calculations are presented which go beyond the two-state approximation frequently applied in the literature. The characteristic spectral structures are well reproduced, especially in the case of furan. The implications of these results on the photochemical reaction dynamics of these species are discussed

Dynamic Maternal Gradients Control Timing and Shift-Rates for Drosophila Gap Gene Expression

Science.gov (United States)

Verd, Berta; Crombach, Anton

2017-01-01

Pattern formation during development is a highly dynamic process. In spite of this, few experimental and modelling approaches take into account the explicit time-dependence of the rules governing regulatory systems. We address this problem by studying dynamic morphogen interpretation by the gap gene network in Drosophila melanogaster. Gap genes are involved in segment determination during early embryogenesis. They are activated by maternal morphogen gradients encoded by bicoid (bcd) and caudal (cad). These gradients decay at the same time-scale as the establishment of the antero-posterior gap gene pattern. We use a reverse-engineering approach, based on data-driven regulatory models called gene circuits, to isolate and characterise the explicitly time-dependent effects of changing morphogen concentrations on gap gene regulation. To achieve this, we simulate the system in the presence and absence of dynamic gradient decay. Comparison between these simulations reveals that maternal morphogen decay controls the timing and limits the rate of gap gene expression. In the anterior of the embyro, it affects peak expression and leads to the establishment of smooth spatial boundaries between gap domains. In the posterior of the embryo, it causes a progressive slow-down in the rate of gap domain shifts, which is necessary to correctly position domain boundaries and to stabilise the spatial gap gene expression pattern. We use a newly developed method for the analysis of transient dynamics in non-autonomous (time-variable) systems to understand the regulatory causes of these effects. By providing a rigorous mechanistic explanation for the role of maternal gradient decay in gap gene regulation, our study demonstrates that such analyses are feasible and reveal important aspects of dynamic gene regulation which would have been missed by a traditional steady-state approach. More generally, it highlights the importance of transient dynamics for understanding complex regulatory

Detection of high frequency of mutations in a breast and/or ovarian cancer cohort: implications of embracing a multi-gene panel in molecular diagnosis in India.

Science.gov (United States)

Mannan, Ashraf U; Singh, Jaya; Lakshmikeshava, Ravikiran; Thota, Nishita; Singh, Suhasini; Sowmya, T S; Mishra, Avshesh; Sinha, Aditi; Deshwal, Shivani; Soni, Megha R; Chandrasekar, Anbukayalvizhi; Ramesh, Bhargavi; Ramamurthy, Bharat; Padhi, Shila; Manek, Payal; Ramalingam, Ravi; Kapoor, Suman; Ghosh, Mithua; Sankaran, Satish; Ghosh, Arunabha; Veeramachaneni, Vamsi; Ramamoorthy, Preveen; Hariharan, Ramesh; Subramanian, Kalyanasundaram

2016-06-01

Breast and/or ovarian cancer (BOC) are among the most frequently diagnosed forms of hereditary cancers and leading cause of death in India. This emphasizes on the need for a cost-effective method for early detection of these cancers. We sequenced 141 unrelated patients and families with BOC using the TruSight Cancer panel, which includes 13 genes strongly associated with risk of inherited BOC. Multi-gene sequencing was done on the Illumina MiSeq platform. Genetic variations were identified using the Strand NGS software and interpreted using the StrandOmics platform. We were able to detect pathogenic mutations in 51 (36.2%) cases, out of which 19 were novel mutations. When we considered familial breast cancer cases only, the detection rate increased to 52%. When cases were stratified based on age of diagnosis into three categories, ⩽40 years, 40-50 years and >50 years, the detection rates were higher in the first two categories (44.4% and 53.4%, respectively) as compared with the third category, in which it was 26.9%. Our study suggests that next-generation sequencing-based multi-gene panels increase the sensitivity of mutation detection and help in identifying patients with a high risk of developing cancer as compared with sequential tests of individual genes.

Multi-camera and structured-light vision system (MSVS) for dynamic high-accuracy 3D measurements of railway tunnels.

Science.gov (United States)

Zhan, Dong; Yu, Long; Xiao, Jian; Chen, Tanglong

2015-04-14

Railway tunnel 3D clearance inspection is critical to guaranteeing railway operation safety. However, it is a challenge to inspect railway tunnel 3D clearance using a vision system, because both the spatial range and field of view (FOV) of such measurements are quite large. This paper summarizes our work on dynamic railway tunnel 3D clearance inspection based on a multi-camera and structured-light vision system (MSVS). First, the configuration of the MSVS is described. Then, the global calibration for the MSVS is discussed in detail. The onboard vision system is mounted on a dedicated vehicle and is expected to suffer from multiple degrees of freedom vibrations brought about by the running vehicle. Any small vibration can result in substantial measurement errors. In order to overcome this problem, a vehicle motion deviation rectifying method is investigated. Experiments using the vision inspection system are conducted with satisfactory online measurement results.

A wide range and high speed automatic gain control

International Nuclear Information System (INIS)

Tacconi, E.; Christiansen, C.

1993-05-01

Automatic gain control (AGC) techniques have been largely used since the beginning of electronics, but in most of the applications the dynamic response is slow compared with the carrier frequency. The problem of developing an automatic gain control with high dynamic response and wide control range simultaneously is analyzed in this work. An ideal gain control law, with the property that the total loop gain remains constant independent of the carrier amplitude, is obtained. The resulting AGC behavior is compared by computer simulations with a linear multiplier AGC. The ideal gain control law can be approximated using a transconductance amplifier. A practical circuit that has been used at CERN in the radio frequency loops of the Booster Synchrotron is presented. The circuit has high speed and 80-dB gain control range

A HIGH-RESOLUTION, MULTI-EPOCH SPECTRAL ATLAS OF PECULIAR STARS INCLUDING RAVE, GAIA , AND HERMES WAVELENGTH RANGES

International Nuclear Information System (INIS)

Tomasella, Lina; Munari, Ulisse; Zwitter, Tomaz

2010-01-01

We present an Echelle+CCD, high signal-to-noise ratio, high-resolution (R = 20,000) spectroscopic atlas of 108 well-known objects representative of the most common types of peculiar and variable stars. The wavelength interval extends from 4600 to 9400 A and includes the RAVE, Gaia, and HERMES wavelength ranges. Multi-epoch spectra are provided for the majority of the observed stars. A total of 425 spectra of peculiar stars, which were collected during 56 observing nights between 1998 November and 2002 August, are presented. The spectra are given in FITS format and heliocentric wavelengths, with accurate subtraction of both the sky background and the scattered light. Auxiliary material useful for custom applications (telluric dividers, spectrophotometric stars, flat-field tracings) is also provided. The atlas aims to provide a homogeneous database of the spectral appearance of stellar peculiarities, a tool useful both for classification purposes and inter-comparison studies. It could also serve in the planning and development of automated classification algorithms designed for RAVE, Gaia, HERMES, and other large-scale spectral surveys. The spectrum of XX Oph is discussed in some detail as an example of the content of the present atlas.

Population genomic scans suggest novel genes underlie convergent flowering time evolution in the introduced range of Arabidopsis thaliana.

Science.gov (United States)

Gould, Billie A; Stinchcombe, John R

2017-01-01

A long-standing question in evolutionary biology is whether the evolution of convergent phenotypes results from selection on the same heritable genetic components. Using whole-genome sequencing and genome scans, we tested whether the evolution of parallel longitudinal flowering time clines in the native and introduced ranges of Arabidopsis thaliana has a similar genetic basis. We found that common variants of large effect on flowering time in the native range do not appear to have been under recent strong selection in the introduced range. We identified a set of 38 new candidate genes that are putatively linked to the evolution of flowering time. A high degree of conditional neutrality of flowering time variants between the native and introduced range may preclude parallel evolution at the level of genes. Overall, neither gene pleiotropy nor available standing genetic variation appears to have restricted the evolution of flowering time to high-frequency variants from the native range or to known flowering time pathway genes. © 2016 John Wiley & Sons Ltd.

Benchmarking novel approaches for modelling species range dynamics.

Science.gov (United States)

Zurell, Damaris; Thuiller, Wilfried; Pagel, Jörn; Cabral, Juliano S; Münkemüller, Tamara; Gravel, Dominique; Dullinger, Stefan; Normand, Signe; Schiffers, Katja H; Moore, Kara A; Zimmermann, Niklaus E

2016-08-01

Increasing biodiversity loss due to climate change is one of the most vital challenges of the 21st century. To anticipate and mitigate biodiversity loss, models are needed that reliably project species' range dynamics and extinction risks. Recently, several new approaches to model range dynamics have been developed to supplement correlative species distribution models (SDMs), but applications clearly lag behind model development. Indeed, no comparative analysis has been performed to evaluate their performance. Here, we build on process-based, simulated data for benchmarking five range (dynamic) models of varying complexity including classical SDMs, SDMs coupled with simple dispersal or more complex population dynamic models (SDM hybrids), and a hierarchical Bayesian process-based dynamic range model (DRM). We specifically test the effects of demographic and community processes on model predictive performance. Under current climate, DRMs performed best, although only marginally. Under climate change, predictive performance varied considerably, with no clear winners. Yet, all range dynamic models improved predictions under climate change substantially compared to purely correlative SDMs, and the population dynamic models also predicted reasonable extinction risks for most scenarios. When benchmarking data were simulated with more complex demographic and community processes, simple SDM hybrids including only dispersal often proved most reliable. Finally, we found that structural decisions during model building can have great impact on model accuracy, but prior system knowledge on important processes can reduce these uncertainties considerably. Our results reassure the clear merit in using dynamic approaches for modelling species' response to climate change but also emphasize several needs for further model and data improvement. We propose and discuss perspectives for improving range projections through combination of multiple models and for making these approaches

The dynamic time-over-threshold method for multi-channel APD based gamma-ray detectors

Energy Technology Data Exchange (ETDEWEB)

Orita, T., E-mail: orita.tadashi@jaea.go.jp [Japan Atomic Energy Agency, Fukushima (Japan); Shimazoe, K.; Takahashi, H. [Department of Nuclear Management and Engineering, The University of Tokyo, Bunkyō (Japan)

2015-03-01

t– Recent advances in manufacturing technology have enabled the use of multi-channel pixelated detectors in gamma-ray imaging applications. When obtaining gamma-ray measurements, it is important to obtain pulse height information in order to avoid unnecessary events such as scattering. However, as the number of channels increases, more electronics are needed to process each channel's signal, and the corresponding increases in circuit size and power consumption can result in practical problems. The time-over-threshold (ToT) method, which has recently become popular in the medical field, is a signal processing technique that can effectively avoid such problems. However, ToT suffers from poor linearity and its dynamic range is limited. We therefore propose a new ToT technique called the dynamic time-over-threshold (dToT) method [4]. A new signal processing system using dToT and CR-RC shaping demonstrated much better linearity than that of a conventional ToT. Using a test circuit with a new Gd{sub 3}Al{sub 2}Ga{sub 3}O{sub 12} (GAGG) scintillator and an avalanche photodiode, the pulse height spectra of {sup 137}Cs and {sup 22}Na sources were measured with high linearity. Based on these results, we designed a new application-specific integrated circuit (ASIC) for this multi-channel dToT system, measured the spectra of a {sup 22}Na source, and investigated the linearity of the system.

Determination of dynamic characteristics of multi-layer carbon plastic structures of high-resolution scanner

Directory of Open Access Journals (Sweden)

В. Н. Маслей

2017-10-01

Full Text Available The comparative analysis results for the numerical determination of the dynamic characteristics of multi-layer carbon-fiber plates of the space vehicle scanner design by various types of finite element approximation of the physico-mechanical properties of the composite material are presented. Using the topological structure of the construction of reinforcing layers material in the plate package plane, experimental data for the elastic and mass characteristics of homogeneous carbon-fiber fibers, equivalent structural and orthotropic stiffness and elastic characteristics of the material of composite plates are determined.

Evolutionary Fates and Dynamic Functionalization of Young Duplicate Genes in Arabidopsis Genomes.

Science.gov (United States)

Wang, Jun; Tao, Feng; Marowsky, Nicholas C; Fan, Chuanzhu

2016-09-01

Gene duplication is a primary means to generate genomic novelties, playing an essential role in speciation and adaptation. Particularly in plants, a high abundance of duplicate genes has been maintained for significantly long periods of evolutionary time. To address the manner in which young duplicate genes were derived primarily from small-scale gene duplication and preserved in plant genomes and to determine the underlying driving mechanisms, we generated transcriptomes to produce the expression profiles of five tissues in Arabidopsis thaliana and the closely related species Arabidopsis lyrata and Capsella rubella Based on the quantitative analysis metrics, we investigated the evolutionary processes of young duplicate genes in Arabidopsis. We determined that conservation, neofunctionalization, and specialization are three main evolutionary processes for Arabidopsis young duplicate genes. We explicitly demonstrated the dynamic functionalization of duplicate genes along the evolutionary time scale. Upon origination, duplicates tend to maintain their ancestral functions; but as they survive longer, they might be likely to develop distinct and novel functions. The temporal evolutionary processes and functionalization of plant duplicate genes are associated with their ancestral functions, dynamic DNA methylation levels, and histone modification abundances. Furthermore, duplicate genes tend to be initially expressed in pollen and then to gain more interaction partners over time. Altogether, our study provides novel insights into the dynamic retention processes of young duplicate genes in plant genomes. © 2016 American Society of Plant Biologists. All rights reserved.

Local contrast-enhanced MR images via high dynamic range processing.

Science.gov (United States)

Chandra, Shekhar S; Engstrom, Craig; Fripp, Jurgen; Neubert, Ales; Jin, Jin; Walker, Duncan; Salvado, Olivier; Ho, Charles; Crozier, Stuart

2018-09-01

To develop a local contrast-enhancing and feature-preserving high dynamic range (HDR) image processing algorithm for multichannel and multisequence MR images of multiple body regions and tissues, and to evaluate its performance for structure visualization, bias field (correction) mitigation, and automated tissue segmentation. A multiscale-shape and detail-enhancement HDR-MRI algorithm is applied to data sets of multichannel and multisequence MR images of the brain, knee, breast, and hip. In multisequence 3T hip images, agreement between automatic cartilage segmentations and corresponding synthesized HDR-MRI series were computed for mean voxel overlap established from manual segmentations for a series of cases. Qualitative comparisons between the developed HDR-MRI and standard synthesis methods were performed on multichannel 7T brain and knee data, and multisequence 3T breast and knee data. The synthesized HDR-MRI series provided excellent enhancement of fine-scale structure from multiple scales and contrasts, while substantially reducing bias field effects in 7T brain gradient echo, T 1 and T 2 breast images and 7T knee multichannel images. Evaluation of the HDR-MRI approach on 3T hip multisequence images showed superior outcomes for automatic cartilage segmentations with respect to manual segmentation, particularly around regions with hyperintense synovial fluid, across a set of 3D sequences. The successful combination of multichannel/sequence MR images into a single-fused HDR-MR image format provided consolidated visualization of tissues within 1 omnibus image, enhanced definition of thin, complex anatomical structures in the presence of variable or hyperintense signals, and improved tissue (cartilage) segmentation outcomes. © 2018 International Society for Magnetic Resonance in Medicine.

Poxvirus Host Range Genes and Virus-Host Spectrum: A Critical Review.

Science.gov (United States)

Oliveira, Graziele Pereira; Rodrigues, Rodrigo Araújo Lima; Lima, Maurício Teixeira; Drumond, Betânia Paiva; Abrahão, Jônatas Santos

2017-11-07

The Poxviridae family is comprised of double-stranded DNA viruses belonging to nucleocytoplasmic large DNA viruses (NCLDV). Among the NCLDV, poxviruses exhibit the widest known host range, which is likely observed because this viral family has been more heavily investigated. However, relative to each member of the Poxviridae family, the spectrum of the host is variable, where certain viruses can infect a large range of hosts, while others are restricted to only one host species. It has been suggested that the variability in host spectrum among poxviruses is linked with the presence or absence of some host range genes. Would it be possible to extrapolate the restriction of viral replication in a specific cell lineage to an animal, a far more complex organism? In this study, we compare and discuss the relationship between the host range of poxvirus species and the abundance/diversity of host range genes. We analyzed the sequences of 38 previously identified and putative homologs of poxvirus host range genes, and updated these data with deposited sequences of new poxvirus genomes. Overall, the term host range genes might not be the most appropriate for these genes, since no correlation between them and the viruses' host spectrum was observed, and a change in nomenclature should be considered. Finally, we analyzed the evolutionary history of these genes, and reaffirmed the occurrence of horizontal gene transfer (HGT) for certain elements, as previously suggested. Considering the data presented in this study, it is not possible to associate the diversity of host range factors with the amount of hosts of known poxviruses, and this traditional nomenclature creates misunderstandings.

Poxvirus Host Range Genes and Virus–Host Spectrum: A Critical Review

Science.gov (United States)

Oliveira, Graziele Pereira; Rodrigues, Rodrigo Araújo Lima; Lima, Maurício Teixeira; Drumond, Betânia Paiva; Abrahão, Jônatas Santos

2017-01-01

The Poxviridae family is comprised of double-stranded DNA viruses belonging to nucleocytoplasmic large DNA viruses (NCLDV). Among the NCLDV, poxviruses exhibit the widest known host range, which is likely observed because this viral family has been more heavily investigated. However, relative to each member of the Poxviridae family, the spectrum of the host is variable, where certain viruses can infect a large range of hosts, while others are restricted to only one host species. It has been suggested that the variability in host spectrum among poxviruses is linked with the presence or absence of some host range genes. Would it be possible to extrapolate the restriction of viral replication in a specific cell lineage to an animal, a far more complex organism? In this study, we compare and discuss the relationship between the host range of poxvirus species and the abundance/diversity of host range genes. We analyzed the sequences of 38 previously identified and putative homologs of poxvirus host range genes, and updated these data with deposited sequences of new poxvirus genomes. Overall, the term host range genes might not be the most appropriate for these genes, since no correlation between them and the viruses’ host spectrum was observed, and a change in nomenclature should be considered. Finally, we analyzed the evolutionary history of these genes, and reaffirmed the occurrence of horizontal gene transfer (HGT) for certain elements, as previously suggested. Considering the data presented in this study, it is not possible to associate the diversity of host range factors with the amount of hosts of known poxviruses, and this traditional nomenclature creates misunderstandings. PMID:29112165

Dense range images from sparse point clouds using multi-scale processing

NARCIS (Netherlands)

Do, Q.L.; Ma, L.; With, de P.H.N.

2013-01-01

Multi-modal data processing based on visual and depth/range images has become relevant in computer vision for 3D reconstruction applications such as city modeling, robot navigation etc. In this paper, we generate highaccuracy dense range images from sparse point clouds to facilitate such

Multi-year high-frequency hydrothermal monitoring of selected high-threat Cascade Range volcanoes

Science.gov (United States)

Crankshaw, I. M.; Archfield, S. A.; Newman, A. C.; Bergfeld, D.; Clor, L. E.; Spicer, K. R.; Kelly, P. J.; Evans, W. C.; Ingebritsen, S. E.

2018-05-01

From 2009 to 2015 the U.S. Geological Survey (USGS) systematically monitored hydrothermal behavior at selected Cascade Range volcanoes in order to define baseline hydrothermal and geochemical conditions. Gas and water data were collected regularly at 25 sites on 10 of the highest-risk volcanoes in the Cascade Range. These sites include near-summit fumarole groups and springs/streams that show clear evidence of magmatic influence (high 3He/4He ratios and/or large fluxes of magmatic CO2 or heat). Site records consist mainly of hourly temperature and hydrothermal-flux data. Having established baseline conditions during a multiyear quiescent period, the USGS reduced monitoring frequency from 2015 to present. The archived monitoring data are housed at (doi:10.5066/F72N5088). These data (1) are suitable for retrospective comparison with other continuous geophysical monitoring data and (2) will provide context during future episodes of volcanic unrest, such that unrest-related variations at these thoroughly characterized sites will be more clearly recognizable. Relatively high-frequency year-round data are essential to achieve these objectives, because many of the time series reveal significant diurnal, seasonal, and inter-annual variability that would tend to mask unrest signals in the absence of baseline data. Here we characterize normal variability for each site, suggest strategies to detect future volcanic unrest, and explore deviations from background associated with recent unrest.

Dynamic gene expression analysis in a H1N1 influenza virus mouse pneumonia model.

Science.gov (United States)

Bao, Yanyan; Gao, Yingjie; Shi, Yujing; Cui, Xiaolan

2017-06-01

H1N1, a major pathogenic subtype of influenza A virus, causes a respiratory infection in humans and livestock that can range from a mild infection to more severe pneumonia associated with acute respiratory distress syndrome. Understanding the dynamic changes in the genome and the related functional changes induced by H1N1 influenza virus infection is essential to elucidating the pathogenesis of this virus and thereby determining strategies to prevent future outbreaks. In this study, we filtered the significantly expressed genes in mouse pneumonia using mRNA microarray analysis. Using STC analysis, seven significant gene clusters were revealed, and using STC-GO analysis, we explored the significant functions of these seven gene clusters. The results revealed GOs related to H1N1 virus-induced inflammatory and immune functions, including innate immune response, inflammatory response, specific immune response, and cellular response to interferon-beta. Furthermore, the dynamic regulation relationships of the key genes in mouse pneumonia were revealed by dynamic gene network analysis, and the most important genes were filtered, including Dhx58, Cxcl10, Cxcl11, Zbp1, Ifit1, Ifih1, Trim25, Mx2, Oas2, Cd274, Irgm1, and Irf7. These results suggested that during mouse pneumonia, changes in the expression of gene clusters and the complex interactions among genes lead to significant changes in function. Dynamic gene expression analysis revealed key genes that performed important functions. These results are a prelude to advancements in mouse H1N1 influenza virus infection biology, as well as the use of mice as a model organism for human H1N1 influenza virus infection studies.

Explicit/multi-parametric model predictive control (MPC) of linear discrete-time systems by dynamic and multi-parametric programming

KAUST Repository

Kouramas, K.I.; Faí sca, N.P.; Panos, C.; Pistikopoulos, E.N.

2011-01-01

This work presents a new algorithm for solving the explicit/multi- parametric model predictive control (or mp-MPC) problem for linear, time-invariant discrete-time systems, based on dynamic programming and multi-parametric programming techniques

A dynamic predictive maintenance policy for complex multi-component systems

International Nuclear Information System (INIS)

Van Horenbeek, Adriaan; Pintelon, Liliane

2013-01-01

The use of prognostic methods in maintenance in order to predict remaining useful life is receiving more attention over the past years. The use of these techniques in maintenance decision making and optimization in multi-component systems is however a still underexplored area. The objective of this paper is to optimally plan maintenance for a multi-component system based on prognostic/predictive information while considering different component dependencies (i.e. economic, structural and stochastic dependence). Consequently, this paper presents a dynamic predictive maintenance policy for multi-component systems that minimizes the long-term mean maintenance cost per unit time. The proposed maintenance policy is a dynamic method as the maintenance schedule is updated when new information on the degradation and remaining useful life of components becomes available. The performance, regarding the objective of minimal long-term mean cost per unit time, of the developed dynamic predictive maintenance policy is compared to five other conventional maintenance policies, these are: block-based maintenance, age-based maintenance, age-based maintenance with grouping, inspection condition-based maintenance and continuous condition-based maintenance. The ability of the predictive maintenance policy to react to changing component deterioration and dependencies within a multi-component system is quantified and the results show significant cost savings

Computational model of lightness perception in high dynamic range imaging

Science.gov (United States)

Krawczyk, Grzegorz; Myszkowski, Karol; Seidel, Hans-Peter

2006-02-01

An anchoring theory of lightness perception by Gilchrist et al. [1999] explains many characteristics of human visual system such as lightness constancy and its spectacular failures which are important in the perception of images. The principal concept of this theory is the perception of complex scenes in terms of groups of consistent areas (frameworks). Such areas, following the gestalt theorists, are defined by the regions of common illumination. The key aspect of the image perception is the estimation of lightness within each framework through the anchoring to the luminance perceived as white, followed by the computation of the global lightness. In this paper we provide a computational model for automatic decomposition of HDR images into frameworks. We derive a tone mapping operator which predicts lightness perception of the real world scenes and aims at its accurate reproduction on low dynamic range displays. Furthermore, such a decomposition into frameworks opens new grounds for local image analysis in view of human perception.

Multi-Camera and Structured-Light Vision System (MSVS for Dynamic High-Accuracy 3D Measurements of Railway Tunnels

Directory of Open Access Journals (Sweden)

Dong Zhan

2015-04-01

Full Text Available Railway tunnel 3D clearance inspection is critical to guaranteeing railway operation safety. However, it is a challenge to inspect railway tunnel 3D clearance using a vision system, because both the spatial range and field of view (FOV of such measurements are quite large. This paper summarizes our work on dynamic railway tunnel 3D clearance inspection based on a multi-camera and structured-light vision system (MSVS. First, the configuration of the MSVS is described. Then, the global calibration for the MSVS is discussed in detail. The onboard vision system is mounted on a dedicated vehicle and is expected to suffer from multiple degrees of freedom vibrations brought about by the running vehicle. Any small vibration can result in substantial measurement errors. In order to overcome this problem, a vehicle motion deviation rectifying method is investigated. Experiments using the vision inspection system are conducted with satisfactory online measurement results.

Dynamic Planar Range Maxima Queries

DEFF Research Database (Denmark)

Brodal, Gerth Stølting; Tsakalidis, Konstantinos

2011-01-01

We consider the dynamic two-dimensional maxima query problem. Let P be a set of n points in the plane. A point is maximal if it is not dominated by any other point in P. We describe two data structures that support the reporting of the t maximal points that dominate a given query point, and allow...... for insertions and deletions of points in P. In the pointer machine model we present a linear space data structure with O(logn + t) worst case query time and O(logn) worst case update time. This is the first dynamic data structure for the planar maxima dominance query problem that achieves these bounds...... are integers in the range U = {0, …,2 w  − 1 }. We present a linear space data structure that supports 3-sided range maxima queries in O(logn/loglogn+t) worst case time and updates in O(logn/loglogn) worst case time. These are the first sublogarithmic worst case bounds for all operations in the RAM model....

Dynamic range enhancement and amplitude regeneration in single pump fibre optic parametric amplifiers using DPSK modulation

DEFF Research Database (Denmark)

Peucheret, Christophe; Lorenzen, Michael Rodas; Seoane, Jorge

2008-01-01

Input power dynamic range enhancement and amplitude regeneration of highly distorted signals are demonstrated experimentally for 40 Gbit/s RZ-DPSK in a single-pump fibre parametric amplifier with 22 dB smallsignal gain.......Input power dynamic range enhancement and amplitude regeneration of highly distorted signals are demonstrated experimentally for 40 Gbit/s RZ-DPSK in a single-pump fibre parametric amplifier with 22 dB smallsignal gain....

A dynamically tunable plasmonic multi-functional device based on graphene nano-sheet pair arrays

Science.gov (United States)

Wang, Wei; Meng, Zhao; Liang, Ruisheng; Chen, Shijie; Ding, Li; Wang, Faqiang; Liu, Hongzhan; Meng, Hongyun; Wei, Zhongchao

2018-05-01

Dynamically tunable plasmonic multi-functional is particularly desirable for various nanotechnological applications. In this paper, graphene nano-sheet pair arrays separated by a substrate, which can act as a dynamically tunable plasmonic band stop filter with transmission at resonance wavelength lower than 1%, a high sensitivity refractive index sensor with sensitivity up to 4879 nm/RIU, figure of merit of 40.66 and a two circuit optical switch with the modulation depth up to 0.998, are proposed and numerically investigated. These excellent optical performances are calculated by using FDTD numerical modeling and theoretical deduction. Simulation results show that a slight variation of chemical potential of the graphene nano-sheet can achieve significant resonance wavelength shifts. In additional, the resonance wavelength and transmission of this plasmonic device can be tuned easily by two voltages owing to the simple patterned graphene. These studies may have great potential in fabrication of multi-functional and dynamically tunable optoelectronic integrated devices.

Asymptotic numerical method for multi-degree-of-freedom nonlinear dynamic systems

International Nuclear Information System (INIS)

Mei Shuli; Du Chengjin; Zhang Senwen

2008-01-01

Homotopy perturbation method (HPM) proposed by Ji-Huan He is very effective and convenient for single-degree-of-freedom systems. In this paper a coupling technique of He's method and precise integration method (PIM) is suggested to solve multi-degree-of-freedom nonlinear dynamic systems. The new technique keeps the merits of the two methods. Some examples are given to illustrate its effectiveness and convenience. Furthermore the obtained solution is of high accuracy

System Theory Aspects of Multi-Body Dynamics.

Science.gov (United States)

1978-08-18

systems are described from a system theory point of view. Various system theory concepts and research topics which have applicability to this class of...systems are identified and briefly described. The subject of multi-body dynamics is presented in a vector space setting and is related to system theory concepts. (Author)

Image dynamic range test and evaluation of Gaofen-2 dual cameras

Science.gov (United States)

Zhang, Zhenhua; Gan, Fuping; Wei, Dandan

2015-12-01

In order to fully understand the dynamic range of Gaofen-2 satellite data and support the data processing, application and next satellites development, in this article, we evaluated the dynamic range by calculating some statistics such as maximum ,minimum, average and stand deviation of four images obtained at the same time by Gaofen-2 dual cameras in Beijing area; then the maximum ,minimum, average and stand deviation of each longitudinal overlap of PMS1,PMS2 were calculated respectively for the evaluation of each camera's dynamic range consistency; and these four statistics of each latitudinal overlap of PMS1,PMS2 were calculated respectively for the evaluation of the dynamic range consistency between PMS1 and PMS2 at last. The results suggest that there is a wide dynamic range of DN value in the image obtained by PMS1 and PMS2 which contains rich information of ground objects; in general, the consistency of dynamic range between the single camera images is in close agreement, but also a little difference, so do the dual cameras. The consistency of dynamic range between the single camera images is better than the dual cameras'.

High efficiency RF amplifier development over wide dynamic range for accelerator application

Science.gov (United States)

Mishra, Jitendra Kumar; Ramarao, B. V.; Pande, Manjiri M.; Joshi, Gopal; Sharma, Archana; Singh, Pitamber

2017-10-01

Superconducting (SC) cavities in an accelerating section are designed to have the same geometrical velocity factor (βg). For these cavities, Radio Frequency (RF) power needed to accelerate charged particles varies with the particle velocity factor (β). RF power requirement from one cavity to other can vary by 2-5 dB within the accelerating section depending on the energy gain in the cavity and beam current. In this paper, we have presented an idea to improve operating efficiency of the SC RF accelerators using envelope tracking technique. A study on envelope tracking technique without feedback is carried out on a 1 kW, 325 MHz, class B (conduction angle of 180 degrees) tuned load power amplifier (PA). We have derived expressions for the efficiency and power output for tuned load amplifier operating on the envelope tracking technique. From the derived expressions, it is observed that under constant load resistance to the device (MOSFET), optimum amplifier efficiency is invariant whereas output power varies with the square of drain bias voltage. Experimental results on 1 kW PA module show that its optimum efficiency is always greater than 62% with variation less than 5% from mean value over 7 dB dynamic range. Low power amplifier modules are the basic building block for the high power amplifiers. Therefore, results for 1 kW PA modules remain valid for the high power solid state amplifiers built using these PA modules. The SC RF accelerators using these constant efficiency power amplifiers can improve overall accelerator efficiency.

cDREM: inferring dynamic combinatorial gene regulation.

Science.gov (United States)

Wise, Aaron; Bar-Joseph, Ziv

2015-04-01

Genes are often combinatorially regulated by multiple transcription factors (TFs). Such combinatorial regulation plays an important role in development and facilitates the ability of cells to respond to different stresses. While a number of approaches have utilized sequence and ChIP-based datasets to study combinational regulation, these have often ignored the combinational logic and the dynamics associated with such regulation. Here we present cDREM, a new method for reconstructing dynamic models of combinatorial regulation. cDREM integrates time series gene expression data with (static) protein interaction data. The method is based on a hidden Markov model and utilizes the sparse group Lasso to identify small subsets of combinatorially active TFs, their time of activation, and the logical function they implement. We tested cDREM on yeast and human data sets. Using yeast we show that the predicted combinatorial sets agree with other high throughput genomic datasets and improve upon prior methods developed to infer combinatorial regulation. Applying cDREM to study human response to flu, we were able to identify several combinatorial TF sets, some of which were known to regulate immune response while others represent novel combinations of important TFs.

Inferring species trees from incongruent multi-copy gene trees using the Robinson-Foulds distance

Science.gov (United States)

2013-01-01

Background Constructing species trees from multi-copy gene trees remains a challenging problem in phylogenetics. One difficulty is that the underlying genes can be incongruent due to evolutionary processes such as gene duplication and loss, deep coalescence, or lateral gene transfer. Gene tree estimation errors may further exacerbate the difficulties of species tree estimation. Results We present a new approach for inferring species trees from incongruent multi-copy gene trees that is based on a generalization of the Robinson-Foulds (RF) distance measure to multi-labeled trees (mul-trees). We prove that it is NP-hard to compute the RF distance between two mul-trees; however, it is easy to calculate this distance between a mul-tree and a singly-labeled species tree. Motivated by this, we formulate the RF problem for mul-trees (MulRF) as follows: Given a collection of multi-copy gene trees, find a singly-labeled species tree that minimizes the total RF distance from the input mul-trees. We develop and implement a fast SPR-based heuristic algorithm for the NP-hard MulRF problem. We compare the performance of the MulRF method (available at http://genome.cs.iastate.edu/CBL/MulRF/) with several gene tree parsimony approaches using gene tree simulations that incorporate gene tree error, gene duplications and losses, and/or lateral transfer. The MulRF method produces more accurate species trees than gene tree parsimony approaches. We also demonstrate that the MulRF method infers in minutes a credible plant species tree from a collection of nearly 2,000 gene trees. Conclusions Our new phylogenetic inference method, based on a generalized RF distance, makes it possible to quickly estimate species trees from large genomic data sets. Since the MulRF method, unlike gene tree parsimony, is based on a generic tree distance measure, it is appealing for analyses of genomic data sets, in which many processes such as deep coalescence, recombination, gene duplication and losses as

Time ordering in multi-electron dynamics

International Nuclear Information System (INIS)

McGuire, J H; Godunov, A L; Shakov, Kh Kh; Shipakov, V A; Merabet, H; Bruch, R; Hanni, J

2003-01-01

Time ordering of interactions in dynamic quantum multi-electron systems provides a constraint that interconnects the time evolution of different electrons. In energy space, time ordering appears as the principal value contribution from the Green function, which corresponds to the asymptotic condition that specifies whether the system has outgoing (or possibly incoming) scattered waves. We report evidence of effects of time correlation found by comparing calculations to recent spectropolarimetric data

Time ordering in multi-electron dynamics

Energy Technology Data Exchange (ETDEWEB)

McGuire, J H [Department of Physics, Tulane University, New Orleans, LA (United States); Godunov, A L [Department of Physics, Tulane University, New Orleans, LA (United States); Shakov, Kh Kh [Department of Physics, Tulane University, New Orleans, LA (United States); Shipakov, V A [Troitsk Institute for Innovation and Fusion Research, Troitsk (Russian Federation); Merabet, H [Department of Physics, University of Nevada Reno, Reno, NV (United States); Bruch, R [Department of Physics, University of Nevada Reno, Reno, NV (United States); Hanni, J [Department of Physics, University of Nevada Reno, Reno, NV (United States)

2003-01-28

Time ordering of interactions in dynamic quantum multi-electron systems provides a constraint that interconnects the time evolution of different electrons. In energy space, time ordering appears as the principal value contribution from the Green function, which corresponds to the asymptotic condition that specifies whether the system has outgoing (or possibly incoming) scattered waves. We report evidence of effects of time correlation found by comparing calculations to recent spectropolarimetric data.

Intrinsic vs. spurious long-range memory in high-frequency records of environmental radioactivity - Critical re-assessment and application to indoor 222Rn concentrations from Coimbra, Portugal

Science.gov (United States)

Donner, Reik V.; Potirakis, Stelios M.; Barbosa, Susana M.; Matos, Jose A. O.

2015-04-01

The presence or absence of long-range correlations in environmental radioactivity fluctuations has recently attracted considerable interest. Among a multiplicity of practically relevant applications, identifying and disentangling the environmental factors controlling the variable concentrations of the radioactive noble gas Radon is important for estimating its effect on human health and the efficiency of possible measures for reducing the corresponding exposition. In this work, we present a critical re-assessment of a multiplicity of complementary methods that have been previously applied for evaluating the presence of long-range correlations and fractal scaling in environmental Radon variations with a particular focus on the specific properties of the underlying time series. As an illustrative case study, we subsequently re-analyze two high-frequency records of indoor Radon concentrations from Coimbra, Portugal, each of which spans several months of continuous measurements at a high temporal resolution of five minutes. Our results reveal that at the study site, Radon concentrations exhibit complex multi-scale dynamics with qualitatively different properties at different time-scales: (i) essentially white noise in the high-frequency part (up to time-scales of about one hour), (ii) spurious indications of a non-stationary, apparently long-range correlated process (at time scales between hours and one day) arising from marked periodic components probably related to tidal frequencies, and (iii) low-frequency variability indicating a true long-range dependent process, which might be dominated by a response to meteorological drivers. In the presence of such multi-scale variability, common estimators of long-range memory in time series are necessarily prone to fail if applied to the raw data without previous separation of time-scales with qualitatively different dynamics. We emphasize that similar properties can be found in other types of geophysical time series (for

Transmutation Dynamics: Impacts of Multi-Recycling on Fuel Cycle Performances

Energy Technology Data Exchange (ETDEWEB)

S. Bays; S. Piet; M. Pope; G. Youinou; A. Dumontier; D. Hawn

2009-09-01

From a physics standpoint, it is feasible to sustain continuous multi-recycle in either thermal or fast reactors. In Fiscal Year 2009, transmutaton work at INL provided important new insight, caveats, and tools on multi-recycle. Multi-recycle of MOX, even with all the transuranics, is possible provided continuous enrichment of the uranium phase to ~6.5% and also limitting the transuranic enrichment to slightly less than 8%. Multi-recycle of heterogeneous-IMF assemblies is possible with continuous enrichment of the UOX pins to ~4.95% and having =60 of the 264 fuel pins being inter-matrix. A new tool enables quick assessment of the impact of different cooling times on isotopic evolution. The effect of cooling time was found to be almost as controlling on higher mass actinide concentrations in fuel as the selection of thermal versus fast neutron spectra. A new dataset was built which provides on-the-fly estimates of gamma and neutron dose in MOX fuels as a function of the isotopic evolution. All studies this year focused on the impact of dynamic feedback due to choices made in option space. Both the equilibrium fuel cycle concentrations and the transient time to reach equilibrium for each isotope were evaluated over a range of reactor, reprocessing and cooling time combinations. New bounding cases and analysis methods for evaluating both reactor safety and radiation worker safety were established. This holistic collection of physics analyses and methods gives improved resolution of fuel cycle options, and impacts thereof, over that of previous ad-hoc and single-point analyses.

Nonlinear multi-analysis of agent-based financial market dynamics by epidemic system

Science.gov (United States)

Lu, Yunfan; Wang, Jun; Niu, Hongli

2015-10-01

Based on the epidemic dynamical system, we construct a new agent-based financial time series model. In order to check and testify its rationality, we compare the statistical properties of the time series model with the real stock market indices, Shanghai Stock Exchange Composite Index and Shenzhen Stock Exchange Component Index. For analyzing the statistical properties, we combine the multi-parameter analysis with the tail distribution analysis, the modified rescaled range analysis, and the multifractal detrended fluctuation analysis. For a better perspective, the three-dimensional diagrams are used to present the analysis results. The empirical research in this paper indicates that the long-range dependence property and the multifractal phenomenon exist in the real returns and the proposed model. Therefore, the new agent-based financial model can recurrence some important features of real stock markets.

Use of wavelet-packet transforms to develop an engineering model for multifractal characterization of mutation dynamics in pathological and nonpathological gene sequences

Science.gov (United States)

Walker, David Lee

1999-12-01

This study uses dynamical analysis to examine in a quantitative fashion the information coding mechanism in DNA sequences. This exceeds the simple dichotomy of either modeling the mechanism by comparing DNA sequence walks as Fractal Brownian Motion (fbm) processes. The 2-D mappings of the DNA sequences for this research are from Iterated Function System (IFS) (Also known as the ``Chaos Game Representation'' (CGR)) mappings of the DNA sequences. This technique converts a 1-D sequence into a 2-D representation that preserves subsequence structure and provides a visual representation. The second step of this analysis involves the application of Wavelet Packet Transforms, a recently developed technique from the field of signal processing. A multi-fractal model is built by using wavelet transforms to estimate the Hurst exponent, H. The Hurst exponent is a non-parametric measurement of the dynamism of a system. This procedure is used to evaluate gene- coding events in the DNA sequence of cystic fibrosis mutations. The H exponent is calculated for various mutation sites in this gene. The results of this study indicate the presence of anti-persistent, random walks and persistent ``sub-periods'' in the sequence. This indicates the hypothesis of a multi-fractal model of DNA information encoding warrants further consideration. This work examines the model's behavior in both pathological (mutations) and non-pathological (healthy) base pair sequences of the cystic fibrosis gene. These mutations both natural and synthetic were introduced by computer manipulation of the original base pair text files. The results show that disease severity and system ``information dynamics'' correlate. These results have implications for genetic engineering as well as in mathematical biology. They suggest that there is scope for more multi-fractal models to be developed.

Dynamic clustering scheme based on the coordination of management and control in multi-layer and multi-region intelligent optical network

Science.gov (United States)

Niu, Xiaoliang; Yuan, Fen; Huang, Shanguo; Guo, Bingli; Gu, Wanyi

2011-12-01

A Dynamic clustering scheme based on coordination of management and control is proposed to reduce network congestion rate and improve the blocking performance of hierarchical routing in Multi-layer and Multi-region intelligent optical network. Its implement relies on mobile agent (MA) technology, which has the advantages of efficiency, flexibility, functional and scalability. The paper's major contribution is to adjust dynamically domain when the performance of working network isn't in ideal status. And the incorporation of centralized NMS and distributed MA control technology migrate computing process to control plane node which releases the burden of NMS and improves process efficiently. Experiments are conducted on Multi-layer and multi-region Simulation Platform for Optical Network (MSPON) to assess the performance of the scheme.

Dynamic modeling and explicit/multi-parametric MPC control of pressure swing adsorption systems

KAUST Repository

Khajuria, Harish

2011-01-01

Pressure swing adsorption (PSA) is a flexible, albeit complex gas separation system. Due to its inherent nonlinear nature and discontinuous operation, the design of a model based PSA controller, especially with varying operating conditions, is a challenging task. This work focuses on the design of an explicit/multi-parametric model predictive controller for a PSA system. Based on a system involving four adsorbent beds separating 70% H2, 30% CH4 mixture into high purity hydrogen, the key controller objective is to fast track H2 purity to a set point value of 99.99%. To perform this task, a rigorous and systematic framework is employed. First, a high fidelity detailed dynamic model is built to represent the system\\'s real operation, and understand its dynamic behavior. The model is then used to derive appropriate linear models by applying suitable system identification techniques. For the reduced models, a model predictive control (MPC) step is formulated, where latest developments in multi-parametric programming and control are applied to derive a novel explicit MPC controller. To test the performance of the designed controller, closed loop simulations are performed where the dynamic model is used as the virtual plant. Comparison studies of the derived explicit MPC controller are also performed with conventional PID controllers. © 2010 Elsevier Ltd. All rights reserved.

Cloud cover detection combining high dynamic range sky images and ceilometer measurements

Science.gov (United States)

Román, R.; Cazorla, A.; Toledano, C.; Olmo, F. J.; Cachorro, V. E.; de Frutos, A.; Alados-Arboledas, L.

2017-11-01

This paper presents a new algorithm for cloud detection based on high dynamic range images from a sky camera and ceilometer measurements. The algorithm is also able to detect the obstruction of the sun. This algorithm, called CPC (Camera Plus Ceilometer), is based on the assumption that under cloud-free conditions the sky field must show symmetry. The symmetry criteria are applied depending on ceilometer measurements of the cloud base height. CPC algorithm is applied in two Spanish locations (Granada and Valladolid). The performance of CPC retrieving the sun conditions (obstructed or unobstructed) is analyzed in detail using as reference pyranometer measurements at Granada. CPC retrievals are in agreement with those derived from the reference pyranometer in 85% of the cases (it seems that this agreement does not depend on aerosol size or optical depth). The agreement percentage goes down to only 48% when another algorithm, based on Red-Blue Ratio (RBR), is applied to the sky camera images. The retrieved cloud cover at Granada and Valladolid is compared with that registered by trained meteorological observers. CPC cloud cover is in agreement with the reference showing a slight overestimation and a mean absolute error around 1 okta. A major advantage of the CPC algorithm with respect to the RBR method is that the determined cloud cover is independent of aerosol properties. The RBR algorithm overestimates cloud cover for coarse aerosols and high loads. Cloud cover obtained only from ceilometer shows similar results than CPC algorithm; but the horizontal distribution cannot be obtained. In addition, it has been observed that under quick and strong changes on cloud cover ceilometers retrieve a cloud cover fitting worse with the real cloud cover.

Evolutionary Fates and Dynamic Functionalization of Young Duplicate Genes in Arabidopsis Genomes1[OPEN

Science.gov (United States)

Wang, Jun; Tao, Feng; Marowsky, Nicholas C.; Fan, Chuanzhu

2016-01-01

Gene duplication is a primary means to generate genomic novelties, playing an essential role in speciation and adaptation. Particularly in plants, a high abundance of duplicate genes has been maintained for significantly long periods of evolutionary time. To address the manner in which young duplicate genes were derived primarily from small-scale gene duplication and preserved in plant genomes and to determine the underlying driving mechanisms, we generated transcriptomes to produce the expression profiles of five tissues in Arabidopsis thaliana and the closely related species Arabidopsis lyrata and Capsella rubella. Based on the quantitative analysis metrics, we investigated the evolutionary processes of young duplicate genes in Arabidopsis. We determined that conservation, neofunctionalization, and specialization are three main evolutionary processes for Arabidopsis young duplicate genes. We explicitly demonstrated the dynamic functionalization of duplicate genes along the evolutionary time scale. Upon origination, duplicates tend to maintain their ancestral functions; but as they survive longer, they might be likely to develop distinct and novel functions. The temporal evolutionary processes and functionalization of plant duplicate genes are associated with their ancestral functions, dynamic DNA methylation levels, and histone modification abundances. Furthermore, duplicate genes tend to be initially expressed in pollen and then to gain more interaction partners over time. Altogether, our study provides novel insights into the dynamic retention processes of young duplicate genes in plant genomes. PMID:27485883

Cellular Particle Dynamics simulation of biomechanical relaxation processes of multi-cellular systems

Science.gov (United States)

McCune, Matthew; Kosztin, Ioan

2013-03-01

Cellular Particle Dynamics (CPD) is a theoretical-computational-experimental framework for describing and predicting the time evolution of biomechanical relaxation processes of multi-cellular systems, such as fusion, sorting and compression. In CPD, cells are modeled as an ensemble of cellular particles (CPs) that interact via short range contact interactions, characterized by an attractive (adhesive interaction) and a repulsive (excluded volume interaction) component. The time evolution of the spatial conformation of the multicellular system is determined by following the trajectories of all CPs through numerical integration of their equations of motion. Here we present CPD simulation results for the fusion of both spherical and cylindrical multi-cellular aggregates. First, we calibrate the relevant CPD model parameters for a given cell type by comparing the CPD simulation results for the fusion of two spherical aggregates to the corresponding experimental results. Next, CPD simulations are used to predict the time evolution of the fusion of cylindrical aggregates. The latter is relevant for the formation of tubular multi-cellular structures (i.e., primitive blood vessels) created by the novel bioprinting technology. Work supported by NSF [PHY-0957914]. Computer time provided by the University of Missouri Bioinformatics Consortium.

Multi-Scale Simulation of High Energy Density Ionic Liquids

National Research Council Canada - National Science Library

Voth, Gregory A

2007-01-01

The focus of this AFOSR project was the molecular dynamics (MD) simulation of ionic liquid structure, dynamics, and interfacial properties, as well as multi-scale descriptions of these novel liquids (e.g...

Transmitted wavefront testing with large dynamic range based on computer-aided deflectometry

Science.gov (United States)

Wang, Daodang; Xu, Ping; Gong, Zhidong; Xie, Zhongmin; Liang, Rongguang; Xu, Xinke; Kong, Ming; Zhao, Jun

2018-06-01

The transmitted wavefront testing technique is demanded for the performance evaluation of transmission optics and transparent glass, in which the achievable dynamic range is a key issue. A computer-aided deflectometric testing method with fringe projection is proposed for the accurate testing of transmitted wavefronts with a large dynamic range. Ray tracing of the modeled testing system is carried out to achieve the virtual ‘null’ testing of transmitted wavefront aberrations. The ray aberration is obtained from the ray tracing result and measured slope, with which the test wavefront aberration can be reconstructed. To eliminate testing system modeling errors, a system geometry calibration based on computer-aided reverse optimization is applied to realize accurate testing. Both numerical simulation and experiments have been carried out to demonstrate the feasibility and high accuracy of the proposed testing method. The proposed testing method can achieve a large dynamic range compared with the interferometric method, providing a simple, low-cost and accurate way for the testing of transmitted wavefronts from various kinds of optics and a large amount of industrial transmission elements.

Sorting method to extend the dynamic range of the Shack-Hartmann wave-front sensor

International Nuclear Information System (INIS)

Lee, Junwon; Shack, Roland V.; Descour, Michael R.

2005-01-01

We propose a simple and powerful algorithm to extend the dynamic range of a Shack-Hartmann wave-front sensor. In a conventional Shack-Hartmann wave-front sensor the dynamic range is limited by the f-number of a lenslet, because the focal spot is required to remain in the area confined by the single lenslet. The sorting method proposed here eliminates such a limitation and extends the dynamic range by tagging each spot in a special sequence. Since the sorting method is a simple algorithm that does not change the measurement configuration, there is no requirement for extra hardware, multiple measurements, or complicated algorithms. We not only present the theory and a calculation example of the sorting method but also actually implement measurement of a highly aberrated wave front from nonrotational symmetric optics

An integrative multi-dimensional genetic and epigenetic strategy to identify aberrant genes and pathways in cancer

Directory of Open Access Journals (Sweden)

Lockwood William W

2010-05-01

Full Text Available Abstract Background Genomics has substantially changed our approach to cancer research. Gene expression profiling, for example, has been utilized to delineate subtypes of cancer, and facilitated derivation of predictive and prognostic signatures. The emergence of technologies for the high resolution and genome-wide description of genetic and epigenetic features has enabled the identification of a multitude of causal DNA events in tumors. This has afforded the potential for large scale integration of genome and transcriptome data generated from a variety of technology platforms to acquire a better understanding of cancer. Results Here we show how multi-dimensional genomics data analysis would enable the deciphering of mechanisms that disrupt regulatory/signaling cascades and downstream effects. Since not all gene expression changes observed in a tumor are causal to cancer development, we demonstrate an approach based on multiple concerted disruption (MCD analysis of genes that facilitates the rational deduction of aberrant genes and pathways, which otherwise would be overlooked in single genomic dimension investigations. Conclusions Notably, this is the first comprehensive study of breast cancer cells by parallel integrative genome wide analyses of DNA copy number, LOH, and DNA methylation status to interpret changes in gene expression pattern. Our findings demonstrate the power of a multi-dimensional approach to elucidate events which would escape conventional single dimensional analysis and as such, reduce the cohort sample size for cancer gene discovery.

Solving dynamic multi-objective problems with vector evaluated particle swarm optimisation

CSIR Research Space (South Africa)

Greeff, M

2008-06-01

Full Text Available Many optimisation problems are multi-objective and change dynamically. Many methods use a weighted average approach to the multiple objectives. This paper introduces the usage of the vector evaluated particle swarm optimiser (VEPSO) to solve dynamic...

Time course of dynamic range adaptation in the auditory nerve

Science.gov (United States)

Wang, Grace I.; Dean, Isabel; Delgutte, Bertrand

2012-01-01

Auditory adaptation to sound-level statistics occurs as early as in the auditory nerve (AN), the first stage of neural auditory processing. In addition to firing rate adaptation characterized by a rate decrement dependent on previous spike activity, AN fibers show dynamic range adaptation, which is characterized by a shift of the rate-level function or dynamic range toward the most frequently occurring levels in a dynamic stimulus, thereby improving the precision of coding of the most common sound levels (Wen B, Wang GI, Dean I, Delgutte B. J Neurosci 29: 13797–13808, 2009). We investigated the time course of dynamic range adaptation by recording from AN fibers with a stimulus in which the sound levels periodically switch from one nonuniform level distribution to another (Dean I, Robinson BL, Harper NS, McAlpine D. J Neurosci 28: 6430–6438, 2008). Dynamic range adaptation occurred rapidly, but its exact time course was difficult to determine directly from the data because of the concomitant firing rate adaptation. To characterize the time course of dynamic range adaptation without the confound of firing rate adaptation, we developed a phenomenological “dual adaptation” model that accounts for both forms of AN adaptation. When fitted to the data, the model predicts that dynamic range adaptation occurs as rapidly as firing rate adaptation, over 100–400 ms, and the time constants of the two forms of adaptation are correlated. These findings suggest that adaptive processing in the auditory periphery in response to changes in mean sound level occurs rapidly enough to have significant impact on the coding of natural sounds. PMID:22457465

Lithium-ion battery dynamic model for wide range of operating conditions

DEFF Research Database (Denmark)

Stroe, Ana-Irina; Stroe, Daniel-Ioan; Swierczynski, Maciej Jozef

2017-01-01

In order to analyze the dynamic behavior of a Lithium-ion (Li-ion) battery and to determine their suitability for various applications, battery models are needed. An equivalent electrical circuit model is the most common way of representing the behavior of a Li-ion battery. There are different...... characterization tests performed for a wide range of operating conditions (temperature, load current and state-of-charge) on a commercial available 13Ah high-power lithium titanate oxide battery cell. The obtained results were used to parametrize the proposed dynamic model of the battery cell. To assess...

Stochastic Rotation Dynamics simulations of wetting multi-phase flows

Science.gov (United States)

Hiller, Thomas; Sanchez de La Lama, Marta; Brinkmann, Martin

2016-06-01

Multi-color Stochastic Rotation Dynamics (SRDmc) has been introduced by Inoue et al. [1,2] as a particle based simulation method to study the flow of emulsion droplets in non-wetting microchannels. In this work, we extend the multi-color method to also account for different wetting conditions. This is achieved by assigning the color information not only to fluid particles but also to virtual wall particles that are required to enforce proper no-slip boundary conditions. To extend the scope of the original SRDmc algorithm to e.g. immiscible two-phase flow with viscosity contrast we implement an angular momentum conserving scheme (SRD+mc). We perform extensive benchmark simulations to show that a mono-phase SRDmc fluid exhibits bulk properties identical to a standard SRD fluid and that SRDmc fluids are applicable to a wide range of immiscible two-phase flows. To quantify the adhesion of a SRD+mc fluid in contact to the walls we measure the apparent contact angle from sessile droplets in mechanical equilibrium. For a further verification of our wettability implementation we compare the dewetting of a liquid film from a wetting stripe to experimental and numerical studies of interfacial morphologies on chemically structured surfaces.

Multi-thermal dynamics and energetics of a coronal mass ejection in the low solar atmosphere

Science.gov (United States)

Hannah, I. G.; Kontar, E. P.

2013-05-01

Aims: The aim of this work is to determine the multi-thermal characteristics and plasma energetics of an eruptive plasmoid and occulted flare observed by the Solar Dynamics Observatory's Atmospheric Imaging Assembly (SDO/AIA). Methods: We study a 2010 Nov. 3 event (peaking at 12:20 UT in GOES soft X-rays) of a coronal mass ejection and occulted flare that demonstrates the morphology of a classic erupting flux rope. The high spatial and time resolution and six coronal channels of the SDO/AIA images allows the dynamics of the multi-thermal emission during the initial phases of eruption to be studied in detail. The differential emission measure is calculated, using an optimized version of a regularized inversion method, for each pixel across the six channels at different times, resulting in emission measure maps and movies in a variety of temperature ranges. Results: We find that the core of the erupting plasmoid is hot (8-11, 11-14 MK) with a similarly hot filamentary "stem" structure connecting it to the lower atmosphere, which could be interpreted as the current sheet in the flux rope model, though is wider than these models suggest. The velocity of the leading edge of the eruption is 597-664 km s-1 in the temperature range ≥3-4 MK and between 1029-1246 km s-1 for ≤2-3 MK. We estimate the density (in 11-14 MK) of the erupting core and stem during the impulsive phase to be about 3 × 109 cm-3, 6 × 109 cm-3, 9 × 108 cm-3 in the plasmoid core, stem, and surrounding envelope of material. This gives thermal energy estimates of 5 × 1029 erg, 1 × 1029 erg, and 2 × 1030 erg. The kinetic energy for the core and envelope is slightly lower. The thermal energy of the core and current sheet grows during the eruption, suggesting continuous influx of energy presumably via reconnection. Conclusions: The combination of the optimized regularized inversion method and SDO/AIA data allows the multi-thermal characteristics (i.e. velocity, density, and thermal energies) of the

The Properties of Lion Roars and Electron Dynamics in Mirror Mode Waves Observed by the Magnetospheric MultiScale Mission

Science.gov (United States)

Breuillard, H.; Le Contel, O.; Chust, T.; Berthomier, M.; Retino, A.; Turner, D. L.; Nakamura, R.; Baumjohann, W.; Cozzani, G.; Catapano, F.; Alexandrova, A.; Mirioni, L.; Graham, D. B.; Argall, M. R.; Fischer, D.; Wilder, F. D.; Gershman, D. J.; Varsani, A.; Lindqvist, P.-A.; Khotyaintsev, Yu. V.; Marklund, G.; Ergun, R. E.; Goodrich, K. A.; Ahmadi, N.; Burch, J. L.; Torbert, R. B.; Needell, G.; Chutter, M.; Rau, D.; Dors, I.; Russell, C. T.; Magnes, W.; Strangeway, R. J.; Bromund, K. R.; Wei, H.; Plaschke, F.; Anderson, B. J.; Le, G.; Moore, T. E.; Giles, B. L.; Paterson, W. R.; Pollock, C. J.; Dorelli, J. C.; Avanov, L. A.; Saito, Y.; Lavraud, B.; Fuselier, S. A.; Mauk, B. H.; Cohen, I. J.; Fennell, J. F.

2018-01-01

Mirror mode waves are ubiquitous in the Earth's magnetosheath, in particular behind the quasi-perpendicular shock. Embedded in these nonlinear structures, intense lion roars are often observed. Lion roars are characterized by whistler wave packets at a frequency ˜100 Hz, which are thought to be generated in the magnetic field minima. In this study, we make use of the high time resolution instruments on board the Magnetospheric MultiScale mission to investigate these waves and the associated electron dynamics in the quasi-perpendicular magnetosheath on 22 January 2016. We show that despite a core electron parallel anisotropy, lion roars can be generated locally in the range 0.05-0.2fce by the perpendicular anisotropy of electrons in a particular energy range. We also show that intense lion roars can be observed up to higher frequencies due to the sharp nonlinear peaks of the signal, which appear as sharp spikes in the dynamic spectra. As a result, a high sampling rate is needed to estimate correctly their amplitude, and the latter might have been underestimated in previous studies using lower time resolution instruments. We also present for the first-time 3-D high time resolution electron velocity distribution functions in mirror modes. We demonstrate that the dynamics of electrons trapped in the mirror mode structures are consistent with the Kivelson and Southwood (1996) model. However, these electrons can also interact with the embedded lion roars: first signatures of electron quasi-linear pitch angle diffusion and possible signatures of nonlinear interaction with high-amplitude wave packets are presented. These processes can lead to electron untrapping from mirror modes.

Highly Sensitive and Wide-Dynamic-Range Multichannel Optical-Fiber pH Sensor Based on PWM Technique.

Science.gov (United States)

Khan, Md Rajibur Rahaman; Kang, Shin-Won

2016-11-09

In this study, we propose a highly sensitive multichannel pH sensor that is based on an optical-fiber pulse width modulation (PWM) technique. According to the optical-fiber PWM method, the received sensing signal's pulse width changes when the optical-fiber pH sensing-element of the array comes into contact with pH buffer solutions. The proposed optical-fiber PWM pH-sensing system offers a linear sensing response over a wide range of pH values from 2 to 12, with a high pH-sensing ability. The sensitivity of the proposed pH sensor is 0.46 µs/pH, and the correlation coefficient R² is approximately 0.997. Additional advantages of the proposed optical-fiber PWM pH sensor include a short/fast response-time of about 8 s, good reproducibility properties with a relative standard deviation (RSD) of about 0.019, easy fabrication, low cost, small size, reusability of the optical-fiber sensing-element, and the capability of remote sensing. Finally, the performance of the proposed PWM pH sensor was compared with that of potentiometric, optical-fiber modal interferometer, and optical-fiber Fabry-Perot interferometer pH sensors with respect to dynamic range width, linearity as well as response and recovery times. We observed that the proposed sensing systems have better sensing abilities than the above-mentioned pH sensors.

Highly Sensitive and Wide-Dynamic-Range Multichannel Optical-Fiber pH Sensor Based on PWM Technique

Science.gov (United States)

Khan, Md. Rajibur Rahaman; Kang, Shin-Won

2016-01-01

In this study, we propose a highly sensitive multichannel pH sensor that is based on an optical-fiber pulse width modulation (PWM) technique. According to the optical-fiber PWM method, the received sensing signal’s pulse width changes when the optical-fiber pH sensing-element of the array comes into contact with pH buffer solutions. The proposed optical-fiber PWM pH-sensing system offers a linear sensing response over a wide range of pH values from 2 to 12, with a high pH-sensing ability. The sensitivity of the proposed pH sensor is 0.46 µs/pH, and the correlation coefficient R2 is approximately 0.997. Additional advantages of the proposed optical-fiber PWM pH sensor include a short/fast response-time of about 8 s, good reproducibility properties with a relative standard deviation (RSD) of about 0.019, easy fabrication, low cost, small size, reusability of the optical-fiber sensing-element, and the capability of remote sensing. Finally, the performance of the proposed PWM pH sensor was compared with that of potentiometric, optical-fiber modal interferometer, and optical-fiber Fabry–Perot interferometer pH sensors with respect to dynamic range width, linearity as well as response and recovery times. We observed that the proposed sensing systems have better sensing abilities than the above-mentioned pH sensors. PMID:27834865

Multi-link faults localization and restoration based on fuzzy fault set for dynamic optical networks.

Science.gov (United States)

Zhao, Yongli; Li, Xin; Li, Huadong; Wang, Xinbo; Zhang, Jie; Huang, Shanguo

2013-01-28

Based on a distributed method of bit-error-rate (BER) monitoring, a novel multi-link faults restoration algorithm is proposed for dynamic optical networks. The concept of fuzzy fault set (FFS) is first introduced for multi-link faults localization, which includes all possible optical equipment or fiber links with a membership describing the possibility of faults. Such a set is characterized by a membership function which assigns each object a grade of membership ranging from zero to one. OSPF protocol extension is designed for the BER information flooding in the network. The BER information can be correlated to link faults through FFS. Based on the BER information and FFS, multi-link faults localization mechanism and restoration algorithm are implemented and experimentally demonstrated on a GMPLS enabled optical network testbed with 40 wavelengths in each fiber link. Experimental results show that the novel localization mechanism has better performance compared with the extended limited perimeter vector matching (LVM) protocol and the restoration algorithm can improve the restoration success rate under multi-link faults scenario.

Fast and robust wavelet-based dynamic range compression and contrast enhancement model with color restoration

Science.gov (United States)

Unaldi, Numan; Asari, Vijayan K.; Rahman, Zia-ur

2009-05-01

Recently we proposed a wavelet-based dynamic range compression algorithm to improve the visual quality of digital images captured from high dynamic range scenes with non-uniform lighting conditions. The fast image enhancement algorithm that provides dynamic range compression, while preserving the local contrast and tonal rendition, is also a good candidate for real time video processing applications. Although the colors of the enhanced images produced by the proposed algorithm are consistent with the colors of the original image, the proposed algorithm fails to produce color constant results for some "pathological" scenes that have very strong spectral characteristics in a single band. The linear color restoration process is the main reason for this drawback. Hence, a different approach is required for the final color restoration process. In this paper the latest version of the proposed algorithm, which deals with this issue is presented. The results obtained by applying the algorithm to numerous natural images show strong robustness and high image quality.

Effects of sample injection amount and time-of-flight mass spectrometric detection dynamic range on metabolome analysis by high-performance chemical isotope labeling LC-MS.

Science.gov (United States)

Zhou, Ruokun; Li, Liang

2015-04-06

The effect of sample injection amount on metabolome analysis in a chemical isotope labeling (CIL) liquid chromatography-mass spectrometry (LC-MS) platform was investigated. The performance of time-of-flight (TOF) mass spectrometers with and without a high-dynamic-range (HD) detection system was compared in the analysis of (12)C2/(13)C2-dansyl labeled human urine samples. An average of 1635 ± 21 (n = 3) peak pairs or putative metabolites was detected using the HD-TOF-MS, compared to 1429 ± 37 peak pairs from a conventional or non-HD TOF-MS. In both instruments, signal saturation was observed. However, in the HD-TOF-MS, signal saturation was mainly caused by the ionization process, while in the non-HD TOF-MS, it was caused by the detection process. To extend the MS detection range in the non-HD TOF-MS, an automated switching from using (12)C to (13)C-natural abundance peaks for peak ratio calculation when the (12)C peaks are saturated has been implemented in IsoMS, a software tool for processing CIL LC-MS data. This work illustrates that injecting an optimal sample amount is important to maximize the metabolome coverage while avoiding the sample carryover problem often associated with over-injection. A TOF mass spectrometer with an enhanced detection dynamic range can also significantly increase the number of peak pairs detected. In chemical isotope labeling (CIL) LC-MS, relative metabolite quantification is done by measuring the peak ratio of a (13)C2-/(12)C2-labeled peak pair for a given metabolite present in two comparative samples. The dynamic range of peak ratio measurement does not need to be very large, as only subtle changes of metabolite concentrations are encountered in most metabolomic studies where relative metabolome quantification of different groups of samples is performed. However, the absolute concentrations of different metabolites can be very different, requiring a technique to provide a wide detection dynamic range to allow the detection of as

Combustion Dynamics in Multi-Nozzle Combustors Operating on High-Hydrogen Fuels

Energy Technology Data Exchange (ETDEWEB)

Santavicca, Dom; Lieuwen, Tim

2013-09-30

Actual gas turbine combustors for power generation applications employ multi-nozzle combustor configurations. Researchers at Penn State and Georgia Tech have extended previous work on the flame response in single-nozzle combustors to the more realistic case of multi-nozzle combustors. Research at Georgia Tech has shown that asymmetry of both the flow field and the acoustic forcing can have a significant effect on flame response and that such behavior is important in multi-flame configurations. As a result, the structure of the flame and its response to forcing is three-dimensional. Research at Penn State has led to the development of a three-dimensional chemiluminescence flame imaging technique that can be used to characterize the unforced (steady) and forced (unsteady) flame structure of multi-nozzle combustors. Important aspects of the flame response in multi-nozzle combustors which are being studied include flame-flame and flame-wall interactions. Research at Penn State using the recently developed three-dimensional flame imaging technique has shown that spatial variations in local flame confinement must be accounted for to accurately predict global flame response in a multi-nozzle can combustor.

Seasonal source-sink dynamics at the edge of a species' range

Science.gov (United States)

Kanda, L.L.; Fuller, T.K.; Sievert, P.R.; Kellogg, R.L.

2009-01-01

The roles of dispersal and population dynamics in determining species' range boundaries recently have received theoretical attention but little empirical work. Here we provide data on survival, reproduction, and movement for a Virginia opossum (Didelphis virginiana) population at a local distributional edge in central Massachusetts (USA). Most juvenile females that apparently exploited anthropogenic resources survived their first winter, whereas those using adjacent natural resources died of starvation. In spring, adult females recolonized natural areas. A life-table model suggests that a population exploiting anthropogenic resources may grow, acting as source to a geographically interlaced sink of opossums using only natural resources, and also providing emigrants for further range expansion to new human-dominated landscapes. In a geographical model, this source-sink dynamic is consistent with the local distribution identified through road-kill surveys. The Virginia opossum's exploitation of human resources likely ameliorates energetically restrictive winters and may explain both their local distribution and their northward expansion in unsuitable natural climatic regimes. Landscape heterogeneity, such as created by urbanization, may result in source-sink dynamics at highly localized scales. Differential fitness and individual dispersal movements within local populations are key to generating regional distributions, and thus species ranges, that exceed expectations. ?? 2009 by the Ecological Society of America.

Seasonal source-sink dynamics at the edge of a species' range.

Science.gov (United States)

Kanda, L Leann; Fuller, Todd K; Sievert, Paul R; Kellogg, Robert L

2009-06-01

The roles of dispersal and population dynamics in determining species' range boundaries recently have received theoretical attention but little empirical work. Here we provide data on survival, reproduction, and movement for a Virginia opossum (Didelphis virginiana) population at a local distributional edge in central Massachusetts (USA). Most juvenile females that apparently exploited anthropogenic resources survived their first winter, whereas those using adjacent natural resources died of starvation. In spring, adult females recolonized natural areas. A life-table model suggests that a population exploiting anthropogenic resources may grow, acting as source to a geographically interlaced sink of opossums using only natural resources, and also providing emigrants for further range expansion to new human-dominated landscapes. In a geographical model, this source-sink dynamic is consistent with the local distribution identified through road-kill surveys. The Virginia opossum's exploitation of human resources likely ameliorates energetically restrictive winters and may explain both their local distribution and their northward expansion in unsuitable natural climatic regimes. Landscape heterogeneity, such as created by urbanization, may result in source-sink dynamics at highly localized scales. Differential fitness and individual dispersal movements within local populations are key to generating regional distributions, and thus species ranges, that exceed expectations.

Design and implementation of real-time multi-sensor vision systems

CERN Document Server

Popovic, Vladan; Cogal, Ömer; Akin, Abdulkadir; Leblebici, Yusuf

2017-01-01

This book discusses the design of multi-camera systems and their application to fields such as the virtual reality, gaming, film industry, medicine, automotive industry, drones, etc.The authors cover the basics of image formation, algorithms for stitching a panoramic image from multiple cameras, and multiple real-time hardware system architectures, in order to have panoramic videos. Several specific applications of multi-camera systems are presented, such as depth estimation, high dynamic range imaging, and medical imaging.

Dynamic high resolution imaging of rats

International Nuclear Information System (INIS)

Miyaoka, R.S.; Lewellen, T.K.; Bice, A.N.

1990-01-01

A positron emission tomography with the sensitivity and resolution to do dynamic imaging of rats would be an invaluable tool for biological researchers. In this paper, the authors determine the biological criteria for dynamic positron emission imaging of rats. To be useful, 3 mm isotropic resolution and 2-3 second time binning were necessary characteristics for such a dedicated tomograph. A single plane in which two objects of interest could be imaged simultaneously was considered acceptable. Multi-layered detector designs were evaluated as a possible solution to the dynamic imaging and high resolution imaging requirements. The University of Washington photon history generator was used to generate data to investigate a tomograph's sensitivity to true, scattered and random coincidences for varying detector ring diameters. Intrinsic spatial uniformity advantages of multi-layered detector designs over conventional detector designs were investigated using a Monte Carlo program. As a result, a modular three layered detector prototype is being developed. A module will consist of a layer of five 3.5 mm wide crystals and two layers of six 2.5 mm wide crystals. The authors believe adequate sampling can be achieved with a stationary detector system using these modules. Economical crystal decoding strategies have been investigated and simulations have been run to investigate optimum light channeling methods for block decoding strategies. An analog block decoding method has been proposed and will be experimentally evaluated to determine whether it can provide the desired performance

Dynamic feedback for multi-mode plasma instabilities

International Nuclear Information System (INIS)

Sen, A.K.

1978-01-01

Constant feedback, which has been used exclusively, fails to stabilize more than one mode of a plasma instability. It is shown that a suitable dynamic or frequency-dependent feedback can stabilize all modes. Methods are developed in which such a feedback structure can be chosen in terms of its poles and zeros in relation to those of the plasma transfer function in the complex frequency plane. The synthesis procedure for such a feedback structure, in the form of an integrated electronic circuit is also discussed. As an example, a dynamic feedback for multi-mode stabilization of a collisional drift wave instability is developed in detail. (author)

Masticatory biomechanics in the rabbit: a multi-body dynamics analysis.

Science.gov (United States)

Watson, Peter J; Gröning, Flora; Curtis, Neil; Fitton, Laura C; Herrel, Anthony; McCormack, Steven W; Fagan, Michael J

2014-10-06

Multi-body dynamics is a powerful engineering tool which is becoming increasingly popular for the simulation and analysis of skull biomechanics. This paper presents the first application of multi-body dynamics to analyse the biomechanics of the rabbit skull. A model has been constructed through the combination of manual dissection and three-dimensional imaging techniques (magnetic resonance imaging and micro-computed tomography). Individual muscles are represented with multiple layers, thus more accurately modelling muscle fibres with complex lines of action. Model validity was sought through comparing experimentally measured maximum incisor bite forces with those predicted by the model. Simulations of molar biting highlighted the ability of the masticatory system to alter recruitment of two muscle groups, in order to generate shearing or crushing movements. Molar shearing is capable of processing a food bolus in all three orthogonal directions, whereas molar crushing and incisor biting are predominately directed vertically. Simulations also show that the masticatory system is adapted to process foods through several cycles with low muscle activations, presumably in order to prevent rapidly fatiguing fast fibres during repeated chewing cycles. Our study demonstrates the usefulness of a validated multi-body dynamics model for investigating feeding biomechanics in the rabbit, and shows the potential for complementing and eventually reducing in vivo experiments.

Delay-Induced Consensus and Quasi-Consensus in Multi-Agent Dynamical Systems

NARCIS (Netherlands)

Yu, Wenwu; Chen, Guanrong; Cao, Ming; Ren, Wei

2013-01-01

This paper studies consensus and quasi-consensus in multi-agent dynamical systems. A linear consensus protocol in the second-order dynamics is designed where both the current and delayed position information is utilized. Time delay, in a common perspective, can induce periodic oscillations or even

Color sensitivity of the multi-exposure HDR imaging process

Science.gov (United States)

Lenseigne, Boris; Jacobs, Valéry Ann; Withouck, Martijn; Hanselaer, Peter; Jonker, Pieter P.

2013-04-01

Multi-exposure high dynamic range(HDR) imaging builds HDR radiance maps by stitching together different views of a same scene with varying exposures. Practically, this process involves converting raw sensor data into low dynamic range (LDR) images, estimate the camera response curves, and use them in order to recover the irradiance for every pixel. During the export, applying white balance settings and image stitching, which both have an influence on the color balance in the final image. In this paper, we use a calibrated quasi-monochromatic light source, an integrating sphere, and a spectrograph in order to evaluate and compare the average spectral response of the image sensor. We finally draw some conclusion about the color consistency of HDR imaging and the additional steps necessary to use multi-exposure HDR imaging as a tool to measure the physical quantities such as radiance and luminance.

Multi-GNSS orbit determination using satellite laser ranging

Science.gov (United States)

Bury, Grzegorz; Sośnica, Krzysztof; Zajdel, Radosław

2018-04-01

Galileo, BeiDou, QZSS, and NavIC are emerging global navigation satellite systems (GNSSs) and regional navigation satellite systems all of which are equipped with laser retroreflector arrays for range measurements. This paper summarizes the GNSS-intensive tracking campaigns conducted by the International Laser Ranging Service and provides results from multi-GNSS orbit determination using solely SLR observations. We consider the whole constellation of GLONASS, all active Galileo, four BeiDou satellites: 1 MEO, 3 IGSO, and one QZSS. We analyze the influence of the number of SLR observations on the quality of the 3-day multi-GNSS orbit solution. About 60 SLR observations are needed for obtaining MEO orbits of sufficient quality with the root mean square (RMS) of 3 cm for the radial component when compared to microwave-based orbits. From the analysis of a minimum number of tracking stations, when considering the 3-day arcs, 5 SLR stations do not provide a sufficient geometry of observations. The solution obtained using ten stations is characterized with RMS of 4, 9, and 18 cm in the radial, along-track, and cross-track direction, respectively, for MEO satellites. We also investigate the impact of the length of orbital arc on the quality of SLR-derived orbits. Hence, 5- and 7-day arcs constitute the best solution, whereas 3-day arcs are of inferior quality due to an insufficient number of SLR observations and 9-day arcs deteriorate the along-track component. The median RMS from the comparison between 7-day orbital arcs determined using SLR data with microwave-based orbits assumes values in the range of 3-4, 11-16, and 15-27 cm in radial, along-track, and cross-track, respectively, for MEO satellites. BeiDou IGSO and QZSS are characterized by RMS values higher by a factor of 8 and 24, respectively, than MEO orbits.

Non-equilibrium quantum dynamics of ultra-cold atomic mixtures: the multi-layer multi-configuration time-dependent Hartree method for bosons

International Nuclear Information System (INIS)

Krönke, Sven; Cao, Lushuai; Schmelcher, Peter; Vendrell, Oriol

2013-01-01

We develop and apply the multi-layer multi-configuration time-dependent Hartree method for bosons, which represents an ab initio method for investigating the non-equilibrium quantum dynamics of multi-species bosonic systems. Its multi-layer feature allows for tailoring the wave function ansatz to describe intra- and inter-species correlations accurately and efficiently. To demonstrate the beneficial scaling and efficiency of the method, we explored the correlated tunneling dynamics of two species with repulsive intra- and inter-species interactions, to which a third species with vanishing intra-species interaction was weakly coupled. The population imbalances of the first two species can feature a temporal equilibration and their time evolution significantly depends on the coupling to the third species. Bosons of the first and second species exhibit a bunching tendency, whose strength can be influenced by their coupling to the third species. (paper)

Design of multi-phase dynamic chemical networks

Science.gov (United States)

Chen, Chenrui; Tan, Junjun; Hsieh, Ming-Chien; Pan, Ting; Goodwin, Jay T.; Mehta, Anil K.; Grover, Martha A.; Lynn, David G.

2017-08-01

Template-directed polymerization reactions enable the accurate storage and processing of nature's biopolymer information. This mutualistic relationship of nucleic acids and proteins, a network known as life's central dogma, is now marvellously complex, and the progressive steps necessary for creating the initial sequence and chain-length-specific polymer templates are lost to time. Here we design and construct dynamic polymerization networks that exploit metastable prion cross-β phases. Mixed-phase environments have been used for constructing synthetic polymers, but these dynamic phases emerge naturally from the growing peptide oligomers and create environments suitable both to nucleate assembly and select for ordered templates. The resulting templates direct the amplification of a phase containing only chain-length-specific peptide-like oligomers. Such multi-phase biopolymer dynamics reveal pathways for the emergence, self-selection and amplification of chain-length- and possibly sequence-specific biopolymers.

Multi-Homologous Recombination-Based Gene Manipulation in the Rice Pathogen Fusarium fujikuroi

Directory of Open Access Journals (Sweden)

In Sun Hwang

2016-06-01

Full Text Available Gene disruption by homologous recombination is widely used to investigate and analyze the function of genes in Fusarium fujikuroi, a fungus that causes bakanae disease and root rot symptoms in rice. To generate gene deletion constructs, the use of conventional cloning methods, which rely on restriction enzymes and ligases, has had limited success due to a lack of unique restriction enzyme sites. Although strategies that avoid the use of restriction enzymes have been employed to overcome this issue, these methods require complicated PCR steps or are frequently inefficient. Here, we introduce a cloning system that utilizes multi-fragment assembly by In-Fusion to generate a gene disruption construct. This method utilizes DNA fragment fusion and requires only one PCR step and one reaction for construction. Using this strategy, a gene disruption construct for Fusarium cyclin C1 (FCC1 , which is associated with fumonisin B1 biosynthesis, was successfully created and used for fungal transformation. In vivo and in vitro experiments using confirmed fcc1 mutants suggest that fumonisin production is closely related to disease symptoms exhibited by F. fujikuroi strain B14. Taken together, this multi-fragment assembly method represents a simpler and a more convenient process for targeted gene disruption in fungi.

A Multi-Gene Phylogeny of Ceratocystis Manginecans Infecting Mango in Pakistan

International Nuclear Information System (INIS)

Rashid, A.; Ahmad, I.; Iram, S.

2016-01-01

Mango trees (Mangifera indica L.) are affected by a serious wilt disease, recognized as mango sudden death first time reported in Muzafargargh Punjab, Pakistan in 1995. Its prevalent is in almost all mango growing areas with severity ranged from 2-5 percent in Punjab and 5-10 percent in Sindh. Survey and sampling was conducted during the year 2011-12, on mango orchids in different distracts of Punjab and Sindh and no location was found free from this Disease. For molecular identification, DNA was successfully extracted and was then amplified by using ITS, BT, TEF (600-800)primers through Polymerase Chain Reaction (PCR) assay and nucleotide evidence of Pakistani isolates (45 for each gene) exhibiting the maximum genetic homology with Ceratocystis manginecans (99-100 percent) followed by C. fimbriata (97 percent) and C. omanensis (80 percent) respectively. On the basics of morphological tools and comparison of nucleotide evidence of multi-genes, C. manginecans is different from C. fimbriata and C. omanensis which infect mango in Pakistan. The availability of disease-free planting material and management in combination with fertilization and proper irrigation system would help in improving orchard management system. (author)

Dynameomics: a multi-dimensional analysis-optimized database for dynamic protein data.

Science.gov (United States)

Kehl, Catherine; Simms, Andrew M; Toofanny, Rudesh D; Daggett, Valerie

2008-06-01

The Dynameomics project is our effort to characterize the native-state dynamics and folding/unfolding pathways of representatives of all known protein folds by way of molecular dynamics simulations, as described by Beck et al. (in Protein Eng. Des. Select., the first paper in this series). The data produced by these simulations are highly multidimensional in structure and multi-terabytes in size. Both of these features present significant challenges for storage, retrieval and analysis. For optimal data modeling and flexibility, we needed a platform that supported both multidimensional indices and hierarchical relationships between related types of data and that could be integrated within our data warehouse, as described in the accompanying paper directly preceding this one. For these reasons, we have chosen On-line Analytical Processing (OLAP), a multi-dimensional analysis optimized database, as an analytical platform for these data. OLAP is a mature technology in the financial sector, but it has not been used extensively for scientific analysis. Our project is further more unusual for its focus on the multidimensional and analytical capabilities of OLAP rather than its aggregation capacities. The dimensional data model and hierarchies are very flexible. The query language is concise for complex analysis and rapid data retrieval. OLAP shows great promise for the dynamic protein analysis for bioengineering and biomedical applications. In addition, OLAP may have similar potential for other scientific and engineering applications involving large and complex datasets.

Multi-stage LLC resonant converters designed for wide output voltage ranges

OpenAIRE

Tsang, C.-W.; Bingham, C. M.; Foster, M. P.; Stone, D. A.; Leech, J. M.

2016-01-01

The paper describes a novel multi-stage LLC resonant converter topology for facilitating wide output voltage ranges. This is achieved by combining the gain range of a capacitor-diode clamped LLC resonant converter with that of a traditional LLC resonant converter. A prototype converter is designed and commissioned to illustrate the design procedure and demonstrate resulting operational characteristics. Experimental results are used to show operational characteristics of the proposed conver...

Dynamic solar-powered multi-stage direct contact membrane distillation system: Concept design, modeling and simulation

KAUST Repository

Lee, Jung Gil

2017-04-26

This paper presents a theoretical analysis of the monthly average daily and hourly performances of a solar-powered multi-stage direct contact membrane distillation (SMDCMD) system with an energy recovery scheme and dynamic operating system. Mid-latitude meteorological data from Busan, Korea is employed, featuring large climate variation over the course of one year. The number of module stages used by the dynamic operating scheme changes dynamically based on the inlet feed temperature of the successive modules, which results in an improvement of the water production and thermal efficiency. The simulations of the SMDCMD system are carried out to investigate the spatial and temporal variations in the feed and permeate temperatures and permeate flux. The monthly average daily water production increases from 0.37m3/day to 0.4m3/day and thermal efficiency increases from 31% to 45% when comparing systems both without and with dynamic operation in December. The water production with respect to collector area ranged from 350m2 to 550m2 and the seawater storage tank volume ranged from 16m3 to 28.8m3, and the solar fraction at various desired feed temperatures from 50°C to 80°C have been investigated in October and December.

A Parallel, Multi-Scale Watershed-Hydrologic-Inundation Model with Adaptively Switching Mesh for Capturing Flooding and Lake Dynamics

Science.gov (United States)

Ji, X.; Shen, C.

2017-12-01

Flood inundation presents substantial societal hazards and also changes biogeochemistry for systems like the Amazon. It is often expensive to simulate high-resolution flood inundation and propagation in a long-term watershed-scale model. Due to the Courant-Friedrichs-Lewy (CFL) restriction, high resolution and large local flow velocity both demand prohibitively small time steps even for parallel codes. Here we develop a parallel surface-subsurface process-based model enhanced by multi-resolution meshes that are adaptively switched on or off. The high-resolution overland flow meshes are enabled only when the flood wave invades to floodplains. This model applies semi-implicit, semi-Lagrangian (SISL) scheme in solving dynamic wave equations, and with the assistant of the multi-mesh method, it also adaptively chooses the dynamic wave equation only in the area of deep inundation. Therefore, the model achieves a balance between accuracy and computational cost.

Sparse Additive Ordinary Differential Equations for Dynamic Gene Regulatory Network Modeling.

Science.gov (United States)

Wu, Hulin; Lu, Tao; Xue, Hongqi; Liang, Hua

2014-04-02

The gene regulation network (GRN) is a high-dimensional complex system, which can be represented by various mathematical or statistical models. The ordinary differential equation (ODE) model is one of the popular dynamic GRN models. High-dimensional linear ODE models have been proposed to identify GRNs, but with a limitation of the linear regulation effect assumption. In this article, we propose a sparse additive ODE (SA-ODE) model, coupled with ODE estimation methods and adaptive group LASSO techniques, to model dynamic GRNs that could flexibly deal with nonlinear regulation effects. The asymptotic properties of the proposed method are established and simulation studies are performed to validate the proposed approach. An application example for identifying the nonlinear dynamic GRN of T-cell activation is used to illustrate the usefulness of the proposed method.

A New Approach to Observing Coronal Dynamics: MUSE, the Multi-Slit Solar Explorer

Science.gov (United States)

Tarbell, T. D.

2017-12-01

The Multi-Slit Solar Explorer is a Small Explorer mission recently selected for a Phase A study, which could lead to a launch in 2022. It will provide unprecendented observations of the dynamics of the corona and transition region using both conventional and novel spectral imaging techniques. The physical processes that heat the multi-million degree solar corona, accelerate the solar wind and drive solar activity (CMEs and flares) remain poorly known. A breakthrough in these areas can only come from radically innovative instrumentation and state-of-the-art numerical modeling and will lead to better understanding of space weather origins. MUSE's multi-slit coronal spectroscopy will exploit a 100x improvement in spectral raster cadence to fill a crucial gap in our knowledge of Sun-Earth connections; it will reveal temperatures, velocities and non-thermal processes over a wide temperature range to diagnose physical processes that remain invisible to current or planned instruments. MUSE will contain two instruments: an EUV spectrograph (SG) and EUV context imager (CI). Both have similar spatial resolution and leverage extensive heritage from previous high-resolution instruments such as IRIS and the HiC rocket payload. The MUSE investigation will build on the success of IRIS by combining numerical modeling with a uniquely capable observatory: MUSE will obtain EUV spectra and images with the highest resolution in space (1/3 arcsec) and time (1-4 s) ever achieved for the transition region and corona, along 35 slits and a large context FOV simultaneously. The MUSE consortium includes LMSAL, SAO, Stanford, ARC, HAO, GSFC, MSFC, MSU, ITA Oslo and other institutions.

Reconstructing Dynamic Promoter Activity Profiles from Reporter Gene Data

DEFF Research Database (Denmark)

Kannan, Soumya; Sams, Thomas; Maury, Jérôme

2018-01-01

activity despite the fact that the observed output may be dynamic and is a number of steps away from the transcription process. In fact, some promoters that are often thought of as constitutive can show changes in activity when growth conditions change. For these reasons, we have developed a system......Accurate characterization of promoter activity is important when designing expression systems for systems biology and metabolic engineering applications. Promoters that respond to changes in the environment enable the dynamic control of gene expression without the necessity of inducer compounds......, for example. However, the dynamic nature of these processes poses challenges for estimating promoter activity. Most experimental approaches utilize reporter gene expression to estimate promoter activity. Typically the reporter gene encodes a fluorescent protein that is used to infer a constant promoter...

Picosecond X-ray streak camera dynamic range measurement

Energy Technology Data Exchange (ETDEWEB)

Zuber, C., E-mail: celine.zuber@cea.fr; Bazzoli, S.; Brunel, P.; Gontier, D.; Raimbourg, J.; Rubbelynck, C.; Trosseille, C. [CEA, DAM, DIF, F-91297 Arpajon (France); Fronty, J.-P.; Goulmy, C. [Photonis SAS, Avenue Roger Roncier, BP 520, 19106 Brive Cedex (France)

2016-09-15

Streak cameras are widely used to record the spatio-temporal evolution of laser-induced plasma. A prototype of picosecond X-ray streak camera has been developed and tested by Commissariat à l’Énergie Atomique et aux Énergies Alternatives to answer the Laser MegaJoule specific needs. The dynamic range of this instrument is measured with picosecond X-ray pulses generated by the interaction of a laser beam and a copper target. The required value of 100 is reached only in the configurations combining the slowest sweeping speed and optimization of the streak tube electron throughput by an appropriate choice of high voltages applied to its electrodes.

Long-Range Coulomb Effect in Intense Laser-Driven Photoelectron Dynamics.

Science.gov (United States)

Quan, Wei; Hao, XiaoLei; Chen, YongJu; Yu, ShaoGang; Xu, SongPo; Wang, YanLan; Sun, RenPing; Lai, XuanYang; Wu, ChengYin; Gong, QiHuang; He, XianTu; Liu, XiaoJun; Chen, Jing

2016-06-03

In strong field atomic physics community, long-range Coulomb interaction has for a long time been overlooked and its significant role in intense laser-driven photoelectron dynamics eluded experimental observations. Here we report an experimental investigation of the effect of long-range Coulomb potential on the dynamics of near-zero-momentum photoelectrons produced in photo-ionization process of noble gas atoms in intense midinfrared laser pulses. By exploring the dependence of photoelectron distributions near zero momentum on laser intensity and wavelength, we unambiguously demonstrate that the long-range tail of the Coulomb potential (i.e., up to several hundreds atomic units) plays an important role in determining the photoelectron dynamics after the pulse ends.

Interestingness measures and strategies for mining multi-ontology multi-level association rules from gene ontology annotations for the discovery of new GO relationships.

Science.gov (United States)

Manda, Prashanti; McCarthy, Fiona; Bridges, Susan M

2013-10-01

The Gene Ontology (GO), a set of three sub-ontologies, is one of the most popular bio-ontologies used for describing gene product characteristics. GO annotation data containing terms from multiple sub-ontologies and at different levels in the ontologies is an important source of implicit relationships between terms from the three sub-ontologies. Data mining techniques such as association rule mining that are tailored to mine from multiple ontologies at multiple levels of abstraction are required for effective knowledge discovery from GO annotation data. We present a data mining approach, Multi-ontology data mining at All Levels (MOAL) that uses the structure and relationships of the GO to mine multi-ontology multi-level association rules. We introduce two interestingness measures: Multi-ontology Support (MOSupport) and Multi-ontology Confidence (MOConfidence) customized to evaluate multi-ontology multi-level association rules. We also describe a variety of post-processing strategies for pruning uninteresting rules. We use publicly available GO annotation data to demonstrate our methods with respect to two applications (1) the discovery of co-annotation suggestions and (2) the discovery of new cross-ontology relationships. Copyright © 2013 The Authors. Published by Elsevier Inc. All rights reserved.

High-speed optical coherence tomography by circular interferometric ranging

Science.gov (United States)

Siddiqui, Meena; Nam, Ahhyun S.; Tozburun, Serhat; Lippok, Norman; Blatter, Cedric; Vakoc, Benjamin J.

2018-02-01

Existing three-dimensional optical imaging methods excel in controlled environments, but are difficult to deploy over large, irregular and dynamic fields. This means that they can be ill-suited for use in areas such as material inspection and medicine. To better address these applications, we developed methods in optical coherence tomography to efficiently interrogate sparse scattering fields, that is, those in which most locations (voxels) do not generate meaningful signal. Frequency comb sources are used to superimpose reflected signals from equispaced locations through optical subsampling. This results in circular ranging, and reduces the number of measurements required to interrogate large volumetric fields. As a result, signal acquisition barriers that have limited speed and field in optical coherence tomography are avoided. With a new ultrafast, time-stretched frequency comb laser design operating with 7.6 MHz to 18.9 MHz repetition rates, we achieved imaging of multi-cm3 fields at up to 7.5 volumes per second.

Employing multi-GPU power for molecular dynamics simulation: an extension of GALAMOST

Science.gov (United States)

Zhu, You-Liang; Pan, Deng; Li, Zhan-Wei; Liu, Hong; Qian, Hu-Jun; Zhao, Yang; Lu, Zhong-Yuan; Sun, Zhao-Yan

2018-04-01

We describe the algorithm of employing multi-GPU power on the basis of Message Passing Interface (MPI) domain decomposition in a molecular dynamics code, GALAMOST, which is designed for the coarse-grained simulation of soft matters. The code of multi-GPU version is developed based on our previous single-GPU version. In multi-GPU runs, one GPU takes charge of one domain and runs single-GPU code path. The communication between neighbouring domains takes a similar algorithm of CPU-based code of LAMMPS, but is optimised specifically for GPUs. We employ a memory-saving design which can enlarge maximum system size at the same device condition. An optimisation algorithm is employed to prolong the update period of neighbour list. We demonstrate good performance of multi-GPU runs on the simulation of Lennard-Jones liquid, dissipative particle dynamics liquid, polymer and nanoparticle composite, and two-patch particles on workstation. A good scaling of many nodes on cluster for two-patch particles is presented.

DTFP-Growth: Dynamic Threshold-Based FP-Growth Rule Mining Algorithm Through Integrating Gene Expression, Methylation, and Protein-Protein Interaction Profiles.

Science.gov (United States)

Mallik, Saurav; Bhadra, Tapas; Mukherji, Ayan; Mallik, Saurav; Bhadra, Tapas; Mukherji, Ayan; Mallik, Saurav; Bhadra, Tapas; Mukherji, Ayan

2018-04-01

Association rule mining is an important technique for identifying interesting relationships between gene pairs in a biological data set. Earlier methods basically work for a single biological data set, and, in maximum cases, a single minimum support cutoff can be applied globally, i.e., across all genesets/itemsets. To overcome this limitation, in this paper, we propose dynamic threshold-based FP-growth rule mining algorithm that integrates gene expression, methylation and protein-protein interaction profiles based on weighted shortest distance to find the novel associations among different pairs of genes in multi-view data sets. For this purpose, we introduce three new thresholds, namely, Distance-based Variable/Dynamic Supports (DVS), Distance-based Variable Confidences (DVC), and Distance-based Variable Lifts (DVL) for each rule by integrating co-expression, co-methylation, and protein-protein interactions existed in the multi-omics data set. We develop the proposed algorithm utilizing these three novel multiple threshold measures. In the proposed algorithm, the values of , , and are computed for each rule separately, and subsequently it is verified whether the support, confidence, and lift of each evolved rule are greater than or equal to the corresponding individual , , and values, respectively, or not. If all these three conditions for a rule are found to be true, the rule is treated as a resultant rule. One of the major advantages of the proposed method compared with other related state-of-the-art methods is that it considers both the quantitative and interactive significance among all pairwise genes belonging to each rule. Moreover, the proposed method generates fewer rules, takes less running time, and provides greater biological significance for the resultant top-ranking rules compared to previous methods.

The application of a multi-physics tool kit to spatial reactor dynamics

International Nuclear Information System (INIS)

Clifford, I.; Jasak, H.

2009-01-01

Traditionally coupled field nuclear reactor analysis has been carried out using several loosely coupled solvers, each having been developed independently from the others. In the field of multi-physics, the current generation of object-oriented tool kits provides robust close coupling of multiple fields on a single framework. This paper describes the initial results obtained as part of continuing research in the use of the OpenFOAM multi-physics tool kit for reactor dynamics application development. An unstructured, three-dimensional, time-dependent multi-group diffusion code Diffusion FOAM has been developed using the OpenFOAM multi-physics tool kit as a basis. The code is based on the finite-volume methodology and uses a newly developed block-coupled sparse matrix solver for the coupled solution of the multi-group diffusion equations. A description of this code is given with particular emphasis on the newly developed block-coupled solver, along with a selection of results obtained thus far. The code has performed well, indicating that the OpenFOAM tool kit is suited to reactor dynamics applications. This work has shown that the neutronics and simplified thermal-hydraulics of a reactor May be represented and solved for using a common calculation platform, and opens up the possibility for research into robust close-coupling of neutron diffusion and thermal-fluid calculations. This work has further opened up the possibility for research in a number of other areas, including research into three-dimensional unstructured meshes for reactor dynamics applications. (authors)

Evaluation of dynamic range for LLNL streak cameras using high contrast pulsed and pulse podiatry on the Nova laser system

International Nuclear Information System (INIS)

Richards, J.B.; Weiland, T.L.; Prior, J.A.

1990-01-01

This paper reports on a standard LLNL streak camera that has been used to analyze high contrast pulses on the Nova laser facility. These pulses have a plateau at their leading edge (foot) with an amplitude which is approximately 1% of the maximum pulse height. Relying on other features of the pulses and on signal multiplexing, we were able to determine how accurately the foot amplitude was being represented by the camera. Results indicate that the useful single channel dynamic range of the instrument approaches 100:1

Prediction of regulatory gene pairs using dynamic time warping and gene ontology.

Science.gov (United States)

Yang, Andy C; Hsu, Hui-Huang; Lu, Ming-Da; Tseng, Vincent S; Shih, Timothy K

2014-01-01

Selecting informative genes is the most important task for data analysis on microarray gene expression data. In this work, we aim at identifying regulatory gene pairs from microarray gene expression data. However, microarray data often contain multiple missing expression values. Missing value imputation is thus needed before further processing for regulatory gene pairs becomes possible. We develop a novel approach to first impute missing values in microarray time series data by combining k-Nearest Neighbour (KNN), Dynamic Time Warping (DTW) and Gene Ontology (GO). After missing values are imputed, we then perform gene regulation prediction based on our proposed DTW-GO distance measurement of gene pairs. Experimental results show that our approach is more accurate when compared with existing missing value imputation methods on real microarray data sets. Furthermore, our approach can also discover more regulatory gene pairs that are known in the literature than other methods.

Global transgenerational gene expression dynamics in two newly synthesized allohexaploid wheat (Triticum aestivum lines

Directory of Open Access Journals (Sweden)

Qi Bao

2012-01-01

Full Text Available Abstract Background Alteration in gene expression resulting from allopolyploidization is a prominent feature in plants, but its spectrum and extent are not fully known. Common wheat (Triticum aestivum was formed via allohexaploidization about 10,000 years ago, and became the most important crop plant. To gain further insights into the genome-wide transcriptional dynamics associated with the onset of common wheat formation, we conducted microarray-based genome-wide gene expression analysis on two newly synthesized allohexaploid wheat lines with chromosomal stability and a genome constitution analogous to that of the present-day common wheat. Results Multi-color GISH (genomic in situ hybridization was used to identify individual plants from two nascent allohexaploid wheat lines between Triticum turgidum (2n = 4x = 28; genome BBAA and Aegilops tauschii (2n = 2x = 14; genome DD, which had a stable chromosomal constitution analogous to that of common wheat (2n = 6x = 42; genome BBAADD. Genome-wide analysis of gene expression was performed for these allohexaploid lines along with their parental plants from T. turgidum and Ae. tauschii, using the Affymetrix Gene Chip Wheat Genome-Array. Comparison with the parental plants coupled with inclusion of empirical mid-parent values (MPVs revealed that whereas the great majority of genes showed the expected parental additivity, two major patterns of alteration in gene expression in the allohexaploid lines were identified: parental dominance expression and non-additive expression. Genes involved in each of the two altered expression patterns could be classified into three distinct groups, stochastic, heritable and persistent, based on their transgenerational heritability and inter-line conservation. Strikingly, whereas both altered patterns of gene expression showed a propensity of inheritance, identity of the involved genes was highly stochastic, consistent with the involvement of diverse Gene Ontology (GO

Dynamical Consensus Algorithm for Second-Order Multi-Agent Systems Subjected to Communication Delay

International Nuclear Information System (INIS)

Liu Chenglin; Liu Fei

2013-01-01

To solve the dynamical consensus problem of second-order multi-agent systems with communication delay, delay-dependent compensations are added into the normal asynchronously-coupled consensus algorithm so as to make the agents achieve a dynamical consensus. Based on frequency-domain analysis, sufficient conditions are gained for second-order multi-agent systems with communication delay under leaderless and leader-following consensus algorithms respectively. Simulation illustrates the correctness of the results. (interdisciplinary physics and related areas of science and technology)

A Coupled Helicopter Rotor/Fuselage Dynamics Model Using Finite Element Multi-body

Directory of Open Access Journals (Sweden)

Cheng Qi-you

2016-01-01

Full Text Available To develop a coupled rotor/flexible fuselage model for vibration reduction studies, the equation of coupled rotor-fuselage is set up based on the theory of multi-body dynamics, and the dynamic analysis model is established with the software MSC.ADMAS and MSC.NASTRAN. The frequencies and vibration acceleration responses of the system are calculated with the model of coupled rotor-fuselage, and the results are compared with those of uncoupled modeling method. Analysis results showed that compared with uncoupled model, the dynamic characteristic obtained by the model of coupled rotor-fuselage are some different. The intrinsic frequency of rotor is increased with the increase of rotational velocities. The results also show that the flying speed has obvious influence on the vibration acceleration responses of the fuselage. The vibration acceleration response in the vertical direction is much higher at the low speed and high speed flight conditions.

Expression of genes encoding multi-transmembrane proteins in specific primate taste cell populations.

Directory of Open Access Journals (Sweden)

Bryan D Moyer

Full Text Available BACKGROUND: Using fungiform (FG and circumvallate (CV taste buds isolated by laser capture microdissection and analyzed using gene arrays, we previously constructed a comprehensive database of gene expression in primates, which revealed over 2,300 taste bud-associated genes. Bioinformatics analyses identified hundreds of genes predicted to encode multi-transmembrane domain proteins with no previous association with taste function. A first step in elucidating the roles these gene products play in gustation is to identify the specific taste cell types in which they are expressed. METHODOLOGY/PRINCIPAL FINDINGS: Using double label in situ hybridization analyses, we identified seven new genes expressed in specific taste cell types, including sweet, bitter, and umami cells (TRPM5-positive, sour cells (PKD2L1-positive, as well as other taste cell populations. Transmembrane protein 44 (TMEM44, a protein with seven predicted transmembrane domains with no homology to GPCRs, is expressed in a TRPM5-negative and PKD2L1-negative population that is enriched in the bottom portion of taste buds and may represent developmentally immature taste cells. Calcium homeostasis modulator 1 (CALHM1, a component of a novel calcium channel, along with family members CALHM2 and CALHM3; multiple C2 domains; transmembrane 1 (MCTP1, a calcium-binding transmembrane protein; and anoctamin 7 (ANO7, a member of the recently identified calcium-gated chloride channel family, are all expressed in TRPM5 cells. These proteins may modulate and effect calcium signalling stemming from sweet, bitter, and umami receptor activation. Synaptic vesicle glycoprotein 2B (SV2B, a regulator of synaptic vesicle exocytosis, is expressed in PKD2L1 cells, suggesting that this taste cell population transmits tastant information to gustatory afferent nerve fibers via exocytic neurotransmitter release. CONCLUSIONS/SIGNIFICANCE: Identification of genes encoding multi-transmembrane domain proteins

Ownership dynamics in local multi-stakeholder initiatives

OpenAIRE

Biekart, Kees; Fowler, Alan

2018-01-01

textabstractThe nature and dynamics of ownership are often neglected features of multi-stakeholder initiatives (MSIs). Seventeen cases in four countries illustrate characteristics of narrow government or broad societal ownership and forces for change over time. Refinements to the application of Gaventa’s Power Cube are used to analyse such shifts from the perspective of invited and closed spaces for participation. Observations about ways in which stakeholder groups can create a more enabling ...

Towards high dynamic range extensions of HEVC: subjective evaluation of potential coding technologies

Science.gov (United States)

Hanhart, Philippe; Řeřábek, Martin; Ebrahimi, Touradj

2015-09-01

This paper reports the details and results of the subjective evaluations conducted at EPFL to evaluate the responses to the Call for Evidence (CfE) for High Dynamic Range (HDR) and Wide Color Gamut (WCG) Video Coding issued by Moving Picture Experts Group (MPEG). The CfE on HDR/WCG Video Coding aims to explore whether the coding efficiency and/or the functionality of the current version of HEVC standard can be signi_cantly improved for HDR and WCG content. In total, nine submissions, five for Category 1 and four for Category 3a, were compared to the HEVC Main 10 Profile based Anchor. More particularly, five HDR video contents, compressed at four bit rates by each proponent responding to the CfE, were used in the subjective evaluations. Further, the side-by-side presentation methodology was used for the subjective experiment to discriminate small differences between the Anchor and proponents. Subjective results shows that the proposals provide evidence that the coding efficiency can be improved in a statistically noticeable way over MPEG CfE Anchors in terms of perceived quality within the investigated content. The paper further benchmarks the selected objective metrics based on their correlations with the subjective ratings. It is shown that PSNR-DE1000, HDRVDP- 2, and PSNR-Lx can reliably detect visible differences between the proposed encoding solutions and current HEVC standard.

Multi-scale multi-physics computational chemistry simulation based on ultra-accelerated quantum chemical molecular dynamics method for structural materials in boiling water reactor

International Nuclear Information System (INIS)

Miyamoto, Akira; Sato, Etsuko; Sato, Ryo; Inaba, Kenji; Hatakeyama, Nozomu

2014-01-01

In collaboration with experimental experts we have reported in the present conference (Hatakeyama, N. et al., “Experiment-integrated multi-scale, multi-physics computational chemistry simulation applied to corrosion behaviour of BWR structural materials”) the results of multi-scale multi-physics computational chemistry simulations applied to the corrosion behaviour of BWR structural materials. In macro-scale, a macroscopic simulator of anode polarization curve was developed to solve the spatially one-dimensional electrochemical equations on the material surface in continuum level in order to understand the corrosion behaviour of typical BWR structural material, SUS304. The experimental anode polarization behaviours of each pure metal were reproduced by fitting all the rates of electrochemical reactions and then the anode polarization curve of SUS304 was calculated by using the same parameters and found to reproduce the experimental behaviour successfully. In meso-scale, a kinetic Monte Carlo (KMC) simulator was applied to an actual-time simulation of the morphological corrosion behaviour under the influence of an applied voltage. In micro-scale, an ultra-accelerated quantum chemical molecular dynamics (UA-QCMD) code was applied to various metallic oxide surfaces of Fe 2 O 3 , Fe 3 O 4 , Cr 2 O 3 modelled as same as water molecules and dissolved metallic ions on the surfaces, then the dissolution and segregation behaviours were successfully simulated dynamically by using UA-QCMD. In this paper we describe details of the multi-scale, multi-physics computational chemistry method especially the UA-QCMD method. This method is approximately 10,000,000 times faster than conventional first-principles molecular dynamics methods based on density-functional theory (DFT), and the accuracy was also validated for various metals and metal oxides compared with DFT results. To assure multi-scale multi-physics computational chemistry simulation based on the UA-QCMD method for

A Hybrid Shared-Memory Parallel Max-Tree Algorithm for Extreme Dynamic-Range Images

NARCIS (Netherlands)

Moschini, Ugo; Meijster, Arnold; Wilkinson, Michael

Max-trees, or component trees, are graph structures that represent the connected components of an image in a hierarchical way. Nowadays, many application fields rely on images with high-dynamic range or floating point values. Efficient sequential algorithms exist to build trees and compute

A Multi-Sensor Fusion MAV State Estimation from Long-Range Stereo, IMU, GPS and Barometric Sensors.

Science.gov (United States)

Song, Yu; Nuske, Stephen; Scherer, Sebastian

2016-12-22

State estimation is the most critical capability for MAV (Micro-Aerial Vehicle) localization, autonomous obstacle avoidance, robust flight control and 3D environmental mapping. There are three main challenges for MAV state estimation: (1) it can deal with aggressive 6 DOF (Degree Of Freedom) motion; (2) it should be robust to intermittent GPS (Global Positioning System) (even GPS-denied) situations; (3) it should work well both for low- and high-altitude flight. In this paper, we present a state estimation technique by fusing long-range stereo visual odometry, GPS, barometric and IMU (Inertial Measurement Unit) measurements. The new estimation system has two main parts, a stochastic cloning EKF (Extended Kalman Filter) estimator that loosely fuses both absolute state measurements (GPS, barometer) and the relative state measurements (IMU, visual odometry), and is derived and discussed in detail. A long-range stereo visual odometry is proposed for high-altitude MAV odometry calculation by using both multi-view stereo triangulation and a multi-view stereo inverse depth filter. The odometry takes the EKF information (IMU integral) for robust camera pose tracking and image feature matching, and the stereo odometry output serves as the relative measurements for the update of the state estimation. Experimental results on a benchmark dataset and our real flight dataset show the effectiveness of the proposed state estimation system, especially for the aggressive, intermittent GPS and high-altitude MAV flight.

Dynamic Epigenetic Control of Highly Conserved Noncoding Elements

KAUST Repository

Seridi, Loqmane

2014-10-07

Background Many noncoding genomic loci have remained constant over long evolutionary periods, suggesting that they are exposed to strong selective pressures. The molecular functions of these elements have been partially elucidated, but the fundamental reason for their extreme conservation is still unknown. Results To gain new insights into the extreme selection of highly conserved noncoding elements (HCNEs), we used a systematic analysis of multi-omic data to study the epigenetic regulation of such elements during the development of Drosophila melanogaster. At the sequence level, HCNEs are GC-rich and have a characteristic oligomeric composition. They have higher levels of stable nucleosome occupancy than their flanking regions, and lower levels of mononucleosomes and H3.3, suggesting that these regions reside in compact chromatin. Furthermore, these regions showed remarkable modulations in histone modification and the expression levels of adjacent genes during development. Although HCNEs are primarily initiated late in replication, about 10% were related to early replication origins. Finally, HCNEs showed strong enrichment within lamina-associated domains. Conclusion HCNEs have distinct and protective sequence properties, undergo dynamic epigenetic regulation, and appear to be associated with the structural components of the chromatin, replication origins, and nuclear matrix. These observations indicate that such elements are likely to have essential cellular functions, and offer insights into their epigenetic properties.

Dynamic Epigenetic Control of Highly Conserved Noncoding Elements

KAUST Repository

Seridi, Loqmane; Ryu, Tae Woo; Ravasi, Timothy

2014-01-01

Background Many noncoding genomic loci have remained constant over long evolutionary periods, suggesting that they are exposed to strong selective pressures. The molecular functions of these elements have been partially elucidated, but the fundamental reason for their extreme conservation is still unknown. Results To gain new insights into the extreme selection of highly conserved noncoding elements (HCNEs), we used a systematic analysis of multi-omic data to study the epigenetic regulation of such elements during the development of Drosophila melanogaster. At the sequence level, HCNEs are GC-rich and have a characteristic oligomeric composition. They have higher levels of stable nucleosome occupancy than their flanking regions, and lower levels of mononucleosomes and H3.3, suggesting that these regions reside in compact chromatin. Furthermore, these regions showed remarkable modulations in histone modification and the expression levels of adjacent genes during development. Although HCNEs are primarily initiated late in replication, about 10% were related to early replication origins. Finally, HCNEs showed strong enrichment within lamina-associated domains. Conclusion HCNEs have distinct and protective sequence properties, undergo dynamic epigenetic regulation, and appear to be associated with the structural components of the chromatin, replication origins, and nuclear matrix. These observations indicate that such elements are likely to have essential cellular functions, and offer insights into their epigenetic properties.

Multi-photon UV photolysis of gaseous polycyclic aromatic hydrocarbons: Extinction spectra and dynamics

Energy Technology Data Exchange (ETDEWEB)

Walsh, A. J.; Gash, E. W.; Mansfield, M. W. D. [Physics Department, University College Cork, Cork (Ireland); Ruth, A. A. [Physics Department, University College Cork, Cork (Ireland); Environmental Research Institute, University College Cork, Cork (Ireland)

2013-08-07

The extinction spectra of static naphthalene and static biphenylene vapor, each buffered with a noble gas at room temperature, were measured as a function of time in the region between 390 and 850 nm after UV multi-photon laser photolysis at 308 nm. Employing incoherent broadband cavity enhanced absorption spectroscopy (IBBCEAS), the spectra were found to be unstructured with a general lack of isolated features suggesting that the extinction was not solely based on absorption but was in fact dominated by scattering from particles formed in the photolysis of the respective polycyclic aromatic hydrocarbon. Following UV multi-photon photolysis, the extinction dynamics of the static (unstirred) closed gas-phase system exhibits extraordinary quasi-periodic and complex oscillations with periods ranging from seconds to many minutes, persisting for up to several hours. Depending on buffer gas type and pressure, several types of dynamical responses could be generated (classified as types I, II, and III). They were studied as a function of temperature and chamber volume for different experimental conditions and possible explanations for the oscillations are discussed. A conclusive model for the observed phenomena has not been established. However, a number of key hypotheses have made based on the measurements in this publication: (a) Following the multi-photon UV photolysis of naphthalene (or biphenylene), particles are formed on a timescale not observable using IBBCEAS. (b) The observed temporal behavior cannot be described on basis of a chemical reaction scheme alone. (c) The pressure dependence of the system's responses is due to transport phenomena of particles in the chamber. (d) The size distribution and the refractive indices of particles are time dependent and evolve on a timescale of minutes to hours. The rate of particle coagulation, involving coalescent growth and particle agglomeration, affects the observed oscillations. (e) The walls of the chamber act as a

DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis

Directory of Open Access Journals (Sweden)

Baseler Michael W

2007-11-01

Full Text Available Abstract Background Due to the complex and distributed nature of biological research, our current biological knowledge is spread over many redundant annotation databases maintained by many independent groups. Analysts usually need to visit many of these bioinformatics databases in order to integrate comprehensive annotation information for their genes, which becomes one of the bottlenecks, particularly for the analytic task associated with a large gene list. Thus, a highly centralized and ready-to-use gene-annotation knowledgebase is in demand for high throughput gene functional analysis. Description The DAVID Knowledgebase is built around the DAVID Gene Concept, a single-linkage method to agglomerate tens of millions of gene/protein identifiers from a variety of public genomic resources into DAVID gene clusters. The grouping of such identifiers improves the cross-reference capability, particularly across NCBI and UniProt systems, enabling more than 40 publicly available functional annotation sources to be comprehensively integrated and centralized by the DAVID gene clusters. The simple, pair-wise, text format files which make up the DAVID Knowledgebase are freely downloadable for various data analysis uses. In addition, a well organized web interface allows users to query different types of heterogeneous annotations in a high-throughput manner. Conclusion The DAVID Knowledgebase is designed to facilitate high throughput gene functional analysis. For a given gene list, it not only provides the quick accessibility to a wide range of heterogeneous annotation data in a centralized location, but also enriches the level of biological information for an individual gene. Moreover, the entire DAVID Knowledgebase is freely downloadable or searchable at http://david.abcc.ncifcrf.gov/knowledgebase/.

What is a gene? From molecules to metaphysics.

Science.gov (United States)

Rolston, Holmes

2006-01-01

Mendelian genes have become molecular genes, with increasing puzzlement about locating them, due to increasing complexity in genomic webworks. Genome science finds modular and conserved units of inheritance, identified as homologous genes. Such genes are cybernetic, transmitting information over generations; this too requires multi-leveled analysis, from DNA transcription to development and reproduction of the whole organism. Genes are conserved; genes are also dynamic and creative in evolutionary speciation-most remarkably producing humans capable of wondering about what genes are.

Data-Sharing Method for Multi-Smart Devices at Close Range

Directory of Open Access Journals (Sweden)

Myoungbeom Chung

2015-01-01

Full Text Available We proposed a useful data-sharing method among multi-smart devices at close range using inaudible frequencies and Wi-Fi. The existing near data-sharing methods mostly use Bluetooth technology, but these methods have the problem of being unable to be operated using different operating systems. To correct this flaw, the proposed method that uses inaudible frequencies through the inner speaker and microphone of smart device can solve the problems of the existing methods. Using the proposed method, the sending device generates trigger signals composed of inaudible sound. Moreover, smart devices that receive the signals obtain the shared data from the sending device through Wi-Fi. To evaluate the efficacy of the proposed method, we developed a near data-sharing application based on the trigger signals and conducted a performance evaluation experiment. The success rate of the proposed method was 98.8%. Furthermore, we tested the user usability of the Bump application and the proposed method and found that the proposed method is more useful than Bump. Therefore, the proposed method is an effective approach for sharing data practically among multi-smart devices at close range.

Reconstructing Dynamic Promoter Activity Profiles from Reporter Gene Data.

Science.gov (United States)

Kannan, Soumya; Sams, Thomas; Maury, Jérôme; Workman, Christopher T

2018-03-16

Accurate characterization of promoter activity is important when designing expression systems for systems biology and metabolic engineering applications. Promoters that respond to changes in the environment enable the dynamic control of gene expression without the necessity of inducer compounds, for example. However, the dynamic nature of these processes poses challenges for estimating promoter activity. Most experimental approaches utilize reporter gene expression to estimate promoter activity. Typically the reporter gene encodes a fluorescent protein that is used to infer a constant promoter activity despite the fact that the observed output may be dynamic and is a number of steps away from the transcription process. In fact, some promoters that are often thought of as constitutive can show changes in activity when growth conditions change. For these reasons, we have developed a system of ordinary differential equations for estimating dynamic promoter activity for promoters that change their activity in response to the environment that is robust to noise and changes in growth rate. Our approach, inference of dynamic promoter activity (PromAct), improves on existing methods by more accurately inferring known promoter activity profiles. This method is also capable of estimating the correct scale of promoter activity and can be applied to quantitative data sets to estimate quantitative rates.

Entanglement Growth in Quench Dynamics with Variable Range Interactions

Directory of Open Access Journals (Sweden)

J. Schachenmayer

2013-09-01

Full Text Available Studying entanglement growth in quantum dynamics provides both insight into the underlying microscopic processes and information about the complexity of the quantum states, which is related to the efficiency of simulations on classical computers. Recently, experiments with trapped ions, polar molecules, and Rydberg excitations have provided new opportunities to observe dynamics with long-range interactions. We explore nonequilibrium coherent dynamics after a quantum quench in such systems, identifying qualitatively different behavior as the exponent of algebraically decaying spin-spin interactions in a transverse Ising chain is varied. Computing the buildup of bipartite entanglement as well as mutual information between distant spins, we identify linear growth of entanglement entropy corresponding to propagation of quasiparticles for shorter-range interactions, with the maximum rate of growth occurring when the Hamiltonian parameters match those for the quantum phase transition. Counterintuitively, the growth of bipartite entanglement for long-range interactions is only logarithmic for most regimes, i.e., substantially slower than for shorter-range interactions. Experiments with trapped ions allow for the realization of this system with a tunable interaction range, and we show that the different phenomena are robust for finite system sizes and in the presence of noise. These results can act as a direct guide for the generation of large-scale entanglement in such experiments, towards a regime where the entanglement growth can render existing classical simulations inefficient.

Dynamic channel assignment scheme for multi-radio wireless mesh networks

CSIR Research Space (South Africa)

Kareem, TR

2008-09-01

Full Text Available This paper investigates the challenges involve in designing a dynamic channel assignment (DCA) scheme for wireless mesh networks, particularly for multi-radio systems. It motivates the need for fast switching and process coordination modules...

Analysing the performance of dynamic multi-objective optimisation algorithms

CSIR Research Space (South Africa)

Helbig, M

2013-06-01

Full Text Available and the goal of the algorithm is to track a set of tradeoff solutions over time. Analysing the performance of a dynamic multi-objective optimisation algorithm (DMOA) is not a trivial task. For each environment (before a change occurs) the DMOA has to find a set...

Advancement and Application of Multi-Phase CFD Modeling to High Speed Supercavitating Flows

Science.gov (United States)

2013-08-13

October 2008 - December 2013 4. TITLE AND SUBTITLE Advancement and Application of Multi-Phase CFD Modeling to High Speed Supercavitating Flows...influence cavity hysteresis behavior. These observations are used to guide improved supercavitating -vehicle analyses including numerical predictions...experiments, and modeling 15. SUBJECT TERMS supercavitation , computational fluid dynamics, multiphase flow 16. SECURITY CLASSIFICATION OF: a

Multi-objective control of nonlinear boiler-turbine dynamics with actuator magnitude and rate constraints.

Science.gov (United States)

Chen, Pang-Chia

2013-01-01

This paper investigates multi-objective controller design approaches for nonlinear boiler-turbine dynamics subject to actuator magnitude and rate constraints. System nonlinearity is handled by a suitable linear parameter varying system representation with drum pressure as the system varying parameter. Variation of the drum pressure is represented by suitable norm-bounded uncertainty and affine dependence on system matrices. Based on linear matrix inequality algorithms, the magnitude and rate constraints on the actuator and the deviations of fluid density and water level are formulated while the tracking abilities on the drum pressure and power output are optimized. Variation ranges of drum pressure and magnitude tracking commands are used as controller design parameters, determined according to the boiler-turbine's operation range. Copyright © 2012 ISA. Published by Elsevier Ltd. All rights reserved.

Parameter Estimation of Dynamic Multi-zone Models for Livestock Indoor Climate Control

DEFF Research Database (Denmark)

Wu, Zhuang; Stoustrup, Jakob; Heiselberg, Per

2008-01-01

, the livestock, the ventilation system and the building on the dynamic performance of indoor climate. Some significant parameters employed in the climate model as well as the airflow interaction between each conceptual zone are identified with the use of experimental time series data collected during spring......In this paper, a multi-zone modeling concept is proposed based on a simplified energy balance formulation to provide a better prediction of the indoor horizontal temperature variation inside the livestock building. The developed mathematical models reflect the influences from the weather...... and winter at a real scale livestock building in Denmark. The obtained comparative results between the measured data and the simulated output confirm that a very simple multi-zone model can capture the salient dynamical features of the climate dynamics which are needed for control purposes....

Multi-mode sensor processing on a dynamically reconfigurable massively parallel processor array

Science.gov (United States)

Chen, Paul; Butts, Mike; Budlong, Brad; Wasson, Paul

2008-04-01

This paper introduces a novel computing architecture that can be reconfigured in real time to adapt on demand to multi-mode sensor platforms' dynamic computational and functional requirements. This 1 teraOPS reconfigurable Massively Parallel Processor Array (MPPA) has 336 32-bit processors. The programmable 32-bit communication fabric provides streamlined inter-processor connections with deterministically high performance. Software programmability, scalability, ease of use, and fast reconfiguration time (ranging from microseconds to milliseconds) are the most significant advantages over FPGAs and DSPs. This paper introduces the MPPA architecture, its programming model, and methods of reconfigurability. An MPPA platform for reconfigurable computing is based on a structural object programming model. Objects are software programs running concurrently on hundreds of 32-bit RISC processors and memories. They exchange data and control through a network of self-synchronizing channels. A common application design pattern on this platform, called a work farm, is a parallel set of worker objects, with one input and one output stream. Statically configured work farms with homogeneous and heterogeneous sets of workers have been used in video compression and decompression, network processing, and graphics applications.

Experimental study of implosion dynamics of multi-material nested wire-arrays on S-300 pulsed power generator

International Nuclear Information System (INIS)

Chernenko, A.S.; Smirnov, V.P.; Kingsep, A.S.

2004-01-01

On 'S-300' generator (700 kV, 4 MA, 70 ns) at the Kurchatov Institute, the experimental studies with multi-material wire array units are carried on aimed at creating the powerful X-ray source. The development of new diagnostic methods would definitely contribute to attain new data, which could help in explanation of X-ray emission mechanism of imploding multi-wire arrays that has not well understood yet. The experimental study of soft X-ray emission of different wire sets, different in both mass and composition, has been carried on in the same geometry. One of the purposes of these experiments was investigation of the wire array chemical composition influence on the implosion dynamics and stability. Study of the nested (cascade) liner dynamics shows that the minimal liner radius at the stagnation moment of time (2r ∼ 3 - 3.5 mm) recorded in the visible range by the streak camera fairly coincides with the outer diameter of the inner tungsten array of 4 mm. The same size is shown by the integral pinhole pictures obtained in the SXR range, without a filter. Unlike all these pictures, images obtained in the range E > 2 keV demonstrate the resulting state of Z-pinch in the form of a thin (∼ 0.2 mm) twisting filament. In addition, small space scales are typical of the liner pictures taken in the range of He- and H-like aluminum ions by means of a spectrograph. Thus, one may conclude that Al plasma of the outer liner passes into the inner space of the almost immovable W array where becomes trapped and compressed by the magnetic field. (author)

Dynamic expression of ancient and novel molluscan shell genes during ecological transitions

Directory of Open Access Journals (Sweden)

Wörheide Gert

2007-09-01

Full Text Available Abstract Background The Mollusca constitute one of the most morphologically and ecologically diverse metazoan phyla, occupying a wide range of marine, terrestrial and freshwater habitats. The evolutionary success of the molluscs can in part be attributed to the evolvability of the external shell. Typically, the shell first forms during embryonic and larval development, changing dramatically in shape, colour and mineralogical composition as development and maturation proceeds. Major developmental transitions in shell morphology often correlate with ecological transitions (e.g. from a planktonic to benthic existence at metamorphosis. While the genes involved in molluscan biomineralisation are beginning to be identified, there is little understanding of how these are developmentally regulated, or if the same genes are operational at different stages of the mollusc's life. Results Here we relate the developmental expression of nine genes in the tissue responsible for shell production – the mantle – to ecological transitions that occur during the lifetime of the tropical abalone Haliotis asinina (Vetigastropoda. Four of these genes encode evolutionarily ancient proteins, while four others encode secreted proteins with little or no identity to known proteins. Another gene has been previously described from the mantle of another haliotid vetigastropod. All nine genes display dynamic spatial and temporal expression profiles within the larval shell field and juvenile mantle. Conclusion These expression data reflect the regulatory complexity that underlies molluscan shell construction from larval stages to adulthood, and serves to highlight the different ecological demands placed on each stage. The use of both ancient and novel genes in all stages of shell construction also suggest that a core set of shell-making genes was provided by a shared metazoan ancestor, which has been elaborated upon to produce the range of molluscan shell types we see today.

Dynamic activity-travel assignment in multi-state supernetworks with road and location capacity constraints

NARCIS (Netherlands)

Liu, P.; Liao, F.; Huang, H.; Timmermans, H.J.P.

2016-01-01

A unified framework coupling activity-based modelling and dynamic traffic assignment has recently been proposed. It formulates dynamic activity-travel assignment (DATA) in multi-state supernetworks as a dynamic user equilibrium. Choices of departure time, route, mode, activity sequence, and

MultiSense: A Multimodal Sensor Tool Enabling the High-Throughput Analysis of Respiration.

Science.gov (United States)

Keil, Peter; Liebsch, Gregor; Borisjuk, Ljudmilla; Rolletschek, Hardy

2017-01-01

The high-throughput analysis of respiratory activity has become an important component of many biological investigations. Here, a technological platform, denoted the "MultiSense tool," is described. The tool enables the parallel monitoring of respiration in 100 samples over an extended time period, by dynamically tracking the concentrations of oxygen (O 2 ) and/or carbon dioxide (CO 2 ) and/or pH within an airtight vial. Its flexible design supports the quantification of respiration based on either oxygen consumption or carbon dioxide release, thereby allowing for the determination of the physiologically significant respiratory quotient (the ratio between the quantities of CO 2 released and the O 2 consumed). It requires an LED light source to be mounted above the sample, together with a CCD camera system, adjusted to enable the capture of analyte-specific wavelengths, and fluorescent sensor spots inserted into the sample vial. Here, a demonstration is given of the use of the MultiSense tool to quantify respiration in imbibing plant seeds, for which an appropriate step-by-step protocol is provided. The technology can be easily adapted for a wide range of applications, including the monitoring of gas exchange in any kind of liquid culture system (algae, embryo and tissue culture, cell suspensions, microbial cultures).

Detecting coordinated regulation of multi-protein complexes using logic analysis of gene expression

Directory of Open Access Journals (Sweden)

Yeates Todd O

2009-12-01

Full Text Available Abstract Background Many of the functional units in cells are multi-protein complexes such as RNA polymerase, the ribosome, and the proteasome. For such units to work together, one might expect a high level of regulation to enable co-appearance or repression of sets of complexes at the required time. However, this type of coordinated regulation between whole complexes is difficult to detect by existing methods for analyzing mRNA co-expression. We propose a new methodology that is able to detect such higher order relationships. Results We detect coordinated regulation of multiple protein complexes using logic analysis of gene expression data. Specifically, we identify gene triplets composed of genes whose expression profiles are found to be related by various types of logic functions. In order to focus on complexes, we associate the members of a gene triplet with the distinct protein complexes to which they belong. In this way, we identify complexes related by specific kinds of regulatory relationships. For example, we may find that the transcription of complex C is increased only if the transcription of both complex A AND complex B is repressed. We identify hundreds of examples of coordinated regulation among complexes under various stress conditions. Many of these examples involve the ribosome. Some of our examples have been previously identified in the literature, while others are novel. One notable example is the relationship between the transcription of the ribosome, RNA polymerase and mannosyltransferase II, which is involved in N-linked glycan processing in the Golgi. Conclusions The analysis proposed here focuses on relationships among triplets of genes that are not evident when genes are examined in a pairwise fashion as in typical clustering methods. By grouping gene triplets, we are able to decipher coordinated regulation among sets of three complexes. Moreover, using all triplets that involve coordinated regulation with the ribosome

Multi-GNSS signal-in-space range error assessment - Methodology and results

Science.gov (United States)

Montenbruck, Oliver; Steigenberger, Peter; Hauschild, André

2018-06-01

The positioning accuracy of global and regional navigation satellite systems (GNSS/RNSS) depends on a variety of influence factors. For constellation-specific performance analyses it has become common practice to separate a geometry-related quality factor (the dilution of precision, DOP) from the measurement and modeling errors of the individual ranging measurements (known as user equivalent range error, UERE). The latter is further divided into user equipment errors and contributions related to the space and control segment. The present study reviews the fundamental concepts and underlying assumptions of signal-in-space range error (SISRE) analyses and presents a harmonized framework for multi-GNSS performance monitoring based on the comparison of broadcast and precise ephemerides. The implications of inconsistent geometric reference points, non-common time systems, and signal-specific range biases are analyzed, and strategies for coping with these issues in the definition and computation of SIS range errors are developed. The presented concepts are, furthermore, applied to current navigation satellite systems, and representative results are presented along with a discussion of constellation-specific problems in their determination. Based on data for the January to December 2017 time frame, representative global average root-mean-square (RMS) SISRE values of 0.2 m, 0.6 m, 1 m, and 2 m are obtained for Galileo, GPS, BeiDou-2, and GLONASS, respectively. Roughly two times larger values apply for the corresponding 95th-percentile values. Overall, the study contributes to a better understanding and harmonization of multi-GNSS SISRE analyses and their use as key performance indicators for the various constellations.

A New Linearization Technique Using Multi-sinh Doublet

Directory of Open Access Journals (Sweden)

CEHAN, V.

2009-06-01

Full Text Available In this paper a new linearization technique using multi-sinh doublet, implemented with a second generation current conveyor is presented. This new linearization technique is compared with the one based on multi-tanh doublets with linearization series connected diodes on the branches. The comparative study of the two linearization techniques is carried out using both dynamic range analysis, expressed by linearity error and the THD value calculation of output current, and the noise behavior of the two analyzed doublets. For the multi-sinh linearization technique proposed in the paper a method which assures the increase of the dynamic range, keeping the transconductance value constant is presented. This is done by using two design parameters: the number of series connected diodes N, which specifies the desired linear operating range and the k emitters areas ratio of the input stage transistors, which establishes the transconductance value. In the paper is also shown that if the transconductances of the two analyzed doublets are identical, and for the same values of N and k parameters, respectively, the current consumption of the multi-sinh doublet is always smaller than for the multi-tanh doublet.

Study on high density multi-scale calculation technique

International Nuclear Information System (INIS)

Sekiguchi, S.; Tanaka, Y.; Nakada, H.; Nishikawa, T.; Yamamoto, N.; Yokokawa, M.

2004-01-01

To understand degradation of nuclear materials under irradiation, it is essential to know as much about each phenomenon observed from multi-scale points of view; they are micro-scale in atomic-level, macro-level in structural scale and intermediate level. In this study for application to meso-scale materials (100A ∼ 2μm), computer technology approaching from micro- and macro-scales was developed including modeling and computer application using computational science and technology method. And environmental condition of grid technology for multi-scale calculation was prepared. The software and MD (molecular dynamics) stencil for verifying the multi-scale calculation were improved and their movement was confirmed. (A. Hishinuma)

Increasing the Dynamic Range of Synthetic Aperture Vector Flow Imaging

DEFF Research Database (Denmark)

Villagómez Hoyos, Carlos Armando; Stuart, Matthias Bo; Jensen, Jørgen Arendt

2014-01-01

images. The emissions for the two imaging modes are interleaved 1-to-1 ratio, providing a high frame rate equal to the effective pulse repetition frequency of each imaging mode. The direction of the flow is estimated, and the velocity is then determined in that direction. This method Works for all angles...... standard deviations are 1.59% and 6.12%, respectively. The presented method can improve the estimates by synthesizing a lower pulse repetition frequency, thereby increasing the dynamic range of the vector velocity imaging....

Maintenance grouping strategy for multi-component systems with dynamic contexts

International Nuclear Information System (INIS)

Vu, Hai Canh; Do, Phuc; Barros, Anne; Bérenguer, Christophe

2014-01-01

This paper presents a dynamic maintenance grouping strategy for multi-component systems with both “positive” and “negative” economic dependencies. Positive dependencies are commonly due to setup cost whereas negative dependencies are related to shutdown cost. Actually, grouping maintenance activities can save part of the setup cost, but can also in the same time increase the shutdown cost. Until now, both types of dependencies have been jointly taken into account only for simple system structures as pure series. The first aim of this paper is to investigate the case of systems with any combination of basic structures (series, parallel or k-out-of n structures). A cost model and a heuristic optimization scheme are proposed since the optimization of maintenance grouping strategy for such multi-component systems leads to a NP-complete problem. Then the second objective is to propose a finite horizon (dynamic) model in order to optimize online the maintenance strategy in the presence of dynamic contexts (change of the environment, the working condition, the production process, etc). A numerical example of a 16-component system is finally introduced to illustrate the use and the advantages of the proposed approach in the maintenance optimization framework. - Highlights: • A dynamic grouping maintenance strategy for complex structure systems is proposed. • Impacts of the system structure on grouping maintenance are investigated. • A grouping approach based on the rolling horizon and GA algorithm is proposed. • Different dynamic contexts and their impacts on grouping maintenance are studied. • The proposed approach can help to update the maintenance planning in dynamic contexts

Improved evaluation of antivascular cancer therapy using constrained tracer-kinetic modeling for multi-agent dynamic contrast-enhanced MRI

NARCIS (Netherlands)

Hectors, Stefanie; Jacobs, Igor; Lok, Jasper; Peters, Johannes; Bussink, Johan; Hoeben, Freek J. M.; Keizer, Henk; Janssen, Henk M.; Nicolay, Klaas; Schabel, Matthias; Strijkers, Gustav

2018-01-01

Dynamic contrast-enhanced MRI (DCE-MRI) is a promising technique for assessing the response of tumor vasculature to anti-vascular therapies. Multi-agent DCE-MRI employs a combination of low and high molecular weight contrast agents, which potentially improves the accuracy of estimation of tumor

A large dynamic range radiation-tolerant analog memory in a quarter- micron CMOS technology

CERN Document Server

Anelli, G; Rivetti, A

2001-01-01

An analog memory prototype containing 8*128 cells has been designed in a commercial quarter-micron CMOS process. The aim of this work is to investigate the possibility of designing large dynamic range mixed-mode switched capacitor circuits for high-energy physics (HEP) applications in deep submicron CMOS technologies. Special layout techniques have been used to make the circuit radiation tolerant. The memory cells employ gate-oxide capacitors for storage, permitting a very high density. A voltage write-voltage read architecture has been chosen to minimize the sensitivity to absolute capacitor values. The measured input voltage range is 2.3 V (the power supply voltage V/sub DD/ is equal to 2.5 V), with a linearity of almost 8 bits over 2 V. The dynamic range is more than 11 bits. The pedestal variation is +or-0.5 mV peak-to-peak. The noise measured, which is dominated by the noise of the measurement setup, is around 0.8 mV rms. The characteristics of the memory have been measured before irradiation and after 1...

A large dynamic range radiation tolerant analog memory in a quarter micron CMOS technology

CERN Document Server

Anelli, G; Rivetti, A

2000-01-01

A 8*128 cell analog memory prototype has been designed in a commercial 0.25 jam CMOS process. The aim of this work was to investigate the possibility of designing large dynamic range mixed- mode switched capacitor circuits for High-Energy Physics (HEP) applications in deep submicron CMOS technologies. Special layout techniques have been used to make the circuit radiation tolerant left bracket 1 right bracket . The memory cells employ gate-oxide capacitors for storage, allowing for a very high density. A voltage write - voltage read architecture has been chosen to minimize the sensitivity to absolute capacitor values. The measured input voltage range is 2.3 V (V//D//D = 2.5 V), with a linearity of at least 7.5 bits over 2 V. The dynamic range is more than 11 bits. The pedestal variation is plus or minus 0.5 mV peak-to-peak. The noise measured, which is dominated by the noise of the measurement setup, is around 0.8 mV rms. The characteristics of the memory have been measured before irradiation and after lOMrd (...

High resolution mapping of riffle-pool dynamics based on ADCP and close-range remote sensing data

Science.gov (United States)

Salmela, Jouni; Kasvi, Elina; Alho, Petteri

2017-04-01

Present development of mobile laser scanning (MLS) and close-range photogrammetry with unmanned aerial vehicle (UAV) enable us to create seamless digital elevation models (DEMs) of the riverine environment. Remote-controlled flow measurement platforms have also improved spatio-temporal resolution of the flow field data. In this study, acoustic Doppler current profiler (ADCP) attached to remote-controlled mini-boat, UAV-based bathymetry and MLS techniques were utilized to create the high-resolution DEMs of the river channel. These high-resolution measurements can be used in many fluvial applications such as computational fluid dynamics, channel change detection, habitat mapping or hydro-electric power plant planning. In this study we aim: 1) to analyze morphological changes of river channel especially riffle and pool formations based on fine-scale DEMs and ADCP measurements, 2) to analyze flow fields and their effect on morphological changes. The interest was mainly focused on reach-scale riffle-pool dynamics within two-year period of 2013 and 2014. The study was performed in sub-arctic meandering Pulmankijoki River located in Northern Finland. The river itself has shallow and clear water and sandy bed sediment. Discharge remains typically below 10 m3s-1 most of the year but during snow melt period in spring the discharge may exceed 70 m3s-1. We compared DEMs and ADCP measurements to understand both magnitude and spatio-temporal change of the river bed. Models were accurate enough to study bed form changes and locations and persistence of riffles and pools. We analyzed their locations with relation to flow during the peak and low discharge. Our demonstrated method has improved significantly spatio-temporal resolution of riverine DEMs compared to other cross-sectional and photogrammetry based models. Together with flow field measurements we gained better understanding of riverbed-water interaction

Fused Regression for Multi-source Gene Regulatory Network Inference.

Directory of Open Access Journals (Sweden)

Kari Y Lam

2016-12-01

Full Text Available Understanding gene regulatory networks is critical to understanding cellular differentiation and response to external stimuli. Methods for global network inference have been developed and applied to a variety of species. Most approaches consider the problem of network inference independently in each species, despite evidence that gene regulation can be conserved even in distantly related species. Further, network inference is often confined to single data-types (single platforms and single cell types. We introduce a method for multi-source network inference that allows simultaneous estimation of gene regulatory networks in multiple species or biological processes through the introduction of priors based on known gene relationships such as orthology incorporated using fused regression. This approach improves network inference performance even when orthology mapping and conservation are incomplete. We refine this method by presenting an algorithm that extracts the true conserved subnetwork from a larger set of potentially conserved interactions and demonstrate the utility of our method in cross species network inference. Last, we demonstrate our method's utility in learning from data collected on different experimental platforms.

Synchronous digitization for high dynamic range lock-in amplification in beam-scanning microscopy

Energy Technology Data Exchange (ETDEWEB)

Muir, Ryan D.; Sullivan, Shane Z.; Oglesbee, Robert A.; Simpson, Garth J., E-mail: gsimpson@purdue.edu [Department of Chemistry, Purdue University, 560 Oval Drive, West Lafayette, Indiana 47907 (United States)

2014-03-15

Digital lock-in amplification (LIA) with synchronous digitization (SD) is shown to provide significant signal to noise (S/N) and linear dynamic range advantages in beam-scanning microscopy measurements using pulsed laser sources. Direct comparisons between SD-LIA and conventional LIA in homodyne second harmonic generation measurements resulted in S/N enhancements consistent with theoretical models. SD-LIA provided notably larger S/N enhancements in the limit of low light intensities, through the smooth transition between photon counting and signal averaging developed in previous work. Rapid beam scanning instrumentation with up to video rate acquisition speeds minimized photo-induced sample damage. The corresponding increased allowance for higher laser power without sample damage is advantageous for increasing the observed signal content.

Identification of highly synchronized subnetworks from gene expression data.

Science.gov (United States)

Gao, Shouguo; Wang, Xujing

2013-01-01

There has been a growing interest in identifying context-specific active protein-protein interaction (PPI) subnetworks through integration of PPI and time course gene expression data. However the interaction dynamics during the biological process under study has not been sufficiently considered previously. Here we propose a topology-phase locking (TopoPL) based scoring metric for identifying active PPI subnetworks from time series expression data. First the temporal coordination in gene expression changes is evaluated through phase locking analysis; The results are subsequently integrated with PPI to define an activity score for each PPI subnetwork, based on individual member expression, as well topological characteristics of the PPI network and of the expression temporal coordination network; Lastly, the subnetworks with the top scores in the whole PPI network are identified through simulated annealing search. Application of TopoPL to simulated data and to the yeast cell cycle data showed that it can more sensitively identify biologically meaningful subnetworks than the method that only utilizes the static PPI topology, or the additive scoring method. Using TopoPL we identified a core subnetwork with 49 genes important to yeast cell cycle. Interestingly, this core contains a protein complex known to be related to arrangement of ribosome subunits that exhibit extremely high gene expression synchronization. Inclusion of interaction dynamics is important to the identification of relevant gene networks.

Genome Dynamics and Molecular Infection Epidemiology of Multidrug-Resistant Helicobacter pullorum Isolates Obtained from Broiler and Free-Range Chickens in India.

Science.gov (United States)

Qumar, Shamsul; Majid, Mohammad; Kumar, Narender; Tiwari, Sumeet K; Semmler, Torsten; Devi, Savita; Baddam, Ramani; Hussain, Arif; Shaik, Sabiha; Ahmed, Niyaz

2017-01-01

Some life-threatening, foodborne, and zoonotic infections are transmitted through poultry birds. Inappropriate and indiscriminate use of antimicrobials in the livestock industry has led to an increased prevalence of multidrug-resistant bacteria with epidemic potential. Here, we present a functional molecular epidemiological analysis entailing the phenotypic and whole-genome sequence-based characterization of 11 H. pullorum isolates from broiler and free-range chickens sampled from retail wet markets in Hyderabad City, India. Antimicrobial susceptibility tests revealed all of the isolates to be resistant to multiple antibiotic classes such as fluoroquinolones, cephalosporins, sulfonamides, and macrolides. The isolates were also found to be extended-spectrum β-lactamase producers and were even resistant to clavulanic acid. Whole-genome sequencing and comparative genomic analysis of these isolates revealed the presence of five or six well-characterized antimicrobial resistance genes, including those encoding a resistance-nodulation-division efflux pump(s). Phylogenetic analysis combined with pan-genome analysis revealed a remarkable degree of genetic diversity among the isolates from free-range chickens; in contrast, a high degree of genetic similarity was observed among broiler chicken isolates. Comparative genomic analysis of all publicly available H. pullorum genomes, including our isolates (n = 16), together with the genomes of 17 other Helicobacter species, revealed a high number (8,560) of H. pullorum-specific protein-encoding genes, with an average of 535 such genes per isolate. In silico virulence screening identified 182 important virulence genes and also revealed high strain-specific gene content in isolates from free-range chickens (average, 34) compared to broiler chicken isolates. A significant prevalence of prophages (ranging from 1 to 9) and a significant presence of genomic islands (0 to 4) were observed in free-range and broiler chicken isolates

Molecular karyotype and chromosomal localization of genes encoding ß-tubulin, cysteine proteinase, hsp 70 and actin in Trypanosoma rangeli

Directory of Open Access Journals (Sweden)

CB Toaldo

2001-01-01

Full Text Available The molecular karyotype of nine Trypanosoma rangeli strains was analyzed by contour-clamped homogeneous electric field electrophoresis, followed by the chromosomal localization of ß-tubulin, cysteine proteinase, 70 kDa heat shock protein (hsp 70 and actin genes. The T. rangeli strains were isolated from either insects or mammals from El Salvador, Honduras, Venezuela, Colombia, Panama and southern Brazil. Also, T. cruzi CL-Brener clone was included for comparison. Despite the great similarity observed among strains from Brazil, the molecular karyotype of all T. rangeli strains analyzed revealed extensive chromosome polymorphism. In addition, it was possible to distinguish T. rangeli from T. cruzi by the chromosomal DNA electrophoresis pattern. The localization of ß-tubulin genes revealed differences among T. rangeli strains and confirmed the similarity between the isolates from Brazil. Hybridization assays using probes directed to the cysteine proteinase, hsp 70 and actin genes discriminated T. rangeli from T. cruzi, proving that these genes are useful molecular markers for the differential diagnosis between these two species. Numerical analysis based on the molecular karyotype data revealed a high degree of polymorphism among T. rangeli strains isolated from southern Brazil and strains isolated from Central and the northern South America. The T. cruzi reference strain was not clustered with any T. rangeli strain.

Evolution dynamics of a model for gene duplication under adaptive conflict

Science.gov (United States)

Ancliff, Mark; Park, Jeong-Man

2014-06-01

We present and solve the dynamics of a model for gene duplication showing escape from adaptive conflict. We use a Crow-Kimura quasispecies model of evolution where the fitness landscape is a function of Hamming distances from two reference sequences, which are assumed to optimize two different gene functions, to describe the dynamics of a mixed population of individuals with single and double copies of a pleiotropic gene. The evolution equations are solved through a spin coherent state path integral, and we find two phases: one is an escape from an adaptive conflict phase, where each copy of a duplicated gene evolves toward subfunctionalization, and the other is a duplication loss of function phase, where one copy maintains its pleiotropic form and the other copy undergoes neutral mutation. The phase is determined by a competition between the fitness benefits of subfunctionalization and the greater mutational load associated with maintaining two gene copies. In the escape phase, we find a dynamics of an initial population of single gene sequences only which escape adaptive conflict through gene duplication and find that there are two time regimes: until a time t* single gene sequences dominate, and after t* double gene sequences outgrow single gene sequences. The time t* is identified as the time necessary for subfunctionalization to evolve and spread throughout the double gene sequences, and we show that there is an optimum mutation rate which minimizes this time scale.

The dynamical mechanical properties of tungsten under compression at working temperature range of divertors

International Nuclear Information System (INIS)

Zhu, C.C.; Song, Y.T.; Peng, X.B.; Wei, Y.P.; Mao, X.; Li, W.X.; Qian, X.Y.

2016-01-01

In the divertor structure of ITER and EAST with mono-block module, tungsten plays not only a role of armor material but also a role of structural material, because electromagnetic (EM) impact will be exerted on tungsten components in VDEs or CQ. The EM loads can reach to 100 MN, which would cause high strain rates. In addition, directly exposed to high-temperature plasma, the temperature regime of divertor components is complex. Aiming at studying dynamical response of tungsten divertors under EM loads, an experiment on tungsten employed in EAST divertors was performed using a Kolsky bar system. The testing strain rates and temperatures is derived from actual working conditions, which makes the constitutive equation concluded by using John-Cook model and testing data very accurate and practical. The work would give a guidance to estimate the dynamical response, fatigue life and damage evolution of tungsten divertor components under EM impact loads. - Graphical abstract: From the comparison between the experimental curves and the predicted curves calculated by adopting the corrected m, it is very clear that the new model is of great capability to explain the deformation behavior of the tungsten material under dynamic compression at high temperatures. (EC, PC and PCM refers to experimental curve, predicted curve and predicted curve with a corrected m. Different colors represent different scenarios.). - Highlights: • Test research on dynamic properties of tungsten at working temperature range and strain rate range of divertors. • Constitutive equation descrbing strain hardening, strain rate hardening and temperature softening. • A guidance to estimate dynamical response and damage evolution of tungsten divertor components under impact.

Dynamic and modular gene regulatory networks drive the development of gametogenesis.

Science.gov (United States)

Che, Dongxue; Wang, Yang; Bai, Weiyang; Li, Leijie; Liu, Guiyou; Zhang, Liangcai; Zuo, Yongchun; Tao, Shiheng; Hua, Jinlian; Liao, Mingzhi

2017-07-01

Gametogenesis is a complex process, which includes mitosis and meiosis and results in the production of ovum and sperm. The development of gametogenesis is dynamic and needs many different genes to work synergistically, but it is lack of global perspective research about this process. In this study, we detected the dynamic process of gametogenesis from the perspective of systems biology based on protein-protein interaction networks (PPINs) and functional analysis. Results showed that gametogenesis genes have strong synergistic effects in PPINs within and between different phases during the development. Addition to the synergistic effects on molecular networks, gametogenesis genes showed functional consistency within and between different phases, which provides the further evidence about the dynamic process during the development of gametogenesis. At last, we detected and provided the core molecular modules of different phases about gametogenesis. The gametogenesis genes and related modules can be obtained from our Web site Gametogenesis Molecule Online (GMO, http://gametsonline.nwsuaflmz.com/index.php), which is freely accessible. GMO may be helpful for the reference and application of these genes and modules in the future identification of key genes about gametogenesis. Summary, this work provided a computational perspective and frame to the analysis of the gametogenesis dynamics and modularity in both human and mouse. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Predicting Precession Rates from Secular Dynamics for Extra-solar Multi-planet Systems

Science.gov (United States)

Van Laerhoven, Christa

2015-12-01

Considering the secular dynamics of multi-planet systems provides substantial insight into the interactions between planets in those systems. Secular interactions are those that don't involve knowing where a planet is along its orbit, and they dominate when planets are not involved in mean motion resonances. These interactions exchange angular momentum among the planets, evolving their eccentricities and inclinations. To second order in the planets' eccentricities and inclinations, the eccentricity and inclination perturbations are decoupled. Given the right variable choice, the relevant differential equations are linear and thus the eccentricity and inclination behaviors can be described as a sum of eigenmodes. Since the underlying structure of the secular eigenmodes can be calculated using only the planets' masses and semi-major axes, one can elucidate the eccentricity and inclination behavior of planets in exoplanet systems even without knowing the planets' current eccentricities and inclinations. I have calculated both the eccentricity and inclination secular eigenmodes for the population of known multi-planet systems whose planets have well determined masses and periods and have used this to predict what range of pericenter precession (and nodal regression) rates the planets may have. One might have assumed that in any given system the planets with shorter periods would have faster precession rates, but I show that this is not necessarily the case. Planets that are 'loners' have narrow ranges of possible precession rates, while planets that are 'groupies' can have a wider range of possible precession rates. Several planets are expected to undergo significant precession on few-year timescales and many planets (though not the majority of planets) will undergo significant precession on decade timescales.

Regulation of Cortical Dynamic Range by Background Synaptic Noise and Feedforward Inhibition.

Science.gov (United States)

Khubieh, Ayah; Ratté, Stéphanie; Lankarany, Milad; Prescott, Steven A

2016-08-01

The cortex encodes a broad range of inputs. This breadth of operation requires sensitivity to weak inputs yet non-saturating responses to strong inputs. If individual pyramidal neurons were to have a narrow dynamic range, as previously claimed, then staggered all-or-none recruitment of those neurons would be necessary for the population to achieve a broad dynamic range. Contrary to this explanation, we show here through dynamic clamp experiments in vitro and computer simulations that pyramidal neurons have a broad dynamic range under the noisy conditions that exist in the intact brain due to background synaptic input. Feedforward inhibition capitalizes on those noise effects to control neuronal gain and thereby regulates the population dynamic range. Importantly, noise allows neurons to be recruited gradually and occludes the staggered recruitment previously attributed to heterogeneous excitation. Feedforward inhibition protects spike timing against the disruptive effects of noise, meaning noise can enable the gain control required for rate coding without compromising the precise spike timing required for temporal coding. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Evaluation of artificial time series microarray data for dynamic gene regulatory network inference.

Science.gov (United States)

Xenitidis, P; Seimenis, I; Kakolyris, S; Adamopoulos, A

2017-08-07

High-throughput technology like microarrays is widely used in the inference of gene regulatory networks (GRNs). We focused on time series data since we are interested in the dynamics of GRNs and the identification of dynamic networks. We evaluated the amount of information that exists in artificial time series microarray data and the ability of an inference process to produce accurate models based on them. We used dynamic artificial gene regulatory networks in order to create artificial microarray data. Key features that characterize microarray data such as the time separation of directly triggered genes, the percentage of directly triggered genes and the triggering function type were altered in order to reveal the limits that are imposed by the nature of microarray data on the inference process. We examined the effect of various factors on the inference performance such as the network size, the presence of noise in microarray data, and the network sparseness. We used a system theory approach and examined the relationship between the pole placement of the inferred system and the inference performance. We examined the relationship between the inference performance in the time domain and the true system parameter identification. Simulation results indicated that time separation and the percentage of directly triggered genes are crucial factors. Also, network sparseness, the triggering function type and noise in input data affect the inference performance. When two factors were simultaneously varied, it was found that variation of one parameter significantly affects the dynamic response of the other. Crucial factors were also examined using a real GRN and acquired results confirmed simulation findings with artificial data. Different initial conditions were also used as an alternative triggering approach. Relevant results confirmed that the number of datasets constitutes the most significant parameter with regard to the inference performance. Copyright © 2017 Elsevier

Accelerating solving the dynamic multi-objective nework design problem using response surface methods

NARCIS (Netherlands)

Wismans, Luc Johannes Josephus; van Berkum, Eric C.; Bliemer, Michiel C.J.; Viti, F.; Immers, B.; Tampere, C.

2011-01-01

Multi objective optimization of externalities of traffic solving a network design problem in which Dynamic Traffic Management measures are used, is time consuming while heuristics are needed and solving the lower level requires solving the dynamic user equilibrium problem. Use of response surface

A nonrecursive order N preconditioned conjugate gradient: Range space formulation of MDOF dynamics

Science.gov (United States)

Kurdila, Andrew J.

1990-01-01

While excellent progress has been made in deriving algorithms that are efficient for certain combinations of system topologies and concurrent multiprocessing hardware, several issues must be resolved to incorporate transient simulation in the control design process for large space structures. Specifically, strategies must be developed that are applicable to systems with numerous degrees of freedom. In addition, the algorithms must have a growth potential in that they must also be amenable to implementation on forthcoming parallel system architectures. For mechanical system simulation, this fact implies that algorithms are required that induce parallelism on a fine scale, suitable for the emerging class of highly parallel processors; and transient simulation methods must be automatically load balancing for a wider collection of system topologies and hardware configurations. These problems are addressed by employing a combination range space/preconditioned conjugate gradient formulation of multi-degree-of-freedom dynamics. The method described has several advantages. In a sequential computing environment, the method has the features that: by employing regular ordering of the system connectivity graph, an extremely efficient preconditioner can be derived from the 'range space metric', as opposed to the system coefficient matrix; because of the effectiveness of the preconditioner, preliminary studies indicate that the method can achieve performance rates that depend linearly upon the number of substructures, hence the title 'Order N'; and the method is non-assembling. Furthermore, the approach is promising as a potential parallel processing algorithm in that the method exhibits a fine parallel granularity suitable for a wide collection of combinations of physical system topologies/computer architectures; and the method is easily load balanced among processors, and does not rely upon system topology to induce parallelism.

Plant-symbiotic fungi as chemical engineers: multi-genome analysis of the clavicipitaceae reveals dynamics of alkaloid loci.

Directory of Open Access Journals (Sweden)

Christopher L Schardl

Full Text Available The fungal family Clavicipitaceae includes plant symbionts and parasites that produce several psychoactive and bioprotective alkaloids. The family includes grass symbionts in the epichloae clade (Epichloë and Neotyphodium species, which are extraordinarily diverse both in their host interactions and in their alkaloid profiles. Epichloae produce alkaloids of four distinct classes, all of which deter insects, and some-including the infamous ergot alkaloids-have potent effects on mammals. The exceptional chemotypic diversity of the epichloae may relate to their broad range of host interactions, whereby some are pathogenic and contagious, others are mutualistic and vertically transmitted (seed-borne, and still others vary in pathogenic or mutualistic behavior. We profiled the alkaloids and sequenced the genomes of 10 epichloae, three ergot fungi (Claviceps species, a morning-glory symbiont (Periglandula ipomoeae, and a bamboo pathogen (Aciculosporium take, and compared the gene clusters for four classes of alkaloids. Results indicated a strong tendency for alkaloid loci to have conserved cores that specify the skeleton structures and peripheral genes that determine chemical variations that are known to affect their pharmacological specificities. Generally, gene locations in cluster peripheries positioned them near to transposon-derived, AT-rich repeat blocks, which were probably involved in gene losses, duplications, and neofunctionalizations. The alkaloid loci in the epichloae had unusual structures riddled with large, complex, and dynamic repeat blocks. This feature was not reflective of overall differences in repeat contents in the genomes, nor was it characteristic of most other specialized metabolism loci. The organization and dynamics of alkaloid loci and abundant repeat blocks in the epichloae suggested that these fungi are under selection for alkaloid diversification. We suggest that such selection is related to the variable life histories

Association between Gene Polymorphisms and Pain Sensitivity Assessed in a Multi-Modal Multi-Tissue Human Experimental Model - An Explorative Study

DEFF Research Database (Denmark)

Nielsen, Lecia Møller; Olesen, Anne Estrup; Sato, Hiroe

2016-01-01

The genetic influence on sensitivity to noxious stimuli (pain sensitivity) remains controversial and needs further investigation. In the present study, the possible influence of polymorphisms in three opioid receptor (OPRM, OPRD and OPRK) genes and the catechol-O-methyltransferase (COMT) gene...... on pain sensitivity in healthy participants was investigated. Catechol-O-methyltransferase has an indirect effect on the mu opioid receptor by changing its activity through an altered endogenous ligand effect. Blood samples for genetic analysis were withdrawn in a multi-modal and multi-tissue experimental......, electrical and thermal visceral stimulations. A cold pressor test was also conducted. DNA was available from 38 of 40 participants. Compared to non-carriers of the COMT rs4680A allele, carriers reported higher bone pressure pain tolerance threshold (i.e. less pain) by up to 23.8% (p

Gene Expression Commons: an open platform for absolute gene expression profiling.

Directory of Open Access Journals (Sweden)

Jun Seita

Full Text Available Gene expression profiling using microarrays has been limited to comparisons of gene expression between small numbers of samples within individual experiments. However, the unknown and variable sensitivities of each probeset have rendered the absolute expression of any given gene nearly impossible to estimate. We have overcome this limitation by using a very large number (>10,000 of varied microarray data as a common reference, so that statistical attributes of each probeset, such as the dynamic range and threshold between low and high expression, can be reliably discovered through meta-analysis. This strategy is implemented in a web-based platform named "Gene Expression Commons" (https://gexc.stanford.edu/ which contains data of 39 distinct highly purified mouse hematopoietic stem/progenitor/differentiated cell populations covering almost the entire hematopoietic system. Since the Gene Expression Commons is designed as an open platform, investigators can explore the expression level of any gene, search by expression patterns of interest, submit their own microarray data, and design their own working models representing biological relationship among samples.

Multi-person tracking with overlapping cameras in complex, dynamic environments

NARCIS (Netherlands)

Liem, M.; Gavrila, D.M.

2009-01-01

This paper presents a multi-camera system to track multiple persons in complex, dynamic environments. Position measurements are obtained by carving out the space defined by foreground regions in the overlapping camera views and projecting these onto blobs on the ground plane. Person appearance is

High-Fidelity Computational Aerodynamics of Multi-Rotor Unmanned Aerial Vehicles

Science.gov (United States)

Ventura Diaz, Patricia; Yoon, Seokkwan

2018-01-01

High-fidelity Computational Fluid Dynamics (CFD) simulations have been carried out for several multi-rotor Unmanned Aerial Vehicles (UAVs). Three vehicles have been studied: the classic quadcopter DJI Phantom 3, an unconventional quadcopter specialized for forward flight, the SUI Endurance, and an innovative concept for Urban Air Mobility (UAM), the Elytron 4S UAV. The three-dimensional unsteady Navier-Stokes equations are solved on overset grids using high-order accurate schemes, dual-time stepping, and a hybrid turbulence model. The DJI Phantom 3 is simulated with different rotors and with both a simplified airframe and the real airframe including landing gear and a camera. The effects of weather are studied for the DJI Phantom 3 quadcopter in hover. The SUI En- durance original design is compared in forward flight to a new configuration conceived by the authors, the hybrid configuration, which gives a large improvement in forward thrust. The Elytron 4S UAV is simulated in helicopter mode and in airplane mode. Understanding the complex flows in multi-rotor vehicles will help design quieter, safer, and more efficient future drones and UAM vehicles.

Observation and quantification of the quantum dynamics of a strong-field excited multi-level system.

Science.gov (United States)

Liu, Zuoye; Wang, Quanjun; Ding, Jingjie; Cavaletto, Stefano M; Pfeifer, Thomas; Hu, Bitao

2017-01-04

The quantum dynamics of a V-type three-level system, whose two resonances are first excited by a weak probe pulse and subsequently modified by another strong one, is studied. The quantum dynamics of the multi-level system is closely related to the absorption spectrum of the transmitted probe pulse and its modification manifests itself as a modulation of the absorption line shape. Applying the dipole-control model, the modulation induced by the second strong pulse to the system's dynamics is quantified by eight intensity-dependent parameters, describing the self and inter-state contributions. The present study opens the route to control the quantum dynamics of multi-level systems and to quantify the quantum-control process.

Global forward-predicting dynamic routing for traffic concurrency space stereo multi-layer scale-free network

International Nuclear Information System (INIS)

Xie Wei-Hao; Zhou Bin; Liu En-Xiao; Lu Wei-Dang; Zhou Ting

2015-01-01

Many real communication networks, such as oceanic monitoring network and land environment observation network, can be described as space stereo multi-layer structure, and the traffic in these networks is concurrent. Understanding how traffic dynamics depend on these real communication networks and finding an effective routing strategy that can fit the circumstance of traffic concurrency and enhance the network performance are necessary. In this light, we propose a traffic model for space stereo multi-layer complex network and introduce two kinds of global forward-predicting dynamic routing strategies, global forward-predicting hybrid minimum queue (HMQ) routing strategy and global forward-predicting hybrid minimum degree and queue (HMDQ) routing strategy, for traffic concurrency space stereo multi-layer scale-free networks. By applying forward-predicting strategy, the proposed routing strategies achieve better performances in traffic concurrency space stereo multi-layer scale-free networks. Compared with the efficient routing strategy and global dynamic routing strategy, HMDQ and HMQ routing strategies can optimize the traffic distribution, alleviate the number of congested packets effectively and reach much higher network capacity. (paper)

Technique for increasing dynamic range of space-borne ion composition instruments

International Nuclear Information System (INIS)

Burch, J.L.; Miller, G.P.; Santos, A. de los; Pollock, C.J.; Pope, S.E.; Valek, P. W.; Young, D.T.

2005-01-01

The dynamic range of ion composition spectrometers is limited by several factors, including saturation of particle counters and spillover of signals from highly dominant species into channels tuned to minor species. Instruments designed for composition measurements of hot plasmas in space can suffer greatly from both of these problems because of the wide energy range required and the wide disparity in fluxes encountered in various regions of interest. In order to detect minor ions in regions of very weak fluxes, geometry factors need to be as large as possible within the mass and volume resources available. As a result, problems with saturation by the dominant fluxes and spillover to minor-ion channels in plasma regions with intense fluxes become especially acute. This article reports on a technique for solving the dynamic-range problem in the few eV to several keV energy/charge range that is of central importance for space physics research where the dominant ion is of low mass/charge (typically H + ), and the minor ions are of higher mass/charge (typically O + ). The technique involves employing a radio-frequency modulation of the deflection electric field in the back section of an electrostatic analyzer in a time-of-flight instrument. This technique is shown to reduce H + counts by a controllable amount of up to factors of 1000 while reducing O + counts by only a few percent that can be calibrated

Gene Expression Dynamics Accompanying the Sponge Thermal Stress Response.

Science.gov (United States)

Guzman, Christine; Conaco, Cecilia

2016-01-01

Marine sponges are important members of coral reef ecosystems. Thus, their responses to changes in ocean chemistry and environmental conditions, particularly to higher seawater temperatures, will have potential impacts on the future of these reefs. To better understand the sponge thermal stress response, we investigated gene expression dynamics in the shallow water sponge, Haliclona tubifera (order Haplosclerida, class Demospongiae), subjected to elevated temperature. Using high-throughput transcriptome sequencing, we show that these conditions result in the activation of various processes that interact to maintain cellular homeostasis. Short-term thermal stress resulted in the induction of heat shock proteins, antioxidants, and genes involved in signal transduction and innate immunity pathways. Prolonged exposure to thermal stress affected the expression of genes involved in cellular damage repair, apoptosis, signaling and transcription. Interestingly, exposure to sublethal temperatures may improve the ability of the sponge to mitigate cellular damage under more extreme stress conditions. These insights into the potential mechanisms of adaptation and resilience of sponges contribute to a better understanding of sponge conservation status and the prediction of ecosystem trajectories under future climate conditions.

When are network coding based dynamic multi-homing techniques beneficial?

DEFF Research Database (Denmark)

Pereira, Carlos; Aguiar, Ana; Roetter, Daniel Enrique Lucani

2016-01-01

Mechanisms that can cope with unreliable wireless channels in an efficient manner are required due to the increasing number of resource constrained devices. Concurrent use of multiple communications technologies can be instrumental towards improving services to mobile devices in heterogeneous...... networks. In our previous work, we developed an optimization framework to generate channel-aware transmission policies for multi-homed devices under different cost criteria. Our formulation considers network coding as a key technique that simplifies load allocation across multiple channels and provides...... high resiliency under time-varying channel conditions. This paper seeks to explore the parameter space and identify the operating regions where dynamic coded policies offer most improvement over static ones in terms of energy consumption and channel utilization. We leverage meta-heuristics to find...

Extending the Dynamic Range of a Time Projection Chamber

Science.gov (United States)

Estee, Justin; S πRIT Collaboration

2017-09-01

The use of Time Projection Chambers (TPCs) in intermediate heavy ion reactions faces some challenges in addressing the energy losses that range from the small energy loss of relativistic pions to the large energy loss of slow moving heavy ions. A typical trade-off can be to set the smallest desired signals to be well within the lower limits of the dynamic range of the electronics while allowing for some larger signals to saturate the electronics. With wire plane anodes, signals from readout pads further away from the track remain unsaturated and allow signals from tracks with saturated pads to be accurately recovered. We illustrate this technique using data from the SAMURAI Pion-Reconstruction and Ion-Tracker (S πRIT) TPC , which recently measured pions and light charged particles in collisions of Sn+Sn isotopes. Our method exploits knowledge of how the induced charge distribution depends on the distance from the track to smoothly extend dynamic range even when some of the pads in the track are saturated. To accommodate the analysis of slow moving heavy ions, we have extended the Bichsel energy loss distributions to handle slower moving ions as well. In this talk, I will discuss a combined approach which successfully extends the dynamic range of the TPC electronics. This work is supported by the U.S. DOE under Grant Nos. DE-SC0014530, DE-NA0002923, US NSF Grant No. PHY-1565546 and the Japan MEXT KAKENHI Grant No. 24105004.

Multi-group dynamic quantum secret sharing with single photons

Energy Technology Data Exchange (ETDEWEB)

Liu, Hongwei [School of Science and State Key Laboratory of Information Photonics and Optical Communications, Beijing University of Posts and Telecommunications, Beijing 100876 (China); Ma, Haiqiang, E-mail: hqma@bupt.edu.cn [School of Science and State Key Laboratory of Information Photonics and Optical Communications, Beijing University of Posts and Telecommunications, Beijing 100876 (China); Wei, Kejin [School of Science and State Key Laboratory of Information Photonics and Optical Communications, Beijing University of Posts and Telecommunications, Beijing 100876 (China); Yang, Xiuqing [School of Science, Beijing Jiaotong University, Beijing 100044 (China); Qu, Wenxiu; Dou, Tianqi; Chen, Yitian; Li, Ruixue; Zhu, Wu [School of Science and State Key Laboratory of Information Photonics and Optical Communications, Beijing University of Posts and Telecommunications, Beijing 100876 (China)

2016-07-15

In this letter, we propose a novel scheme for the realization of single-photon dynamic quantum secret sharing between a boss and three dynamic agent groups. In our system, the boss can not only choose one of these three groups to share the secret with, but also can share two sets of independent keys with two groups without redistribution. Furthermore, the security of communication is enhanced by using a control mode. Compared with previous schemes, our scheme is more flexible and will contribute to a practical application. - Highlights: • A multi-group dynamic quantum secret sharing with single photons scheme is proposed. • Any one of the groups can be chosen to share secret through controlling the polarization of photons. • Two sets of keys can be shared simultaneously without redistribution.

The MOLDY short-range molecular dynamics package

Science.gov (United States)

Ackland, G. J.; D'Mellow, K.; Daraszewicz, S. L.; Hepburn, D. J.; Uhrin, M.; Stratford, K.

2011-12-01

We describe a parallelised version of the MOLDY molecular dynamics program. This Fortran code is aimed at systems which may be described by short-range potentials and specifically those which may be addressed with the embedded atom method. This includes a wide range of transition metals and alloys. MOLDY provides a range of options in terms of the molecular dynamics ensemble used and the boundary conditions which may be applied. A number of standard potentials are provided, and the modular structure of the code allows new potentials to be added easily. The code is parallelised using OpenMP and can therefore be run on shared memory systems, including modern multicore processors. Particular attention is paid to the updates required in the main force loop, where synchronisation is often required in OpenMP implementations of molecular dynamics. We examine the performance of the parallel code in detail and give some examples of applications to realistic problems, including the dynamic compression of copper and carbon migration in an iron-carbon alloy. Program summaryProgram title: MOLDY Catalogue identifier: AEJU_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AEJU_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: GNU General Public License version 2 No. of lines in distributed program, including test data, etc.: 382 881 No. of bytes in distributed program, including test data, etc.: 6 705 242 Distribution format: tar.gz Programming language: Fortran 95/OpenMP Computer: Any Operating system: Any Has the code been vectorised or parallelized?: Yes. OpenMP is required for parallel execution RAM: 100 MB or more Classification: 7.7 Nature of problem: Moldy addresses the problem of many atoms (of order 10 6) interacting via a classical interatomic potential on a timescale of microseconds. It is designed for problems where statistics must be gathered over a number of equivalent runs, such as

Multi-product dynamic advertisement planning in a segmented market

Directory of Open Access Journals (Sweden)

Aggarwal Sugandha

2017-01-01

Full Text Available In this paper, a dynamic multi-objective linear integer programming model is proposed to optimally distribute a firm’s advertising budget among multiple products and media in a segmented market. To make the media plan responsive to the changes in the market, the distribution is carried out dynamically by dividing the planning horizon into smaller periods. The model incorporates the effect of the previous period advertising reach on the current period (taken through retention factor, and it also considers cross-product effect of simultaneously advertising different products. An application of the model is presented for an insurance firm that markets five different products, using goal programming approach.

Dynamic range studies of the RCA streak tube in the LLL streak camera

International Nuclear Information System (INIS)

Thomas, S.W.; Phillips, G.E.

1979-01-01

As indicated by tests on several cameras, the dynamic range of the Lawrence Livermore Laboratory streak-camera system appears to be about two orders of magnitude greater than those reported for other systems for 10- to 200-ps pulses. The lack of a fine mesh grid in the RCA streak tube used in these cameras probably contributes to a lower system dynamic noise and therefore raises the dynamic range. A developmental tube with a mesh grid was tested and supports this conjecture. Order-of-magnitude variations in input slit width do not affect the spot size on the phosphor or the dynamic range of the RCA tube. (author)

Dynamic range compression in a liquid argon calorimeter

International Nuclear Information System (INIS)

Cleland, W.E.; Lissauer, D.; Radeka, V.; Rescia, S.; Takai, H.; Wingerter-Seez, I.

1996-01-01

The anticipated range of particle energies at the LHC, coupled with the need for precision, low noise calorimetry makes severe demands on the dynamic range of the calorimeter readout. A common approach to this problem is to use shapers with two or more gain scales. In this paper, the authors describe their experience with a new approach in which a preamplifier with dynamic gain compression is used. An unavoidable consequence of dynamic gain adjustment is that the peaking time of the shaper output signal becomes amplitude dependent. The authors have carried out a test of such a readout system in the RD3 calorimeter, a liquid argon device with accordion geometry. The calibration system is used to determine both the gain of the individual channels as well as to map the shape of the waveform as a function of signal amplitude. A new procedure for waveform analysis, in which the fitted parameters describe the impulse response of the system, permits a straightforward translation of the calibration waveform to the waveform generated by a particle crossing the ionization gap. They find that the linearity and resolution of the calorimeter is equivalent to that obtained with linear preamplifiers, up to an energy of 200 GeV

Dynamic multi-stage dispatch of isolated wind–diesel power systems

DEFF Research Database (Denmark)

Hu, Yu; Morales González, Juan Miguel; Pineda, Salvador

2015-01-01

-stage decision-making model is proposed to determine the diesel power output that minimizes the cost of running and maintaining the wind–diesel power system. Optimized operational decisions for each time period are generated dynamically considering the path-dependent nature of the optimal dispatch policy, given......An optimal dispatch strategy is crucial for an isolated wind–diesel power system to save diesel fuel and maintain the system stability. The uncertainty associated with the stochastic character of the wind is, though, a challenging problem for this optimization. In this paper, a dynamic multi...

Systematic assessment of multi-gene predictors of pan-cancer cell line sensitivity to drugs exploiting gene expression data [version 1; referees: 2 approved

Directory of Open Access Journals (Sweden)

Linh Nguyen

2016-12-01

Full Text Available Background: Selected gene mutations are routinely used to guide the selection of cancer drugs for a given patient tumour. Large pharmacogenomic data sets were introduced to discover more of these single-gene markers of drug sensitivity. Very recently, machine learning regression has been used to investigate how well cancer cell line sensitivity to drugs is predicted depending on the type of molecular profile. The latter has revealed that gene expression data is the most predictive profile in the pan-cancer setting. However, no study to date has exploited GDSC data to systematically compare the performance of machine learning models based on multi-gene expression data against that of widely-used single-gene markers based on genomics data. Methods: Here we present this systematic comparison using Random Forest (RF classifiers exploiting the expression levels of 13,321 genes and an average of 501 tested cell lines per drug. To account for time-dependent batch effects in IC50 measurements, we employ independent test sets generated with more recent GDSC data than that used to train the predictors and show that this is a more realistic validation than K-fold cross-validation. Results and Discussion: Across 127 GDSC drugs, our results show that the single-gene markers unveiled by the MANOVA analysis tend to achieve higher precision than these RF-based multi-gene models, at the cost of generally having a poor recall (i.e. correctly detecting only a small part of the cell lines sensitive to the drug. Regarding overall classification performance, about two thirds of the drugs are better predicted by multi-gene RF classifiers. Among the drugs with the most predictive of these models, we found pyrimethamine, sunitinib and 17-AAG. Conclusions: We now know that this type of models can predict in vitro tumour response to these drugs. These models can thus be further investigated on in vivo tumour models.

Perfomance of a high purity germanium multi-detector telescope for long range particles

International Nuclear Information System (INIS)

Riepe, G.; Protic, D.; Suekoesd, C.; Didelez, J.P.; Frascaria, N.; Gerlic, E.; Hourani, E.; Morlet, M.

1980-01-01

A telescope of stacked high purity germanium detectors designed for long range charged particles was tested using medium energy protons. Particle identification and the rejection of the low energy tail could be accomplished on-line allowing the measurement of complex spectra. The efficiency of the detector stack for protons was measured up to 156 MeV incoming energy. The various factors affecting the energy resolution are discussed and their estimated contributions are compared with the experimental results

Dynamic range extension of BPM at the NSLS

International Nuclear Information System (INIS)

Bordoley, M.

1993-01-01

In order to overcome range limitations, the existing Beam Position Monitor (BPM) receiver was modified, extending the dynamic range from 35 dB to 60 dB. The modifications include the insertion of an RF PIN attenuator, RF amplifier, and control circuitry in line with the RF link to add an extra 25dB to the existing AGC loop. This stand alone 25dB RF gain control stage is integrated into the present system without any change to the existing receiver

Dynamic range of atomically thin vibrating nanomechanical resonators

International Nuclear Information System (INIS)

Wang, Zenghui; Feng, Philip X.-L.

2014-01-01

Atomically thin two-dimensional (2D) crystals offer attractive properties for making resonant nanoelectromechanical systems (NEMS) operating at high frequencies. While the fundamental limits of linear operation in such systems are important, currently there is very little quantitative knowledge of the linear dynamic range (DR) and onset of nonlinearity in these devices, which are different than in conventional 1D NEMS such as nanotubes and nanowires. Here, we present theoretical analysis and quantitative models that can be directly used to predict the DR of vibrating 2D circular drumhead NEMS resonators. We show that DR has a strong dependence ∝10log(E Y 3/2 ρ 3D -1/2 rtε 5/2 ) on device parameters, in which strain ε plays a particularly important role in these 2D systems, dominating over dimensions (radius r, thickness t). This study formulizes the effects from device physical parameters upon DR and sheds light on device design rules toward achieving high DR in 2D NEMS vibrating at radio and microwave frequencies

Dynamic expression of leukocyte innate immune genes in whole blood from horses with lipopolysaccharide-induced acute systemic inflammation

DEFF Research Database (Denmark)

Vinther, Anne Mette L.; Skovgaard, Kerstin; Heegaard, Peter M. H.

2015-01-01

Background: In horses, insights into the innate immune processes in acute systemic inflammation are limited even though these processes may be highly important for future diagnostic and therapeutic advances in high-mortality disease conditions as the systemic inflammatory response syndrome (SIRS......) and sepsis. Therefore, the aim of this study was to investigate the expression of 31 selected blood leukocyte immune genes in an equine model of acute systemic inflammation to identify significantly regulated genes and to describe their expression dynamics during a 24-h experimental period. Systemic...... expressions in blood leukocytes during equine acute LPS-induced systemic inflammation thoroughly characterized a highly regulated and dynamic innate immune response. These results provide new insights into the molecular mechanisms of equine systemic inflammation....

Event-Based Color Segmentation With a High Dynamic Range Sensor

Directory of Open Access Journals (Sweden)

Alexandre Marcireau

2018-04-01

Full Text Available This paper introduces a color asynchronous neuromorphic event-based camera and a methodology to process color output from the device to perform color segmentation and tracking at the native temporal resolution of the sensor (down to one microsecond. Our color vision sensor prototype is a combination of three Asynchronous Time-based Image Sensors, sensitive to absolute color information. We devise a color processing algorithm leveraging this information. It is designed to be computationally cheap, thus showing how low level processing benefits from asynchronous acquisition and high temporal resolution data. The resulting color segmentation and tracking performance is assessed both with an indoor controlled scene and two outdoor uncontrolled scenes. The tracking's mean error to the ground truth for the objects of the outdoor scenes ranges from two to twenty pixels.

High-throughput gene expression profiling of memory differentiation in primary human T cells

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Russell Kate

2008-08-01

Full Text Available Abstract Background The differentiation of naive T and B cells into memory lymphocytes is essential for immunity to pathogens. Therapeutic manipulation of this cellular differentiation program could improve vaccine efficacy and the in vitro expansion of memory cells. However, chemical screens to identify compounds that induce memory differentiation have been limited by 1 the lack of reporter-gene or functional assays that can distinguish naive and memory-phenotype T cells at high throughput and 2 a suitable cell-line representative of naive T cells. Results Here, we describe a method for gene-expression based screening that allows primary naive and memory-phenotype lymphocytes to be discriminated based on complex genes signatures corresponding to these differentiation states. We used ligation-mediated amplification and a fluorescent, bead-based detection system to quantify simultaneously 55 transcripts representing naive and memory-phenotype signatures in purified populations of human T cells. The use of a multi-gene panel allowed better resolution than any constituent single gene. The method was precise, correlated well with Affymetrix microarray data, and could be easily scaled up for high-throughput. Conclusion This method provides a generic solution for high-throughput differentiation screens in primary human T cells where no single-gene or functional assay is available. This screening platform will allow the identification of small molecules, genes or soluble factors that direct memory differentiation in naive human lymphocytes.

High temperature gas dynamics an introduction for physicists and engineers

CERN Document Server

Bose, Tarit K

2014-01-01

High Temperature Gas Dynamics is a primer for scientists, engineers, and students who would like to have a basic understanding of the physics and the behavior of high-temperature gases. It is a valuable tool for astrophysicists as well. The first chapters treat the basic principles of quantum and statistical mechanics and how to derive thermophysical properties from them. Special topics are included that are rarely found in other textbooks, such as the thermophysical and transport properties of multi-temperature gases and a novel method to compute radiative transfer. Furthermore, collision processes between different particles are discussed. Separate chapters deal with the production of high-temperature gases and with electrical emission in plasmas, as well as related diagnostic techniques.This new edition adds over 100 pages and includes the following updates: several sections on radiative properties of high temperature gases and various radiation models, a section on shocks in magneto-gas-dynamics, a sectio...

Preliminary feasibility assessment on the investigation of bronchogenic adenocarcinoma angiogenesis with dynamic multi-slice spiral computed tomography

International Nuclear Information System (INIS)

Li Shenjiang; Xiao Xiangsheng; Li Huimin; Liu Shiyuan; Li Chengzhou; Zhang Chenshi; Tao Zhiwei

2003-01-01

Objective: To evaluate the feasibility on the investigation of bronchogenic adenocarcinoma angiogenesis with dynamic multi-slice spiral computed tomography (MSCT) . Methods: 27 patients with bronchogenic adenocarcinomas (diameter ≤4 cm) underwent multi-location dynamic contrast material-enhanced (90 ml, 4 ml/s) serial CT. These dynamic images were processed with the 'time lapse' software and the 'functional CT' software. Peak heights of bronchogenic adenocarcinoma and the aorta, perfusion and mean transit time (MTT) were measured. Ratio of peak height of the bronchogenic adenocarcinoma to that of the aorta was calculated. Perfusion and mean transit time images were obtained. Results: Peak height of bronchogenic adenocarcinoma was (36.66 ± 13.53) HU. No statistically significant difference in the peak height was found between our results and the results of Ukihide et al (mean peak height 34.1 HU) (t =0.981, P = 0.335). Bronchogenic adenocarcinoma-to-aorta ratio was (15.72±4.66 )%. The difference in bronchogenic adenocarcinoma -to-aorta ratio between our results and the results of Zhang and Kono (mean malignant SPN-to-aorta ratio 14.6%) did not reach statistical significance (t=1.244, P=0.225). The mean perfusion value (3.278 ml·min - · kg -1 ) was in the range of that (1.36-2.98 ml·min -1 ·kg -1 ) measured with a single photon emission CT (SPECT). Mean transit time was (17.60 ± 4.52) s. Conclusion: It is feasible to investigate bronchogenic adenocarcinoma angiogenesis with dynamic MSCT

A Multi-Cycle Q-Modulation for Dynamic Optimization of Inductive Links.

Science.gov (United States)

Lee, Byunghun; Yeon, Pyungwoo; Ghovanloo, Maysam

2016-08-01

This paper presents a new method, called multi-cycle Q-modulation, which can be used in wireless power transmission (WPT) to modulate the quality factor (Q) of the receiver (Rx) coil and dynamically optimize the load impedance to maximize the power transfer efficiency (PTE) in two-coil links. A key advantage of the proposed method is that it can be easily implemented using off-the-shelf components without requiring fast switching at or above the carrier frequency, which is more suitable for integrated circuit design. Moreover, the proposed technique does not need any sophisticated synchronization between the power carrier and Q-modulation switching pulses. The multi-cycle Q-modulation is analyzed theoretically by a lumped circuit model, and verified in simulation and measurement using an off-the-shelf prototype. Automatic resonance tuning (ART) in the Rx, combined with multi-cycle Q-modulation helped maximizing PTE of the inductive link dynamically in the presence of environmental and loading variations, which can otherwise significantly degrade the PTE in multi-coil settings. In the prototype conventional 2-coil link, the proposed method increased the power amplifier (PA) plus inductive link efficiency from 4.8% to 16.5% at ( R L = 1 kΩ, d 23 = 3 cm), and from 23% to 28.2% at ( R L = 100 Ω, d 23 = 3 cm) after 11% change in the resonance capacitance, while delivering 168.1 mW to the load (PDL).

Evaluation of dynamic range for LLNL streak cameras using high contrast pulses and pulse podiatry'' on the Nova laser system

Energy Technology Data Exchange (ETDEWEB)

Richards, J.B.; Weiland, T.L.; Prior, J.A.

1990-07-01

A standard LLNL streak camera has been used to analyze high contrast pulses on the Nova laser facility. These pulses have a plateau at their leading edge (foot) with an amplitude which is approximately 1% of the maximum pulse height. Relying on other features of the pulses and on signal multiplexing, we were able to determine how accurately the foot amplitude was being represented by the camera. Results indicate that the useful single channel dynamic range of the instrument approaches 100:1. 1 ref., 4 figs., 1 tab.

POTENTIALS OF IMAGE BASED ACTIVE RANGING TO CAPTURE DYNAMIC SCENES

Directory of Open Access Journals (Sweden)

B. Jutzi

2012-09-01

Full Text Available Obtaining a 3D description of man-made and natural environments is a basic task in Computer Vision and Remote Sensing. To this end, laser scanning is currently one of the dominating techniques to gather reliable 3D information. The scanning principle inherently needs a certain time interval to acquire the 3D point cloud. On the other hand, new active sensors provide the possibility of capturing range information by images with a single measurement. With this new technique image-based active ranging is possible which allows capturing dynamic scenes, e.g. like walking pedestrians in a yard or moving vehicles. Unfortunately most of these range imaging sensors have strong technical limitations and are not yet sufficient for airborne data acquisition. It can be seen from the recent development of highly specialized (far-range imaging sensors – so called flash-light lasers – that most of the limitations could be alleviated soon, so that future systems will be equipped with improved image size and potentially expanded operating range. The presented work is a first step towards the development of methods capable for application of range images in outdoor environments. To this end, an experimental setup was set up for investigating these proposed possibilities. With the experimental setup a measurement campaign was carried out and first results will be presented within this paper.

High Performance Multi-GPU SpMV for Multi-component PDE-Based Applications

KAUST Repository

Abdelfattah, Ahmad

2015-07-25

Leveraging optimization techniques (e.g., register blocking and double buffering) introduced in the context of KBLAS, a Level 2 BLAS high performance library on GPUs, the authors implement dense matrix-vector multiplications within a sparse-block structure. While these optimizations are important for high performance dense kernel executions, they are even more critical when dealing with sparse linear algebra operations. The most time-consuming phase of many multicomponent applications, such as models of reacting flows or petroleum reservoirs, is the solution at each implicit time step of large, sparse spatially structured or unstructured linear systems. The standard method is a preconditioned Krylov solver. The Sparse Matrix-Vector multiplication (SpMV) is, in turn, one of the most time-consuming operations in such solvers. Because there is no data reuse of the elements of the matrix within a single SpMV, kernel performance is limited by the speed at which data can be transferred from memory to registers, making the bus bandwidth the major bottleneck. On the other hand, in case of a multi-species model, the resulting Jacobian has a dense block structure. For contemporary petroleum reservoir simulations, the block size typically ranges from three to a few dozen among different models, and still larger blocks are relevant within adaptively model-refined regions of the domain, though generally the size of the blocks, related to the number of conserved species, is constant over large regions within a given model. This structure can be exploited beyond the convenience of a block compressed row data format, because it offers opportunities to hide the data motion with useful computations. The new SpMV kernel outperforms existing state-of-the-art implementations on single and multi-GPUs using matrices with dense block structure representative of porous media applications with both structured and unstructured multi-component grids.

Dynamical arrest in dense short-ranged attractive colloids

International Nuclear Information System (INIS)

Foffi, G; Sciortino, F; Zaccarelli, E; Tartaglia, P

2004-01-01

We study thermodynamic and dynamic properties of model colloidal systems interacting with a hard core repulsion and a short-range attraction, and provide an overall picture of their phase diagrams which shows a very rich phenomenology. We focus on the slow dynamic properties of this model, investigating in detail the glass transition lines (both repulsive and attractive), the glass-glass transitions and the location of the higher order singularities. We discuss the relative location of the glass lines and of the metastable liquid-gas binodal, an issue relevant for the understanding of low density arrested states of matter

Global Analysis of miRNA Gene Clusters and Gene Families Reveals Dynamic and Coordinated Expression

Directory of Open Access Journals (Sweden)

Li Guo

2014-01-01

Full Text Available To further understand the potential expression relationships of miRNAs in miRNA gene clusters and gene families, a global analysis was performed in 4 paired tumor (breast cancer and adjacent normal tissue samples using deep sequencing datasets. The compositions of miRNA gene clusters and families are not random, and clustered and homologous miRNAs may have close relationships with overlapped miRNA species. Members in the miRNA group always had various expression levels, and even some showed larger expression divergence. Despite the dynamic expression as well as individual difference, these miRNAs always indicated consistent or similar deregulation patterns. The consistent deregulation expression may contribute to dynamic and coordinated interaction between different miRNAs in regulatory network. Further, we found that those clustered or homologous miRNAs that were also identified as sense and antisense miRNAs showed larger expression divergence. miRNA gene clusters and families indicated important biological roles, and the specific distribution and expression further enrich and ensure the flexible and robust regulatory network.

Wide-spectral/dynamic-range skin-compatible phototransistors enabled by floated heterojunction structures with surface functionalized SWCNTs and amorphous oxide semiconductors.

Science.gov (United States)

Hwang, Insik; Kim, Jaehyun; Lee, Minkyung; Lee, Min-Wook; Kim, Hee-Joong; Kwon, Hyuck-In; Hwang, Do Kyung; Kim, Myunggil; Yoon, Haeyoung; Kim, Yong-Hoon; Park, Sung Kyu

2017-11-09

Purified semiconducting single-walled carbon nanotubes (sc-SWCNTs) have been researched for optoelectronic applications due to their high absorption coefficient from the visible to even the near-infrared (NIR) region. Nevertheless, the insufficient electrical characteristics and incompatibility with conventional CMOS processing have limited their wide utilization in this emerging field. Here, we demonstrate highly detective and wide spectral/dynamic range phototransistors incorporating floated heterojunction active layers which are composed of low-temperature sol-gel processed n-type amorphous indium gallium zinc oxide (a-IGZO) stacked with a purified p-type sc-SWCNT layer. To achieve a high and broad spectral/dynamic range photo-response of the heterogeneous transistors, photochemically functionalized sc-SWCNT layers were carefully implemented onto the a-IGZO channel area with a floating p-n heterojunction active layer, resulting in the suppression of parasitic charge leakage and good bias driven opto-electrical properties. The highest photosensitivity (R) of 9.6 × 10 2 A W -1 and a photodetectivity (D*) of 4 × 10 14 Jones along with a dynamic range of 100-180 dB were achieved for our phototransistor in the spectral range of 400-780 nm including continuous and minimal frequency independent behaviors. More importantly, to demonstrate the diverse application of the ultra-flexible hybrid photosensor platform as skin compatible electronics, the sc-SWCNT/a-IGZO phototransistors were fabricated on an ultra-thin (∼1 μm) polyimide film along with a severe static and dynamic electro-mechanical test. The skin-like phototransistors showed excellent mechanical stability such as sustainable good electrical performance and high photosensitivity in a wide dynamic range without any visible cracks or damage and little noise interference after being rolled-up on the 150 μm-thick optical fiber as well as more than 1000 times cycling.

A novel method of range measuring for a mobile robot based on multi-sensor information fusion

International Nuclear Information System (INIS)

Zhang Yi; Luo Yuan; Wang Jifeng

2005-01-01

The traditional measuring range for a mobile robot is based on a sonar sensor. Because of different working environments, it is very difficult to obtain high precision by using just one single method of range measurement. So, a hybrid sonar sensor and laser scanner method is put forward to overcome these shortcomings. A novel fusion model is proposed based on basic theory and a method of information fusion. An optimal measurement result has been obtained with information fusion from different sensors. After large numbers of experiments and performance analysis, a conclusion can be drawn that the laser scanner and sonar sensor method with multi-sensor information fusion have a higher precision than the single method of sonar. It can also be the same with different environments

Shack-Hartmann centroid detection method based on high dynamic range imaging and normalization techniques

International Nuclear Information System (INIS)

Vargas, Javier; Gonzalez-Fernandez, Luis; Quiroga, Juan Antonio; Belenguer, Tomas

2010-01-01

In the optical quality measuring process of an optical system, including diamond-turning components, the use of a laser light source can produce an undesirable speckle effect in a Shack-Hartmann (SH) CCD sensor. This speckle noise can deteriorate the precision and accuracy of the wavefront sensor measurement. Here we present a SH centroid detection method founded on computer-based techniques and capable of measurement in the presence of strong speckle noise. The method extends the dynamic range imaging capabilities of the SH sensor through the use of a set of different CCD integration times. The resultant extended range spot map is normalized to accurately obtain the spot centroids. The proposed method has been applied to measure the optical quality of the main optical system (MOS) of the mid-infrared instrument telescope smulator. The wavefront at the exit of this optical system is affected by speckle noise when it is illuminated by a laser source and by air turbulence because it has a long back focal length (3017 mm). Using the proposed technique, the MOS wavefront error was measured and satisfactory results were obtained.

Large dynamic range pressure sensor based on two semicircle-holes microstructured fiber.

Science.gov (United States)

Liu, Zhengyong; Htein, Lin; Lee, Kang-Kuen; Lau, Kin-Tak; Tam, Hwa-Yaw

2018-01-08

This paper presents a sensitive and large dynamic range pressure sensor based on a novel birefringence microstructured optical fiber (MOF) deployed in a Sagnac interferometer configuration. The MOF has two large semicircle holes in the cladding and a rectangular strut with germanium-doped core in the center. The fiber structure permits surrounding pressure to induce large effective index difference between the two polarized modes. The calculated and measured group birefringence of the fiber are 1.49 × 10 -4 , 1.23 × 10 -4 , respectively, at the wavelength of 1550 nm. Experimental results shown that the pressure sensitivity of the sensor varied from 45,000 pm/MPa to 50,000 pm/MPa, and minimum detectable pressure of 80 Pa and dynamic range of better than 116 dB could be achieved with the novel fiber sensor. The proposed sensor could be used in harsh environment and is an ideal candidate for downhole applications where high pressure measurement at elevated temperature up to 250 °C is needed.

Effectiveness of multi tuned liquid dampers with slat screens for reducing dynamic responses of structures

Science.gov (United States)

Nguyen, T. P.; Pham, D. T.; Ngo, K. T.

2018-04-01

Reducing vibration in structures under lateral load always attracts many researchers in during pastime, hence the mainly purpose of paper analyzes effectiveness of multiple-tuned liquid dampers for reducing dynamic responses of structures under ground acceleration of earthquakes. In this study, the multi-tuned liquid damper with slat screens (M-TLDWSS) is considered in detail for analyzing dynamic response of multi-degrees of freedom structure due to earthquake, which is more different previous studies. Then, the general equation of motion of the structure and M-TLDWSS under ground acceleration of earthquake is established based on dynamic balance of principle and solved by numerical method in the time domain. The effects of characteristic parameters of M-TLDWSS on dynamic response of the structure are investigated. The results obtained in this study demonstrate that the M-TLDWSS has significantly effectiveness for reducing dynamic response of the structure.

High-resolution Mapping of Permafrost and Soil Freeze/thaw Dynamics in the Tibetan Plateau Based on Multi-sensor Satellite Observations

Science.gov (United States)

Zhang, W.; Yi, Y.; Yang, K.; Kimball, J. S.

2016-12-01

The Tibetan Plateau (TP) is underlain by the world's largest extent of alpine permafrost ( 2.5×106 km2), dominated by sporadic and discontinuous permafrost with strong sensitivity to climate warming. Detailed permafrost distributions and patterns in most of the TP region are still unknown due to extremely sparse in-situ observations in this region characterized by heterogeneous land cover and large temporal dynamics in surface soil moisture conditions. Therefore, satellite-based temperature and moisture observations are essential for high-resolution mapping of permafrost distribution and soil active layer changes in the TP region. In this study, we quantify the TP regional permafrost distribution at 1-km resolution using a detailed satellite data-driven soil thermal process model (GIPL2). The soil thermal model is calibrated and validated using in-situ soil temperature/moisture observations from the CAMP/Tibet field campaign (9 sites: 0-300 cm soil depth sampling from 1997-2007), a multi-scale soil moisture and temperature monitoring network in the central TP (CTP-SMTMN, 57 sites: 5-40 cm, 2010-2014) and across the whole plateau (China Meteorology Administration, 98 sites: 0-320 cm, 2000-2015). Our preliminary results using the CAMP/Tibet and CTP-SMTMN network observations indicate strong controls of surface thermal and soil moisture conditions on soil freeze/thaw dynamics, which vary greatly with underlying topography, soil texture and vegetation cover. For regional mapping of soil freeze/thaw and permafrost dynamics, we use the most recent soil moisture retrievals from the NASA SMAP (Soil Moisture Active Passive) sensor to account for the effects of temporal soil moisture dynamics on soil thermal heat transfer, with surface thermal conditions defined by MODIS (Moderate Resolution Imaging Spectroradiometer) land surface temperature records. Our study provides the first 1-km map of spatial patterns and recent changes of permafrost conditions in the TP.

Dynamic Task Allocation in Multi-Hop Multimedia Wireless Sensor Networks with Low Mobility

Directory of Open Access Journals (Sweden)

Klaus Moessner

2013-10-01

Full Text Available This paper presents a task allocation-oriented framework to enable efficient in-network processing and cost-effective multi-hop resource sharing for dynamic multi-hop multimedia wireless sensor networks with low node mobility, e.g., pedestrian speeds. The proposed system incorporates a fast task reallocation algorithm to quickly recover from possible network service disruptions, such as node or link failures. An evolutional self-learning mechanism based on a genetic algorithm continuously adapts the system parameters in order to meet the desired application delay requirements, while also achieving a sufficiently long network lifetime. Since the algorithm runtime incurs considerable time delay while updating task assignments, we introduce an adaptive window size to limit the delay periods and ensure an up-to-date solution based on node mobility patterns and device processing capabilities. To the best of our knowledge, this is the first study that yields multi-objective task allocation in a mobile multi-hop wireless environment under dynamic conditions. Simulations are performed in various settings, and the results show considerable performance improvement in extending network lifetime compared to heuristic mechanisms. Furthermore, the proposed framework provides noticeable reduction in the frequency of missing application deadlines.

Automation of multi-agent control for complex dynamic systems in heterogeneous computational network

Science.gov (United States)

Oparin, Gennady; Feoktistov, Alexander; Bogdanova, Vera; Sidorov, Ivan

2017-01-01

The rapid progress of high-performance computing entails new challenges related to solving large scientific problems for various subject domains in a heterogeneous distributed computing environment (e.g., a network, Grid system, or Cloud infrastructure). The specialists in the field of parallel and distributed computing give the special attention to a scalability of applications for problem solving. An effective management of the scalable application in the heterogeneous distributed computing environment is still a non-trivial issue. Control systems that operate in networks, especially relate to this issue. We propose a new approach to the multi-agent management for the scalable applications in the heterogeneous computational network. The fundamentals of our approach are the integrated use of conceptual programming, simulation modeling, network monitoring, multi-agent management, and service-oriented programming. We developed a special framework for an automation of the problem solving. Advantages of the proposed approach are demonstrated on the parametric synthesis example of the static linear regulator for complex dynamic systems. Benefits of the scalable application for solving this problem include automation of the multi-agent control for the systems in a parallel mode with various degrees of its detailed elaboration.

Recent advances in evolutionary multi-objective optimization

CERN Document Server

Datta, Rituparna; Gupta, Abhishek

2017-01-01

This book covers the most recent advances in the field of evolutionary multiobjective optimization. With the aim of drawing the attention of up-andcoming scientists towards exciting prospects at the forefront of computational intelligence, the authors have made an effort to ensure that the ideas conveyed herein are accessible to the widest audience. The book begins with a summary of the basic concepts in multi-objective optimization. This is followed by brief discussions on various algorithms that have been proposed over the years for solving such problems, ranging from classical (mathematical) approaches to sophisticated evolutionary ones that are capable of seamlessly tackling practical challenges such as non-convexity, multi-modality, the presence of multiple constraints, etc. Thereafter, some of the key emerging aspects that are likely to shape future research directions in the field are presented. These include:< optimization in dynamic environments, multi-objective bilevel programming, handling high ...

Multi-Mission Earth Vehicle Subsonic Dynamic Stability Testing and Analyses

Science.gov (United States)

Glaab, Louis J.; Fremaux, C. Michael

2013-01-01

Multi-Mission Earth Entry Vehicles (MMEEVs) are blunt-body vehicles designed with the purpose of transporting payloads from outer space to the surface of the Earth. To achieve high-reliability and minimum weight, MMEEVs avoid use of limited-reliability systems, such as parachutes, retro-rockets, and reaction control systems and rely on the natural aerodynamic stability of the vehicle throughout the Entry, Descent, and Landing (EDL) phase of flight. The Multi-Mission Systems Analysis for Planetary Entry (M-SAPE) parametric design tool is used to facilitate the design of MMEEVs for an array of missions and develop and visualize the trade space. Testing in NASA Langley?s Vertical Spin Tunnel (VST) was conducted to significantly improve M-SAPE?s subsonic aerodynamic models. Vehicle size and shape can be driven by entry flight path angle and speed, thermal protection system performance, terminal velocity limitations, payload mass and density, among other design parameters. The objectives of the VST testing were to define usable subsonic center of gravity limits, and aerodynamic parameters for 6-degree-of-freedom (6-DOF) simulations, for a range of MMEEV designs. The range of MMEEVs tested was from 1.8m down to 1.2m diameter. A backshell extender provided the ability to test a design with a much larger payload for the 1.2m MMEEV.

Dynamic Multi-Rigid-Body Systems with Concurrent Distributed Contacts: Theory and Examples

International Nuclear Information System (INIS)

TRINKLE, JEFFREY C.; TZITZOURIS, J.A.; PANG, J.S.

2001-01-01

Consider a system of rigid bodies with multiple concurrent contacts. The multi-rigid-body contact problem is to predict the accelerations of the bodies and the normal friction loads acting at the contacts. This paper presents theoretical results for the multi-rigid-body contact problem under the assumptions that one or more contacts occur over locally planar, finite regions and that friction forces are consistent with the maximum work inequality. Existence and uniqueness results are presented for this problem under mild assumptions on the system inputs. In addition, the performance of two different time-stepping methods for integrating the dynamics are compared on two simple multi-body systems

MULTI-LAYER MIRROR FOR RADIATION IN THE XUV WAVELENGHT RANGE AND METHOD FOR MANUFACTURE THEREOF

NARCIS (Netherlands)

Bijkerk, Frederik; Louis, Eric; Kessels, M.J.H.; Verhoeven, Jan; Den Hartog, Harmen Markus Johannes

2002-01-01

Multi-layer mirror for radiation with a wavelength in the wavelength range between 0.1 nm and 30 nm (the so-called XUV range), comprising a stack of thin films substantially comprising scattering particles which scatter the radiation, which thin films are separated by separating layers with a

Dynamic analysis of multiple nuclear-coupled boiling channels based on a multi-point reactor model

International Nuclear Information System (INIS)

Lee, J.D.; Pan Chin

2005-01-01

This work investigates the non-linear dynamics and stabilities of a multiple nuclear-coupled boiling channel system based on a multi-point reactor model using the Galerkin nodal approximation method. The nodal approximation method for the multiple boiling channels developed by Lee and Pan [Lee, J.D., Pan, C., 1999. Dynamics of multiple parallel boiling channel systems with forced flows. Nucl. Eng. Des. 192, 31-44] is extended to address the two-phase flow dynamics in the present study. The multi-point reactor model, modified from Uehiro et al. [Uehiro, M., Rao, Y.F., Fukuda, K., 1996. Linear stability analysis on instabilities of in-phase and out-of-phase modes in boiling water reactors. J. Nucl. Sci. Technol. 33, 628-635], is employed to study a multiple-channel system with unequal steady-state neutron density distribution. Stability maps, non-linear dynamics and effects of major parameters on the multiple nuclear-coupled boiling channel system subject to a constant total flow rate are examined. This study finds that the void-reactivity feedback and neutron interactions among subcores are coupled and their competing effects may influence the system stability under different operating conditions. For those cases with strong neutron interaction conditions, by strengthening the void-reactivity feedback, the nuclear-coupled effect on the non-linear dynamics may induce two unstable oscillation modes, the supercritical Hopf bifurcation and the subcritical Hopf bifurcation. Moreover, for those cases with weak neutron interactions, by quadrupling the void-reactivity feedback coefficient, period-doubling and complex chaotic oscillations may appear in a three-channel system under some specific operating conditions. A unique type of complex chaotic attractor may evolve from the Rossler attractor because of the coupled channel-to-channel thermal-hydraulic and subcore-to-subcore neutron interactions. Such a complex chaotic attractor has the imbedding dimension of 5 and the

Dynamic Blue Light-Inducible T7 RNA Polymerases (Opto-T7RNAPs) for Precise Spatiotemporal Gene Expression Control.

Science.gov (United States)

Baumschlager, Armin; Aoki, Stephanie K; Khammash, Mustafa

2017-11-17

Light has emerged as a control input for biological systems due to its precise spatiotemporal resolution. The limited toolset for light control in bacteria motivated us to develop a light-inducible transcription system that is independent from cellular regulation through the use of an orthogonal RNA polymerase. Here, we present our engineered blue light-responsive T7 RNA polymerases (Opto-T7RNAPs) that show properties such as low leakiness of gene expression in the dark state, high expression strength when induced with blue light, and an inducible range of more than 300-fold. Following optimization of the system to reduce expression variability, we created a variant that returns to the inactive dark state within minutes once the blue light is turned off. This allows for precise dynamic control of gene expression, which is a key aspect for most applications using optogenetic regulation. The regulators, which only require blue light from ordinary light-emitting diodes for induction, were developed and tested in the bacterium Escherichia coli, which is a crucial cell factory for biotechnology due to its fast and inexpensive cultivation and well understood physiology and genetics. Opto-T7RNAP, with minor alterations, should be extendable to other bacterial species as well as eukaryotes such as mammalian cells and yeast in which the T7 RNA polymerase and the light-inducible Vivid regulator have been shown to be functional. We anticipate that our approach will expand the applicability of using light as an inducer for gene expression independent from cellular regulation and allow for a more reliable dynamic control of synthetic and natural gene networks.

The dynamic landscape of gene regulation during Bombyx mori oogenesis.

Science.gov (United States)

Zhang, Qiang; Sun, Wei; Sun, Bang-Yong; Xiao, Yang; Zhang, Ze

2017-09-11

Oogenesis in the domestic silkworm (Bombyx mori) is a complex process involving previtellogenesis, vitellogenesis and choriogenesis. During this process, follicles show drastic morphological and physiological changes. However, the genome-wide regulatory profiles of gene expression during oogenesis remain to be determined. In this study, we obtained time-series transcriptome data and used these data to reveal the dynamic landscape of gene regulation during oogenesis. A total of 1932 genes were identified to be differentially expressed among different stages, most of which occurred during the transition from late vitellogenesis to early choriogenesis. Using weighted gene co-expression network analysis, we identified six stage-specific gene modules that correspond to multiple regulatory pathways. Strikingly, the biosynthesis pathway of the molting hormone 20-hydroxyecdysone (20E) was enriched in one of the modules. Further analysis showed that the ecdysteroid 20-hydroxylase gene (CYP314A1) of steroidgenesis genes was mainly expressed in previtellogenesis and early vitellogenesis. However, the 20E-inactivated genes, particularly the ecdysteroid 26-hydroxylase encoding gene (Cyp18a1), were highly expressed in late vitellogenesis. These distinct expression patterns between 20E synthesis and catabolism-related genes might ensure the rapid decline of the hormone titer at the transition point from vitellogenesis to choriogenesis. In addition, we compared landscapes of gene regulation between silkworm (Lepidoptera) and fruit fly (Diptera) oogeneses. Our results show that there is some consensus in the modules of gene co-expression during oogenesis in these insects. The data presented in this study provide new insights into the regulatory mechanisms underlying oogenesis in insects with polytrophic meroistic ovaries. The results also provide clues for further investigating the roles of epigenetic reconfiguration and circadian rhythm in insect oogenesis.

Neighborhood characteristics influence DNA methylation of genes involved in stress response and inflammation: The Multi-Ethnic Study of Atherosclerosis.

Science.gov (United States)

Smith, Jennifer A; Zhao, Wei; Wang, Xu; Ratliff, Scott M; Mukherjee, Bhramar; Kardia, Sharon L R; Liu, Yongmei; Roux, Ava V Diez; Needham, Belinda L

2017-08-01

Living in a disadvantaged neighborhood is associated with poor health outcomes even after accounting for individual-level socioeconomic factors. The chronic stress of unfavorable neighborhood conditions may lead to dysregulation of the stress reactivity and inflammatory pathways, potentially mediated through epigenetic mechanisms such as DNA methylation. We used multi-level models to examine the relationship between 2 neighborhood conditions and methylation levels of 18 genes related to stress reactivity and inflammation in purified monocytes from 1,226 participants of the Multi-Ethnic Study of Atherosclerosis (MESA), a population-based sample of US adults. Neighborhood socioeconomic disadvantage, a summary of 16 census-based metrics, was associated with DNA methylation [False discovery rate (FDR) q-value ≤ 0.1] in 2 out of 7 stress-related genes evaluated (CRF, SLC6A4) and 2 out of 11 inflammation-related genes (F8, TLR1). Neighborhood social environment, a summary measure of aesthetic quality, safety, and social cohesion, was associated with methylation in 4 of the 7 stress-related genes (AVP, BDNF, FKBP5, SLC6A4) and 7 of the 11 inflammation-related genes (CCL1, CD1D, F8, KLRG1, NLRP12, SLAMF7, TLR1). High socioeconomic disadvantage and worse social environment were primarily associated with increased methylation. In 5 genes with significant associations between neighborhood and methylation (FKBP5, CD1D, F8, KLRG1, NLRP12), methylation was associated with gene expression of at least one transcript. These results demonstrate that multiple dimensions of neighborhood context may influence methylation levels and subsequent gene expression of stress- and inflammation-related genes, even after accounting for individual socioeconomic factors. Further elucidating the molecular mechanisms underlying these relationships will be important for understanding the etiology of health disparities.

Short Term Strategies for a Dynamic Multi-Period Routing Problem

NARCIS (Netherlands)

Angelelli, E.; Bianchessi, N.; Mansini, R.; Speranza, M. G.

2009-01-01

We consider a Dynamic Multi-Period Routing Problem (DMPRP) faced by a company which deals with on-line pick-up requests and has to serve them by a fleet of uncapacitated vehicles over a finite time horizon. When a request is issued, a deadline of a given number of days d ≤ 2 is associated to it: if

Instructional Materials Physics High School with Multi Representation Approach

Directory of Open Access Journals (Sweden)

Yuvita Widi Astuti

2014-06-01

Full Text Available Bahan Ajar Fisika SMA dengan Pendekatan Multi Representasi Abstract: One effort to improve understanding of concepts and problem-solving skills in learning physics is to provide instructional materials in accordance with the characteristics of the students and help students learn. The purpose of this study are: (1 developing a high school physics teaching materials especially materials Rotation Dynamics and Equilibrium Rigid objects using multiple representations approach to improve the understanding of physics concepts, (2 test the effectiveness of instructional materials development results. This research method is the development of research using Dick & Carey model tailored to the needs of research. The research instrument used in the form of feasibility questionnaire. The type of data that is obtained is quantitative data and qualitative data. Experimental results show that the result of the development of teaching materials can be categorized as very feasible. Results of field trials showed that: (1 most of the students in the experimental class above KKM obtain test results, (2 the results of the experimental class postes greater than the control class, so that teaching materials said to be effective, but not significant to improve the understanding of physics concepts. Key Words: teaching materials, multi-representation, the rotational dynamics Abstrak: Salah satu upaya untuk meningkatkan pemahaman konsep dan kemampuan memecahkan masalah dalam pembelajaran fisika adalah dengan menyediakan bahan ajar yang sesuai dengan karakteristik siswa dan memudahkan siswa dalam belajar. Tujuan dari penelitian ini adalah: (1 mengembangkan bahan ajar fisika SMA khususnya materi Dinamika Rotasi dan Kesetimbangan Benda Tegar menggunakan pendekatan multi representasi untuk meningkatkan pemahaman konsep fisika, (2 menguji efektifitas bahan ajar hasil pengembangan. Metode penelitian ini adalah penelitian pengembangan menggunakan model Dick & Carey yang

Effect of Cyclic Dynamic Compressive Loading on Chondrocytes and Adipose-Derived Stem Cells Co-Cultured in Highly Elastic Cryogel Scaffolds

Directory of Open Access Journals (Sweden)

Chih-Hao Chen

2018-01-01

Full Text Available In this study, we first used gelatin/chondroitin-6-sulfate/hyaluronan/chitosan highly elastic cryogels, which showed total recovery from large strains during repeated compression cycles, as 3D scaffolds to study the effects of cyclic dynamic compressive loading on chondrocyte gene expression and extracellular matrix (ECM production. Dynamic culture of porcine chondrocytes was studied at 1 Hz, 10% to 40% strain and 1 to 9 h/day stimulation duration, in a mechanical-driven multi-chamber bioreactor for 14 days. From the experimental results, we could identify the optimum dynamic culture condition (20% and 3 h/day to enhance the chondrocytic phenotype of chondrocytes from the expression of marker (Col I, Col II, Col X, TNF-α, TGF-β1 and IGF-1 genes by quantitative real-time polymerase chain reactions (qRT-PCR and production of ECM (GAGs and Col II by biochemical analysis and immunofluorescence staining. With up-regulated growth factor (TGF-β1 and IGF-1 genes, co-culture of chondrocytes with porcine adipose-derived stem cells (ASCs was employed to facilitate chondrogenic differentiation of ASCs during dynamic culture in cryogel scaffolds. By replacing half of the chondrocytes with ASCs during co-culture, we could obtain similar production of ECM (GAGs and Col II and expression of Col II, but reduced expression of Col I, Col X and TNF-α. Subcutaneous implantation of cells/scaffold constructs in nude mice after mono-culture (chondrocytes or ASCs or co-culture (chondrocytes + ASCs and subject to static or dynamic culture condition in vitro for 14 days was tested for tissue-engineering applications. The constructs were retrieved 8 weeks post-implantation for histological analysis by Alcian blue, Safranin O and Col II immunohistochemical staining. The most abundant ectopic cartilage tissue was found for the chondrocytes and chondrocytes + ASCs groups using dynamic culture, which showed similar neo-cartilage formation capability with half of the

Sequential Logic Model Deciphers Dynamic Transcriptional Control of Gene Expressions

Science.gov (United States)

Yeo, Zhen Xuan; Wong, Sum Thai; Arjunan, Satya Nanda Vel; Piras, Vincent; Tomita, Masaru; Selvarajoo, Kumar; Giuliani, Alessandro; Tsuchiya, Masa

2007-01-01

Background Cellular signaling involves a sequence of events from ligand binding to membrane receptors through transcription factors activation and the induction of mRNA expression. The transcriptional-regulatory system plays a pivotal role in the control of gene expression. A novel computational approach to the study of gene regulation circuits is presented here. Methodology Based on the concept of finite state machine, which provides a discrete view of gene regulation, a novel sequential logic model (SLM) is developed to decipher control mechanisms of dynamic transcriptional regulation of gene expressions. The SLM technique is also used to systematically analyze the dynamic function of transcriptional inputs, the dependency and cooperativity, such as synergy effect, among the binding sites with respect to when, how much and how fast the gene of interest is expressed. Principal Findings SLM is verified by a set of well studied expression data on endo16 of Strongylocentrotus purpuratus (sea urchin) during the embryonic midgut development. A dynamic regulatory mechanism for endo16 expression controlled by three binding sites, UI, R and Otx is identified and demonstrated to be consistent with experimental findings. Furthermore, we show that during transition from specification to differentiation in wild type endo16 expression profile, SLM reveals three binary activities are not sufficient to explain the transcriptional regulation of endo16 expression and additional activities of binding sites are required. Further analyses suggest detailed mechanism of R switch activity where indirect dependency occurs in between UI activity and R switch during specification to differentiation stage. Conclusions/Significance The sequential logic formalism allows for a simplification of regulation network dynamics going from a continuous to a discrete representation of gene activation in time. In effect our SLM is non-parametric and model-independent, yet providing rich biological