Optical design for the Laser Astrometric Test of Relativity

Science.gov (United States)

Turyshev, Slava G.; Shao, Michael; Nordtvedt, Kenneth L., Jr.

2004-01-01

This paper discusses the Laser Astrometric Test of Relativity (LATOR) mission. LATOR is a Michelson-Morley-type experiment designed to test the pure tensor metric nature of gravitation the fundamental postulate of Einstein's theory of general relativity. With its focus on gravity's action on light propagation it complements other tests which rely on the gravitational dynamics of bodies.

Analyses of the Short Periodical Part of the Spectrum of Pole Coordinate Variations Determined by the Astrometric and Laser Technique

Science.gov (United States)

Kołaczek, B.; Kosek, W.; Galas, R.

Series of BIH astrometric (BIH-ASTR) pole coordinates and of CSR LAGEOS laser ranging (CSR-LALAR) pole coordinates determined in the MERIT Campaign in the years 1972 - 1986, 1983 - 1986, respectively, have been filtered by different band pass filters consisting of the law pass Gauss filter and of the high pass Butterworth filter. Filtered residuals were analysed by the MESA-Maximum Entropy Spectra Analysis and by the Ormsby narrow band pass filters in order to find numerically modeled signals approximating these residuals in the best way.

VLBI FOR GRAVITY PROBE B. IV. A NEW ASTROMETRIC ANALYSIS TECHNIQUE AND A COMPARISON WITH RESULTS FROM OTHER TECHNIQUES

International Nuclear Information System (INIS)

Lebach, D. E.; Ratner, M. I.; Shapiro, I. I.; Bartel, N.; Bietenholz, M. F.; Lederman, J. I.; Ransom, R. R.; Campbell, R. M.; Gordon, D.; Lestrade, J.-F.

2012-01-01

When very long baseline interferometry (VLBI) observations are used to determine the position or motion of a radio source relative to reference sources nearby on the sky, the astrometric information is usually obtained via (1) phase-referenced maps or (2) parametric model fits to measured fringe phases or multiband delays. In this paper, we describe a 'merged' analysis technique which combines some of the most important advantages of these other two approaches. In particular, our merged technique combines the superior model-correction capabilities of parametric model fits with the ability of phase-referenced maps to yield astrometric measurements of sources that are too weak to be used in parametric model fits. We compare the results from this merged technique with the results from phase-referenced maps and from parametric model fits in the analysis of astrometric VLBI observations of the radio-bright star IM Pegasi (HR 8703) and the radio source B2252+172 nearby on the sky. In these studies we use central-core components of radio sources 3C 454.3 and B2250+194 as our positional references. We obtain astrometric results for IM Peg with our merged technique even when the source is too weak to be used in parametric model fits, and we find that our merged technique yields astrometric results superior to the phase-referenced mapping technique. We used our merged technique to estimate the proper motion and other astrometric parameters of IM Peg in support of the NASA/Stanford Gravity Probe B mission.

Quantum astrometric observables I: time delay in classical and quantum gravity

NARCIS (Netherlands)

Khavkine, I.

2012-01-01

A class of diffeomorphism invariant, physical observables, so-called astrometric observables, is introduced. A particularly simple example, the time delay, which expresses the difference between two initially synchronized proper time clocks in relative inertial motion, is analyzed in detail. It is

The astrometric lessons of Gaia-GBOT experiment

Science.gov (United States)

Bouquillon, S.; Mendez, R. A.; Altmann, M.

2017-07-01

To ensure the full capabilities of the Gaia's measurements, a programme of daily observations with Earth-based telescopes of the satellite itself - called Ground Based Optical Tracking (GBOT) - was implemented since the beginning of the Gaia mission (for more details concerning GBOT operating see Altmann et al. 2014 and concerning GBOT software facilities see Bouquillon et al. 2014). These observations are carried out mainly with two facilities: the 2.6m VLT Survey Telescope (ESO's VST) at the Cerro Paranal in Chile and the 2.0m Liverpool Telescope (LT) on the Canary Island of La Palma. The constraint of 20 mas on the tracking astrometric quality and the fact that Gaia is a faint and relatively fast moving target (its magnitude in a red passband is around 21 and its apparent speed around 0.04"/s), lead us to rigorously analyse the reachable astrometric precision for CCD observations of this kind of celestial objects. During LARIM 2016, we presented the main results of this study which uses the Cramér-Rao lower bound to characterize the precision limit for the PSF center when drifting in the CCD-frame. This work extends earlier studies dealing with one-dimensional detectors and stationary sources (Mendez et al. 2013 & 2014) firstly to the case of standard two-dimensional CCD sensors, and then, to moving sources. These new results have been submitted for a publication in A&A journal this year (Bouquillon et al. 2017).

SignalSpider: Probabilistic pattern discovery on multiple normalized ChIP-Seq signal profiles

KAUST Repository

Wong, Kachun

2014-09-05

Motivation: Chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIP-Seq) measures the genome-wide occupancy of transcription factors in vivo. Different combinations of DNA-binding protein occupancies may result in a gene being expressed in different tissues or at different developmental stages. To fully understand the functions of genes, it is essential to develop probabilistic models on multiple ChIP-Seq profiles to decipher the combinatorial regulatory mechanisms by multiple transcription factors. Results: In this work, we describe a probabilistic model (SignalSpider) to decipher the combinatorial binding events of multiple transcription factors. Comparing with similar existing methods, we found SignalSpider performs better in clustering promoter and enhancer regions. Notably, SignalSpider can learn higher-order combinatorial patterns from multiple ChIP-Seq profiles. We have applied SignalSpider on the normalized ChIP-Seq profiles from the ENCODE consortium and learned model instances. We observed different higher-order enrichment and depletion patterns across sets of proteins. Those clustering patterns are supported by Gene Ontology (GO) enrichment, evolutionary conservation and chromatin interaction enrichment, offering biological insights for further focused studies. We also proposed a specific enrichment map visualization method to reveal the genome-wide transcription factor combinatorial patterns from the models built, which extend our existing fine-scale knowledge on gene regulation to a genome-wide level. Availability and implementation: The matrix-algebra-optimized executables and source codes are available at the authors\\' websites: http://www.cs.toronto.edu/∼wkc/SignalSpider. Contact: Supplementary information: Supplementary data are available at Bioinformatics online.

On an Allan variance approach to classify VLBI radio-sources on the basis of their astrometric stability

Science.gov (United States)

Gattano, C.; Lambert, S.; Bizouard, C.

2017-12-01

In the context of selecting sources defining the celestial reference frame, we compute astrometric time series of all VLBI radio-sources from observations in the International VLBI Service database. The time series are then analyzed with Allan variance in order to estimate the astrometric stability. From results, we establish a new classification that takes into account the whole multi-time scales information. The algorithm is flexible on the definition of ``stable source" through an adjustable threshold.

Magnetic Field Studies in BL Lacertae through Faraday Rotation and a Novel Astrometric Technique

Directory of Open Access Journals (Sweden)

Sol N. Molina

2017-12-01

Full Text Available It is thought that dynamically important helical magnetic fields twisted by the differential rotation of the black hole’s accretion disk or ergosphere play an important role in the launching, acceleration, and collimation of active galactic nuclei (AGN jets. We present multi-frequency astrometric and polarimetric Very Long Baseline Array (VLBA images at 15, 22, and 43 GHz, as well as Faraday rotation analyses of the jet in BL Lacertae as part of a sample of AGN jets aimed to probe the magnetic field structure at the innermost scales to test jet formation models. The novel astrometric technique applied allows us to obtain the absolute position at mm wavelengths without any external calibrator.

Astrometric and photometric study of the open cluster NGC 2323

Directory of Open Access Journals (Sweden)

Amin M.Y.

2017-01-01

Full Text Available We present a study of the open cluster NGC 2323 using astrometric and photometric data. In our study we used two methods that are able to separate open cluster’s stars from those that belong to the stellar background. Our results of calculations by these two methods indicate that: 1 according to the membership probability, NGC 2323 should contain 497 stars, 2 the cluster center should be at 07h 02m 48.s02 and -08° 20' 17''74,3 the limiting radius of NGC 2323 is 2.31 ± 0.04 pc, the surface number density at this radius is 98.16 stars pc −2, 4 the magnitude function has a maximum at about mv = 14 mag, 5 the total mass of NGC 2323 is estimated dynamically by using astrometric data to be 890 M_, and statistically by using photometric data to be 900 M_, and 6 the distance and age of the cluster are found to be equal to 900 ± 100 pc, and 140 ± 20 Myr, respectively. Finally the dynamical evolution parameter τ of the cluster is about 436.2.

High Astrometric Precision in the Calculation of the Coordinates of Orbiters in the GEO Ring

Science.gov (United States)

Lacruz, E.; Abad, C.; Downes, J. J.; Hernández-Pérez, F.; Casanova, D.; Tresaco, E.

2018-04-01

We present an astrometric method for the calculation of the positions of orbiters in the GEO ring with a high precision, through a rigorous astrometric treatment of observations with a 1-m class telescope, which are part of the CIDA survey of the GEO ring. We compute the distortion pattern to correct for the systematic errors introduced by the optics and electronics of the telescope, resulting in absolute mean errors of 0.16″ and 0.12″ in right ascension and declination, respectively. These correspond to ≍25 m at the mean distance of the GEO ring, and are thus good quality results.

Properties of comet Halley derived from thermal models and astrometric data

International Nuclear Information System (INIS)

Hechler, F.W.; Morley, T.A.; Mahr, P.

1986-01-01

The motion of a comet nucleus is influenced by outgassing forces. The orbit determination from astrometric data of comet Halley using empiric force and observation bias models and the incorporation of thermal models developed at ESOC into the orbit determination allows to draw some conclusions on the comet Halley dynamics and physics. 21 references

Astrometric detectability of systems with unseen companions: effects of the Earth orbital motion

Science.gov (United States)

Butkevich, Alexey G.

2018-06-01

The astrometric detection of an unseen companion is based on an analysis of the apparent motion of its host star around the system's barycentre. Systems with an orbital period close to 1 yr may escape detection if the orbital motion of their host stars is observationally indistinguishable from the effects of parallax. Additionally, an astrometric solution may produce a biased parallax estimation for such systems. We examine the effects of the orbital motion of the Earth on astrometric detectability in terms of a correlation between the Earth's orbital position and the position of the star relative to its system barycentre. The χ2 statistic for parallax estimation is calculated analytically, leading to expressions that relate the decrease in detectability and accompanying parallax bias to the position correlation function. The impact of the Earth's motion critically depends on the exoplanet's orbital period, diminishing rapidly as the period deviates from 1 yr. Selection effects against 1-yr-period systems is, therefore, expected. Statistical estimation shows that the corresponding loss of sensitivity results in a typical 10 per cent increase in the detection threshold. Consideration of eccentric orbits shows that the Earth's motion has no effect on detectability for e≳ 0.5. The dependence of the detectability on other parameters, such as orbital phases and inclination of the orbital plane to the ecliptic, are smooth and monotonic because they are described by simple trigonometric functions.

Preliminary Astrometric Results from the PS1 Demo Month and Routine Survey Operations

Science.gov (United States)

2010-09-01

with the  2MASS  catalog 3 to  produce preliminary astrometric solutions.  Using these  coordinates, the NOFS astrometric pipeline correlates PS1...objects with other catalogs (USNO‐B1.0, SDSS, Tycho‐2,  2MASS , etc.) so that unique star identification numbers can  be assigned across all catalogs. This...correlated  pair, and the standard deviation for these pairings is about  0.3 arcsec.  Whereas the  2MASS  catalog error for a brighter  star is believed to be

The science, technology and mission design for the Laser Astrometric test of relativity

Science.gov (United States)

Turyshev, Slava G.

2006-01-01

The Laser Astrometric Test of Relativity (LATOR) is a Michelson-Morley-type experiment designed to test the Einstein's general theory of relativity in the most intense gravitational environment available in the solar system - the close proximity to the Sun.

PACMAN: PRIMA astrometric instrument software

Science.gov (United States)

Abuter, Roberto; Sahlmann, Johannes; Pozna, Eszter

2010-07-01

The dual feed astrometric instrument software of PRIMA (PACMAN) that is currently being integrated at the VLTI will use two spatially modulated fringe sensor units and a laser metrology system to carry out differential astrometry. Its software and hardware compromises a distributed system involving many real time computers and workstations operating in a synchronized manner. Its architecture has been designed to allow the construction of efficient and flexible calibration and observation procedures. In parallel, a novel scheme of integrating M-code (MATLAB/OCTAVE) with standard VLT (Very Large Telescope) control software applications had to be devised in order to support numerically intensive operations and to have the capacity of adapting to fast varying strategies and algorithms. This paper presents the instrument software, including the current operational sequences for the laboratory calibration and sky calibration. Finally, a detailed description of the algorithms with their implementation, both under M and C code, are shown together with a comparative analysis of their performance and maintainability.

Detailed Astrometric Analysis of Pluto

Science.gov (United States)

ROSSI, GUSTAVO B.; Vieira-Martins, R.; Camargo, J. I.; Assafin, M.

2013-05-01

Abstract (2,250 Maximum Characters): Pluto is the main representant of the transneptunian objects (TNO's), presenting some peculiarities such as an atmosphere and a satellite system with 5 known moons: Charon, discovered in 1978, Nix and Hydra, in 2006, P4 in 2011 and P5 in 2012. Until the arrival of the New Horizons spacecraft to this system (july 2015), stellar occultations are the most efficient method, from the ground, to know physical and dinamical properties of this system. In 2010, it was evident a drift in declinations (about 20 mas/year) comparing to the ephemerides. This fact motivated us to remake the reductions and analysis of a great set of our observations at OPD/LNA, in a total of 15 years. The ephemerides and occultations results was then compared with the astrometric and photometric reductions of CCD images of Pluto (around 6500 images). Two corrections were used for a refinement of the data set: diferential chromatic refraction and photocenter. The first is due to the mean color of background stars beeing redder than the color of Pluto, resulting in a slightly different path of light through the atmosphere (that may cause a difference in position of 0.1”). It became more evident because Pluto is crossing the region of the galactic plane. The photocenter correction is based on two gaussians curves overlapped, with different hights and non-coincident centers, corresponding to Pluto and Charon (since they have less than 1” of angular separation). The objective is to separate these two gaussian curves from the observed one and find the right position of Pluto. The method is strongly dependent of the hight of each of the gaussian curves, related to the respective albedos of charon and Pluto. A detailed analysis of the astrometric results, as well a comparison with occultation results was made. Since Pluto has an orbital period of 248,9 years and our interval of observation is about 15 years, we have around 12% of its observed orbit and also, our

Implementing the Gaia Astrometric Global Iterative Solution (AGIS) in Java

OpenAIRE

O'Mullane, William; Lammers, Uwe; Lindegren, Lennart; Hernandez, Jose; Hobbs, David

2011-01-01

This paper provides a description of the Java software framework which has been constructed to run the Astrometric Global Iterative Solution for the Gaia mission. This is the mathematical framework to provide the rigid reference frame for Gaia observations from the Gaia data itself. This process makes Gaia a self calibrated, and input catalogue independent, mission. The framework is highly distributed typically running on a cluster of machines with a database back end. All code is written in ...

Tycho- Gaia Astrometric Solution Parallaxes and Proper Motions for Five Galactic Globular Clusters

Energy Technology Data Exchange (ETDEWEB)

Watkins, Laura L.; Van der Marel, Roeland P., E-mail: lwatkins@stsci.edu [Space Telescope Science Institute, 3700 San Martin Drive, Baltimore MD 21218 (United States)

2017-04-20

We present a pilot study of Galactic globular cluster (GC) proper motion (PM) determinations using Gaia data. We search for GC stars in the Tycho- Gaia Astrometric Solution (TGAS) catalog from Gaia Data Release 1 (DR1), and identify five members of NGC 104 (47 Tucanae), one member of NGC 5272 (M3), five members of NGC 6121 (M4), seven members of NGC 6397, and two members of NGC 6656 (M22). By taking a weighted average of member stars, fully accounting for the correlations between parameters, we estimate the parallax (and, hence, distance) and PM of the GCs. This provides a homogeneous PM study of multiple GCs based on an astrometric catalog with small and well-controlled systematic errors and yields random PM errors similar to existing measurements. Detailed comparison to the available Hubble Space Telescope ( HST ) measurements generally shows excellent agreement, validating the astrometric quality of both TGAS and HST . By contrast, comparison to ground-based measurements shows that some of those must have systematic errors exceeding the random errors. Our parallax estimates have uncertainties an order of magnitude larger than previous studies, but nevertheless imply distances consistent with previous estimates. By combining our PM measurements with literature positions, distances, and radial velocities, we measure Galactocentric space motions for the clusters and find that these also agree well with previous analyses. Our analysis provides a framework for determining more accurate distances and PMs of Galactic GCs using future Gaia data releases. This will provide crucial constraints on the near end of the cosmic distance ladder and provide accurate GC orbital histories.

Improving the Astrometric Calibration of ACS/WFC for the Most Useful Filters

Science.gov (United States)

Anderson, Jay

2004-07-01

The distortion correction for the WFC, with which most ACS astrometry is done, is filter-dependent, and is not sufficiently accurate for the most useful filters to the community, F606W and F814W. We propose to derive improved corrections using 1 orbit for each filter. A by-product will be an astrometric standard field at the center of Omega Centauri.

What stellar orbit is needed to measure the spin of the Galactic centre black hole from astrometric data?

Science.gov (United States)

Waisberg, Idel; Dexter, Jason; Gillessen, Stefan; Pfuhl, Oliver; Eisenhauer, Frank; Plewa, Phillip M.; Bauböck, Michi; Jimenez-Rosales, Alejandra; Habibi, Maryam; Ott, Thomas; von Fellenberg, Sebastiano; Gao, Feng; Widmann, Felix; Genzel, Reinhard

2018-05-01

Astrometric and spectroscopic monitoring of individual stars orbiting the supermassive black hole in the Galactic Center offer a promising way to detect general relativistic effects. While low-order effects are expected to be detected following the periastron passage of S2 in Spring 2018, detecting higher order effects due to black hole spin will require the discovery of closer stars. In this paper, we set out to determine the requirements such a star would have to satisfy to allow the detection of black hole spin. We focus on the instrument GRAVITY, which saw first light in 2016 and which is expected to achieve astrometric accuracies 10-100 μas. For an observing campaign with duration T years, total observations Nobs, astrometric precision σx, and normalized black hole spin χ, we find that a_orb(1-e^2)^{3/4} ≲ 300 R_S √{T/4 {yr}} (N_obs/120)^{0.25} √{10 μ as/σ _x} √{χ /0.9} is needed. For χ = 0.9 and a potential observing campaign with σ _x = 10 μas, 30 observations yr-1 and duration 4-10 yr, we expect ˜0.1 star with K < 19 satisfying this constraint based on the current knowledge about the stellar population in the central 1 arcsec. We also propose a method through which GRAVITY could potentially measure radial velocities with precision ˜50 km s-1. If the astrometric precision can be maintained, adding radial velocity information increases the expected number of stars by roughly a factor of 2. While we focus on GRAVITY, the results can also be scaled to parameters relevant for future extremely large telescopes.

Double-blind test program for astrometric planet detection with Gaia

Science.gov (United States)

Casertano, S.; Lattanzi, M. G.; Sozzetti, A.; Spagna, A.; Jancart, S.; Morbidelli, R.; Pannunzio, R.; Pourbaix, D.; Queloz, D.

2008-05-01

Aims: The scope of this paper is twofold. First, it describes the simulation scenarios and the results of a large-scale, double-blind test campaign carried out to estimate the potential of Gaia for detecting and measuring planetary systems. The identified capabilities are then put in context by highlighting the unique contribution that the Gaia exoplanet discoveries will be able to bring to the science of extrasolar planets in the next decade. Methods: We use detailed simulations of the Gaia observations of synthetic planetary systems and develop and utilize independent software codes in double-blind mode to analyze the data, including statistical tools for planet detection and different algorithms for single and multiple Keplerian orbit fitting that use no a priori knowledge of the true orbital parameters of the systems. Results: 1) Planets with astrometric signatures α≃ 3 times the assumed single-measurement error σ_ψ and period P≤ 5 yr can be detected reliably and consistently, with a very small number of false positives. 2) At twice the detection limit, uncertainties in orbital parameters and masses are typically 15-20%. 3) Over 70% of two-planet systems with well-separated periods in the range 0.2≤ P≤ 9 yr, astrometric signal-to-noise ratio 2≤α/σ_ψ≤ 50, and eccentricity e≤ 0.6 are correctly identified. 4) Favorable orbital configurations (both planets with P≤ 4 yr and α/σ_ψ≥ 10, redundancy over a factor of 2 in the number of observations) have orbital elements measured to better than 10% accuracy > 90% of the time, and the value of the mutual inclination angle i_rel determined with uncertainties ≤ 10°. 5) Finally, nominal uncertainties obtained from the fitting procedures are a good estimate of the actual errors in the orbit reconstruction. Extrapolating from the present-day statistical properties of the exoplanet sample, the results imply that a Gaia with σ_ψ = 8 μas, in its unbiased and complete magnitude-limited census of

Implementing the Gaia Astrometric Global Iterative Solution (AGIS) in Java

Science.gov (United States)

O'Mullane, William; Lammers, Uwe; Lindegren, Lennart; Hernandez, Jose; Hobbs, David

2011-10-01

This paper provides a description of the Java software framework which has been constructed to run the Astrometric Global Iterative Solution for the Gaia mission. This is the mathematical framework to provide the rigid reference frame for Gaia observations from the Gaia data itself. This process makes Gaia a self calibrated, and input catalogue independent, mission. The framework is highly distributed typically running on a cluster of machines with a database back end. All code is written in the Java language. We describe the overall architecture and some of the details of the implementation.

Gravitational lensing statistics with extragalactic surveys - II. Analysis of the Jodrell Bank-VLA Astrometric Survey

NARCIS (Netherlands)

Helbig, P; Marlow, D; Quast, R; Wilkinson, PN; Browne, IWA; Koopmans, LVE

We present constraints on the cosmological constant lambda(0) from gravitational lensing statistics of the Jodrell Bank-VLA Astrometric Survey (JVAS). Although this is the largest gravitational lens survey which has been analysed, cosmological constraints are only comparable to those from optical

Gravitational lensing statistics with extragalactic surveys; 2, Analysis of the Jodrell Bank-VLA Astrometric Survey

NARCIS (Netherlands)

Helbig, P.; Marlow, D. R.; Quast, R.; Wilkinson, P. N.; Browne, I. W. A.; Koopmans, L. V. E.

1999-01-01

Published in: Astron. Astrophys. Suppl. Ser. 136 (1999) no. 2, pp.297-305 citations recorded in [Science Citation Index] Abstract: We present constraints on the cosmological constant $lambda_{0}$ from gravitational lensing statistics of the Jodrell Bank-VLA Astrometric Survey (JVAS). Although this

Enhanced Phosphoproteomic Profiling Workflow For Growth Factor Signaling Analysis

DEFF Research Database (Denmark)

Sylvester, Marc; Burbridge, Mike; Leclerc, Gregory

2010-01-01

Background Our understanding of complex signaling networks is still fragmentary. Isolated processes have been studied extensively but cross-talk is omnipresent and precludes intuitive predictions of signaling outcomes. The need for quantitative data on dynamic systems is apparent especially for our...... understanding of pathological processes. In our study we create and integrate data on phosphorylations that are initiated by several growth factor receptors. We present an approach for quantitative, time-resolved phosphoproteomic profiling that integrates the important contributions by phosphotyrosines. Methods...

VizieR Online Data Catalog: HD 128311 radial velocity and astrometric data (McArthur+, 2014)

Science.gov (United States)

McArthur, B. E.; Benedict, G. F.; Henry, G. W.; Hatzes, A.; Cochran, W. D.; Harrison, T. E.; Johns-Krull, C.; Nelan, E.

2017-05-01

The High Resolution Spectrograph (HRS; Tull, 1998SPIE.3355..387T) at the HET at McDonald Observatory was used to make the spectroscopic observations using the iodine absorption cell method (Butler et al. 1996PASP..108..500B). Our reduction of HET HRS data is given in Bean et al. (2007AJ....134..749B), which uses the REDUCE package (Piskunov & Valenti, 2002A&A...385.1095P). Our observations include a total of 355 high-resolution spectra which were obtained between 2005 April and 2011 January. Because typically two or more observations were made in less than 1 hr per night, we observed at 161 epochs with the HET HRS. The astrometric observations were made with the Hubble Space Telescope (HST) Fine Guidance Sensor (FGS) 1r, a two-axis interferometer, in position (POS) "fringe-tracking" mode. Twenty-nine orbits of HST astrometric observations were made between 2007 December and 2009 August. (2 data files).

Astrometric surveys in the Gaia era

Science.gov (United States)

Zacharias, Norbert

2018-04-01

The Gaia first data release (DR1) already provides an almost error free optical reference frame on the milli-arcsecond (mas) level allowing significantly better calibration of ground-based astrometric data than ever before. Gaia DR1 provides positions, proper motions and trigonometric parallaxes for just over 2 million stars in the Tycho-2 catalog. For over 1.1 billion additional stars DR1 gives positions. Proper motions for these, mainly fainter stars (G >= 11.5) are currently provided by several new projects which combine earlier epoch ground-based observations with Gaia DR1 positions. These data are very helpful in the interim period but will become obsolete with the second Gaia data release (DR2) expected in April 2018. The era of traditional, ground-based, wide-field astrometry with the goal to provide accurate reference stars has come to an end. Future ground-based astrometry will fill in some gaps (very bright stars, observations needed at many or specific epochs) and mainly will go fainter than the Gaia limit, like the PanSTARRS and the upcoming LSST surveys.

Inverse methods for estimating primary input signals from time-averaged isotope profiles

Science.gov (United States)

Passey, Benjamin H.; Cerling, Thure E.; Schuster, Gerard T.; Robinson, Todd F.; Roeder, Beverly L.; Krueger, Stephen K.

2005-08-01

Mammalian teeth are invaluable archives of ancient seasonality because they record along their growth axes an isotopic record of temporal change in environment, plant diet, and animal behavior. A major problem with the intra-tooth method is that intra-tooth isotope profiles can be extremely time-averaged compared to the actual pattern of isotopic variation experienced by the animal during tooth formation. This time-averaging is a result of the temporal and spatial characteristics of amelogenesis (tooth enamel formation), and also results from laboratory sampling. This paper develops and evaluates an inverse method for reconstructing original input signals from time-averaged intra-tooth isotope profiles. The method requires that the temporal and spatial patterns of amelogenesis are known for the specific tooth and uses a minimum length solution of the linear system Am = d, where d is the measured isotopic profile, A is a matrix describing temporal and spatial averaging during amelogenesis and sampling, and m is the input vector that is sought. Accuracy is dependent on several factors, including the total measurement error and the isotopic structure of the measured profile. The method is shown to accurately reconstruct known input signals for synthetic tooth enamel profiles and the known input signal for a rabbit that underwent controlled dietary changes. Application to carbon isotope profiles of modern hippopotamus canines reveals detailed dietary histories that are not apparent from the measured data alone. Inverse methods show promise as an effective means of dealing with the time-averaging problem in studies of intra-tooth isotopic variation.

HIGH-PRECISION ASTROMETRIC MILLIMETER VERY LONG BASELINE INTERFEROMETRY USING A NEW METHOD FOR MULTI-FREQUENCY CALIBRATION

Energy Technology Data Exchange (ETDEWEB)

Dodson, Richard; Rioja, María J. [International Centre for Radio Astronomy Research, M468, The University of Western Australia, 35 Stirling Hwy, Crawley, Western Australia 6009 (Australia); Molina, Sol N.; Gómez, José L., E-mail: richard.dodson@icrar.org [Instituto de Astrofísica de Andalucía-CSIC, Glorieta de la Astronomía s/n, E-18008 Granada (Spain)

2017-01-10

In this paper we describe a new approach for millimeter Very Long Baseline Interferometry (mm-VLBI) calibration that provides bona-fide astrometric alignment of the millimeter-wavelength images from a single source, for the measurement of frequency-dependent effects, such as “core-shifts” near the black hole of active galactic nucleus jets. We achieve our astrometric alignment by solving first for the ionospheric (dispersive) contributions using wide-band centimeter-wavelength observations. Second, we solve for the tropospheric (non-dispersive) contributions by using fast frequency-switching at the target millimeter-wavelengths. These solutions can be scaled and transferred from low frequency to the high frequency. To complete the calibration chain an additional step is required to remove a residual constant phase offset on each antenna. The result is an astrometric calibration and the measurement of the core-shift between 22 and 43 GHz for the jet in BL Lacertae to be −8 ± 5, 20 ± 6 μ as, in R.A. and decl., respectively. By comparison to conventional phase referencing at centimeter-wavelengths we are able to show that this core shift at millimeter-wavelengths is significantly less than what would be predicted by extrapolating the low-frequency result, which closely followed the predictions of the Blandford and Königl conical jet model. As such it would be the first demonstration for the association of the VLBI core with a recollimation shock, normally hidden at low frequencies due to the optical depth, which could be responsible for the γ -ray production in blazar jets.

HIGH-PRECISION ASTROMETRIC MILLIMETER VERY LONG BASELINE INTERFEROMETRY USING A NEW METHOD FOR MULTI-FREQUENCY CALIBRATION

International Nuclear Information System (INIS)

Dodson, Richard; Rioja, María J.; Molina, Sol N.; Gómez, José L.

2017-01-01

In this paper we describe a new approach for millimeter Very Long Baseline Interferometry (mm-VLBI) calibration that provides bona-fide astrometric alignment of the millimeter-wavelength images from a single source, for the measurement of frequency-dependent effects, such as “core-shifts” near the black hole of active galactic nucleus jets. We achieve our astrometric alignment by solving first for the ionospheric (dispersive) contributions using wide-band centimeter-wavelength observations. Second, we solve for the tropospheric (non-dispersive) contributions by using fast frequency-switching at the target millimeter-wavelengths. These solutions can be scaled and transferred from low frequency to the high frequency. To complete the calibration chain an additional step is required to remove a residual constant phase offset on each antenna. The result is an astrometric calibration and the measurement of the core-shift between 22 and 43 GHz for the jet in BL Lacertae to be −8 ± 5, 20 ± 6 μ as, in R.A. and decl., respectively. By comparison to conventional phase referencing at centimeter-wavelengths we are able to show that this core shift at millimeter-wavelengths is significantly less than what would be predicted by extrapolating the low-frequency result, which closely followed the predictions of the Blandford and Königl conical jet model. As such it would be the first demonstration for the association of the VLBI core with a recollimation shock, normally hidden at low frequencies due to the optical depth, which could be responsible for the γ -ray production in blazar jets.

Nano-JASMINE: use of AGIS for the next astrometric satellite

Science.gov (United States)

Yamada, Y.; Gouda, N.; Lammers, U.

The core data reduction for the Nano-JASMINE mission is planned to be done with Gaia's Astrometric Global Iterative Solution (AGIS). The collaboration started at 2007 prompted by Uwe Lammers' proposal. In addition to similar design and operating principles of the two missions, this is possible thanks to the encapsulation of all Gaia-specific aspects of AGIS in a Parameter Database. Nano-JASMINE will be the test bench for Gaia AGIS software. We present this idea in detail and the necessary practical steps to make AGIS work with Nano-JASMINE data. We also show the key mission parameters, goals, and status of the data reduction for the Nano-JASMINE.

Apparatus for tomography in which signal profiles gathered from divergent radiation can be reconstructed in signal profiles, each corresponding with a beam of parallel rays

International Nuclear Information System (INIS)

1976-01-01

A tomograph which is capable of gathering divergent radiations and reconstruct them in signal profiles or images each corresponding with a beam of parallel rays is discussed which may eliminate the interfering point dispersion function which normally occurs

Astrometric tests of General Relativity in the Solar system

International Nuclear Information System (INIS)

Gai, M; Vecchiato, A; Riva, A; Lattanzi, M G; Sozzetti, A; Crosta, M T; Busonero, D

2014-01-01

Micro-arcsec astronomy is able to verify the predictions of theoretical models of gravitation at a level adequate to constraint relevant parameters and select among different formulations. In particular, this concerns the weak field limit applicable to the Sun neighborhood, where competing models can be expressed in a common framework as the Parametrised Post-Newtonian and Parametrised Post-Post-Newtonian formulations. The mission Gaia is going to provide an unprecedented determination of the γ PPN parameter at the 10 −6 level. Other recently proposed concepts, as GAME, may improve the precision on γ by one or two orders of magnitude and provide constraints on other crucial phenomenological aspects. We review the key concepts of astrometric tests of General Relativity and discuss a possible development scenario

Iterative methods used in overlap astrometric reduction techniques do not always converge

Science.gov (United States)

Rapaport, M.; Ducourant, C.; Colin, J.; Le Campion, J. F.

1993-04-01

In this paper we prove that the classical Gauss-Seidel type iterative methods used for the solution of the reduced normal equations occurring in overlapping reduction methods of astrometry do not always converge. We exhibit examples of divergence. We then analyze an alternative algorithm proposed by Wang (1985). We prove the consistency of this algorithm and verify that it can be convergent while the Gauss-Seidel method is divergent. We conjecture the convergence of Wang method for the solution of astrometric problems using overlap techniques.

ASTROMETRIC MASSES OF 26 ASTEROIDS AND OBSERVATIONS ON ASTEROID POROSITY

International Nuclear Information System (INIS)

Baer, James; Chesley, Steven R.; Matson, Robert D.

2011-01-01

As an application of our recent observational error model, we present the astrometric masses of 26 main-belt asteroids. We also present an integrated ephemeris of 300 large asteroids, which was used in the mass determination algorithm to model significant perturbations from the rest of the main belt. After combining our mass estimates with those of other authors, we study the bulk porosities of over 50 main-belt asteroids and observe that asteroids as large as 300 km in diameter may be loose aggregates. This finding may place specific constraints on models of main-belt collisional evolution. Additionally, we observe that C-group asteroids tend to have significantly higher macroporosity than S-group asteroids.

Signal process and profile reconstruction of stress corrosion crack by eddy current test

International Nuclear Information System (INIS)

Zhang Siquan; Chen Tiequn; Liu Guixiong

2008-01-01

The reconstruction of crack profiles is very important in the NDE (nondestructive evaluation) of critical structures, such as pressure vessel and tubes in heat exchangers. First a wavelet transform signal processing technique is used to reduce noise and other non-defect signals from the signals of crack, and then based on an artificial neural network method, the crack profiles are reconstructed. Although the results reveal that this method is with many advantages such as a short CPU time and precision for reconstruction,it does have some drawbacks, for example, the database generation and network training is a much time consuming work. Moreover, this approach does not expressly reconstruct the distribution of conductivity inside a crack, so the reliability of a reconstructed crack shape is unknown. But in practical application, if we do not consider the multiple cracks, this method can be used to reconstruct the natural crack. (authors)

Astrometric analysis of the unresolved binary MU Cassiopeiae from photographs taken with the Sproul 61 centimeter refractor

International Nuclear Information System (INIS)

Lippincott, S.L.

1981-01-01

Mu Cassiopeiae, a high-velocity Population II subdwarf, is an astrometric binary which has been on the Sproul Observatory astrometric program since 1937. The data yield P = 21.43 yr, with a photocentric semiaxis major, α = 0''.186 +- 0''.001 (p.e) and a relative parallax, π = +0''.130 +- 0''.001. Rigorous masses for the components from the Sproul results will follow in the future only in conjunction with reliable values for Δm and separation derived from other techniques. The best tentative values of Δm and separation so far found suggest M/sub A/ = 0.7 M/sub sun/, and M/sub B/roughly-equal0.2Msun with Δmapprox.4.5, which indicate higher. He content for μ Cas A than for the Sun. The masses are of particular interest because they hold a clue to the chemical composition of the system which is likely to be similar to that in the interstellar medium during the early stages of our Galaxy at the time μ Cas is thought to have originated

Using Gaia as an Astrometric Tool for Deep Ground-based Surveys

Science.gov (United States)

Casetti-Dinescu, Dana I.; Girard, Terrence M.; Schriefer, Michael

2018-04-01

Gaia DR1 positions are used to astrometrically calibrate three epochs' worth of Subaru SuprimeCam images in the fields of globular cluster NGC 2419 and the Sextans dwarf spheroidal galaxy. Distortion-correction ``maps'' are constructed from a combination of offset dithers and reference to Gaia DR1. These are used to derive absolute proper motions in the field of NGC 2419. Notably, we identify the photometrically-detected Monoceros structure in the foreground of NGC 2419 as a kinematically-cold population of stars, distinct from Galactic-field stars. This project demonstrates the feasibility of combining Gaia with deep, ground-based surveys, thus extending high-quality astrometry to magnitudes beyond the limits of Gaia.

To Boldly Go Where No Man has Gone Before: Seeking Gaia's Astrometric Solution with AGIS

Science.gov (United States)

Lammers, U.; Lindegren, L.; O'Mullane, W.; Hobbs, D.

2009-09-01

Gaia is ESA's ambitious space astrometry mission with a foreseen launch date in late 2011. Its main objective is to perform a stellar census of the 1,000 million brightest objects in our galaxy (completeness to V=20 mag) from which an astrometric catalog of micro-arcsec (μas) level accuracy will be constructed. A key element in this endeavor is the Astrometric Global Iterative Solution (AGIS) - the mathematical and numerical framework for combining the ≈80 available observations per star obtained during Gaia's 5 yr lifetime into a single global astrometic solution. AGIS consists of four main algorithmic cores which improve the source astrometic parameters, satellite attitude, calibration, and global parameters in a block-iterative manner. We present and discuss this basic scheme, the algorithms themselves and the overarching system architecture. The latter is a data-driven distributed processing framework designed to achieve an overall system performance that is not I/O limited. AGIS is being developed as a pure Java system by a small number of geographically distributed European groups. We present some of the software engineering aspects of the project and show used methodologies and tools. Finally we will briefly discuss how AGIS is embedded into the overall Gaia data processing architecture.

A NEW APPLICATION OF THE ASTROMETRIC METHOD TO BREAK SEVERE DEGENERACIES IN BINARY MICROLENSING EVENTS

International Nuclear Information System (INIS)

Chung, Sun-Ju; Park, Byeong-Gon; Humphrey, Andrew; Ryu, Yoon-Hyun

2009-01-01

When a source star is microlensed by one stellar component of widely separated binary stellar components, after finishing the lensing event, the event induced by the other binary star can be additionally detected. In this paper, we investigate whether the close/wide degeneracies in binary lensing events can be resolved by detecting the additional centroid shift of the source images induced by the secondary binary star in wide binary lensing events. From this investigation, we find that if the source star passes close to the Einstein ring of the secondary companion, the degeneracy can be easily resolved by using future astrometric follow-up observations with high astrometric precision. We determine the probability of detecting the additional centroid shift in binary lensing events with high magnification. From this, we find that the degeneracy of binary lensing events with a separation of ∼<20.0 AU can be resolved with a significant efficiency. We also estimate the waiting time for the detection of the additional centroid shift in wide binary lensing events. We find that for typical Galactic lensing events with a separation of ∼<20.0 AU, the additional centroid shift can be detected within 100 days, and thus the degeneracy of those events can be sufficiently broken within a year.

Wavelet based methods for improved wind profiler signal processing

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V. Lehmann

2001-08-01

Full Text Available In this paper, we apply wavelet thresholding for removing automatically ground and intermittent clutter (airplane echoes from wind profiler radar data. Using the concept of discrete multi-resolution analysis and non-parametric estimation theory, we develop wavelet domain thresholding rules, which allow us to identify the coefficients relevant for clutter and to suppress them in order to obtain filtered reconstructions.Key words. Meteorology and atmospheric dynamics (instruments and techniques – Radio science (remote sensing; signal processing

Characterizing tyrosine phosphorylation signaling in lung cancer using SH2 profiling.

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Kazuya Machida

2010-10-01

Full Text Available Tyrosine kinases drive the proliferation and survival of many human cancers. Thus profiling the global state of tyrosine phosphorylation of a tumor is likely to provide a wealth of information that can be used to classify tumors for prognosis and prediction. However, the comprehensive analysis of tyrosine phosphorylation of large numbers of human cancer specimens is technically challenging using current methods.We used a phosphoproteomic method termed SH2 profiling to characterize the global state of phosphotyrosine (pTyr signaling in human lung cancer cell lines. This method quantifies the phosphorylated binding sites for SH2 domains, which are used by cells to respond to changes in pTyr during signaling. Cells could be grouped based on SH2 binding patterns, with some clusters correlated with EGF receptor (EGFR or K-RAS mutation status. Binding of specific SH2 domains, most prominently RAS pathway activators Grb2 and ShcA, correlated with EGFR mutation and sensitivity to the EGFR inhibitor erlotinib. SH2 binding patterns also reflected MET activation and could identify cells driven by multiple kinases. The pTyr responses of cells treated with kinase inhibitors provided evidence of distinct mechanisms of inhibition.This study illustrates the potential of modular protein domains and their proteomic binding profiles as powerful molecular diagnostic tools for tumor classification and biomarker identification.

Probabilistic Inference on Multiple Normalized Signal Profiles from Next Generation Sequencing: Transcription Factor Binding Sites

KAUST Repository

Wong, Ka-Chun; Peng, Chengbin; Li, Yue

2015-01-01

With the prevalence of chromatin immunoprecipitation (ChIP) with sequencing (ChIP-Seq) technology, massive ChIP-Seq data has been accumulated. The ChIP-Seq technology measures the genome-wide occupancy of DNA-binding proteins in vivo. It is well-known that different DNA-binding protein occupancies may result in a gene being regulated in different conditions (e.g. different cell types). To fully understand a gene's function, it is essential to develop probabilistic models on multiple ChIP-Seq profiles for deciphering the gene transcription causalities. In this work, we propose and describe two probabilistic models. Assuming the conditional independence of different DNA-binding proteins' occupancies, the first method (SignalRanker) is developed as an intuitive method for ChIP-Seq genome-wide signal profile inference. Unfortunately, such an assumption may not always hold in some gene regulation cases. Thus, we propose and describe another method (FullSignalRanker) which does not make the conditional independence assumption. The proposed methods are compared with other existing methods on ENCODE ChIP-Seq datasets, demonstrating its regression and classification ability. The results suggest that FullSignalRanker is the best-performing method for recovering the signal ranks on the promoter and enhancer regions. In addition, FullSignalRanker is also the best-performing method for peak sequence classification. We envision that SignalRanker and FullSignalRanker will become important in the era of next generation sequencing. FullSignalRanker program is available on the following website: http://www.cs.toronto.edu/∼wkc/FullSignalRanker/ © 2015 IEEE.

Probabilistic Inference on Multiple Normalized Signal Profiles from Next Generation Sequencing: Transcription Factor Binding Sites

KAUST Repository

Wong, Ka-Chun

2015-04-20

With the prevalence of chromatin immunoprecipitation (ChIP) with sequencing (ChIP-Seq) technology, massive ChIP-Seq data has been accumulated. The ChIP-Seq technology measures the genome-wide occupancy of DNA-binding proteins in vivo. It is well-known that different DNA-binding protein occupancies may result in a gene being regulated in different conditions (e.g. different cell types). To fully understand a gene\\'s function, it is essential to develop probabilistic models on multiple ChIP-Seq profiles for deciphering the gene transcription causalities. In this work, we propose and describe two probabilistic models. Assuming the conditional independence of different DNA-binding proteins\\' occupancies, the first method (SignalRanker) is developed as an intuitive method for ChIP-Seq genome-wide signal profile inference. Unfortunately, such an assumption may not always hold in some gene regulation cases. Thus, we propose and describe another method (FullSignalRanker) which does not make the conditional independence assumption. The proposed methods are compared with other existing methods on ENCODE ChIP-Seq datasets, demonstrating its regression and classification ability. The results suggest that FullSignalRanker is the best-performing method for recovering the signal ranks on the promoter and enhancer regions. In addition, FullSignalRanker is also the best-performing method for peak sequence classification. We envision that SignalRanker and FullSignalRanker will become important in the era of next generation sequencing. FullSignalRanker program is available on the following website: http://www.cs.toronto.edu/∼wkc/FullSignalRanker/ © 2015 IEEE.

The principle of measuring unusual change of underground mass by optical astrometric instrument

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Wang Jiancheng

2012-11-01

In this study, we estimate the deflection angle of the plumb line on a ground site, and give a relation between the angle, abnormal mass and site distance (depth and horizontal distance. Then we derive the abnormality of underground material density using the plumb lines measured at different sites, and study the earthquake gestation, development and occurrence. Using the deflection angles of plumb lines observed at two sites, we give a method to calculate the mass and the center of gravity of underground materials. We also estimate the abnormal masses of latent seismic zones with different energy, using thermodynamic relations, and introduce a new optical astrometric instrument we had developed.

Signaling profiling at the single-cell level identifies a distinct signaling signature in murine hematopoietic stem cells.

Science.gov (United States)

Du, Juan; Wang, Jinyong; Kong, Guangyao; Jiang, Jing; Zhang, Jingfang; Liu, Yangang; Tong, Wei; Zhang, Jing

2012-07-01

Hematopoietic stem cell (HSC) function is tightly regulated by cytokine signaling. Although phospho-flow cytometry allows us to study signaling in defined populations of cells, there has been tremendous hurdle to carry out this study in rare HSCs due to unrecoverable critical HSC markers, low HSC number, and poor cell recovery rate. Here, we overcame these difficulties and developed a "HSC phospho-flow" method to analyze cytokine signaling in murine HSCs at the single-cell level and compare HSC signaling profile to that of multipotent progenitors (MPPs), a cell type immediately downstream of HSCs, and commonly used Lin(-) cKit(+) cells (LK cells, enriched for myeloid progenitors). We chose to study signaling evoked from three representative cytokines, stem cell factor (SCF) and thrombopoietin (TPO) that are essential for HSC function and granulocyte macrophage-colony-stimulating factor (GM-CSF) that is dispensable for HSCs. HSCs display a distinct TPO and GM-CSF signaling signature from MPPs and LK cells, which highly correlates with receptor surface expression. In contrast, although majority of LK cells express lower levels of cKit than HSCs and MPPs, SCF-evoked ERK1/2 activation in LK cells shows a significantly increased magnitude for a prolonged period. These results suggest that specific cellular context plays a more important role than receptor surface expression in SCF signaling. Our study of HSC signaling at the homeostasis stage paves the way to investigate signaling changes in HSCs under conditions of stress, aging, and hematopoietic diseases. Copyright © 2012 AlphaMed Press.

The Caviar software package for the astrometric reduction of Cassini ISS images: description and examples

Science.gov (United States)

Cooper, N. J.; Lainey, V.; Meunier, L.-E.; Murray, C. D.; Zhang, Q.-F.; Baillie, K.; Evans, M. W.; Thuillot, W.; Vienne, A.

2018-02-01

Aims: Caviar is a software package designed for the astrometric measurement of natural satellite positions in images taken using the Imaging Science Subsystem (ISS) of the Cassini spacecraft. Aspects of the structure, functionality, and use of the software are described, and examples are provided. The integrity of the software is demonstrated by generating new measurements of the positions of selected major satellites of Saturn, 2013-2016, along with their observed minus computed (O-C) residuals relative to published ephemerides. Methods: Satellite positions were estimated by fitting a model to the imaged limbs of the target satellites. Corrections to the nominal spacecraft pointing were computed using background star positions based on the UCAC5 and Tycho2 star catalogues. UCAC5 is currently used in preference to Gaia-DR1 because of the availability of proper motion information in UCAC5. Results: The Caviar package is available for free download. A total of 256 new astrometric observations of the Saturnian moons Mimas (44), Tethys (58), Dione (55), Rhea (33), Iapetus (63), and Hyperion (3) have been made, in addition to opportunistic detections of Pandora (20), Enceladus (4), Janus (2), and Helene (5), giving an overall total of 287 new detections. Mean observed-minus-computed residuals for the main moons relative to the JPL SAT375 ephemeris were - 0.66 ± 1.30 pixels in the line direction and 0.05 ± 1.47 pixels in the sample direction. Mean residuals relative to the IMCCE NOE-6-2015-MAIN-coorb2 ephemeris were -0.34 ± 0.91 pixels in the line direction and 0.15 ± 1.65 pixels in the sample direction. The reduced astrometric data are provided in the form of satellite positions for each image. The reference star positions are included in order to allow reprocessing at some later date using improved star catalogues, such as later releases of Gaia, without the need to re-estimate the imaged star positions. The Caviar software is available for free download from: ftp

NESmapper: accurate prediction of leucine-rich nuclear export signals using activity-based profiles.

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Shunichi Kosugi

2014-09-01

Full Text Available The nuclear export of proteins is regulated largely through the exportin/CRM1 pathway, which involves the specific recognition of leucine-rich nuclear export signals (NESs in the cargo proteins, and modulates nuclear-cytoplasmic protein shuttling by antagonizing the nuclear import activity mediated by importins and the nuclear import signal (NLS. Although the prediction of NESs can help to define proteins that undergo regulated nuclear export, current methods of predicting NESs, including computational tools and consensus-sequence-based searches, have limited accuracy, especially in terms of their specificity. We found that each residue within an NES largely contributes independently and additively to the entire nuclear export activity. We created activity-based profiles of all classes of NESs with a comprehensive mutational analysis in mammalian cells. The profiles highlight a number of specific activity-affecting residues not only at the conserved hydrophobic positions but also in the linker and flanking regions. We then developed a computational tool, NESmapper, to predict NESs by using profiles that had been further optimized by training and combining the amino acid properties of the NES-flanking regions. This tool successfully reduced the considerable number of false positives, and the overall prediction accuracy was higher than that of other methods, including NESsential and Wregex. This profile-based prediction strategy is a reliable way to identify functional protein motifs. NESmapper is available at http://sourceforge.net/projects/nesmapper.

Signalling pathways involved in adult heart formation revealed by gene expression profiling in Drosophila.

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Bruno Zeitouni

2007-10-01

Full Text Available Drosophila provides a powerful system for defining the complex genetic programs that drive organogenesis. Under control of the steroid hormone ecdysone, the adult heart in Drosophila forms during metamorphosis by a remodelling of the larval cardiac organ. Here, we evaluated the extent to which transcriptional signatures revealed by genomic approaches can provide new insights into the molecular pathways that underlie heart organogenesis. Whole-genome expression profiling at eight successive time-points covering adult heart formation revealed a highly dynamic temporal map of gene expression through 13 transcript clusters with distinct expression kinetics. A functional atlas of the transcriptome profile strikingly points to the genomic transcriptional response of the ecdysone cascade, and a sharp regulation of key components belonging to a few evolutionarily conserved signalling pathways. A reverse genetic analysis provided evidence that these specific signalling pathways are involved in discrete steps of adult heart formation. In particular, the Wnt signalling pathway is shown to participate in inflow tract and cardiomyocyte differentiation, while activation of the PDGF-VEGF pathway is required for cardiac valve formation. Thus, a detailed temporal map of gene expression can reveal signalling pathways responsible for specific developmental programs and provides here substantial grasp into heart formation.

Simulators of tray distillation columns as tools for interpreting gamma-ray scan profile signal

International Nuclear Information System (INIS)

Offei-Mensah, P.S.; Gbadago, J.K.; Dagadu, C.P.K.; Danso, K.A.

2008-01-01

Simulators of tray distillation columns were used to provide technical guidelines for interpreting signals from gamma ray scans used for analysing malfunctions in distillation columns. The transmitted radiation intensities at 0.05 m intervals were determined from top to bottom of simulators of tray distillation columns exposed to 20 mCi of '1'3'7 Cs. Signals generated from the simulators were identical with the experimental signals obtained from the stabilizer column of the crude oil distillation unit at the Tema Oil Refinery Ghana Limited. Changes in the signal level were observed with changes in diameter, type of material (gasoline, air, debris, steel) and orientation of scan line. The analysis provided accurate interpretation of gamma scan profiles. (au)

Signaling pathway-focused gene expression profiling in pressure overloaded hearts

Directory of Open Access Journals (Sweden)

Marco Musumeci

2011-01-01

Full Text Available The β-blocker propranolol displays antihypertrophic and antifibrotic properties in the heart subjected to pressure overload. Yet the underlying mechanisms responsible for these important effects remain to be completely understood. The purpose of this study was to determine signaling pathway-focused gene expression profile associated with the antihypertrophic action of propranolol in pressure overloaded hearts. To address this question, a focused real-time PCR array was used to screen left ventricular RNA expression of 84 gene transcripts representative of 18 different signaling pathways in C57BL/6 mice subjected to transverse aortic constriction (TAC or sham surgery. On the surgery day, mice received either propranolol (80 mg/kg/day or vehicle for 14 days. TAC caused a 49% increase in the left ventricular weight-to-body weight (LVW/BW ratio without changing gene expression. Propranolol blunted LVW/BW ratio increase by approximately 50% while causing about a 3-fold increase in the expression of two genes, namely Brca1 and Cdkn2a, belonging to the TGF-beta and estrogen pathways, respectively. In conclusion, after 2 weeks of pressure overload, TAC hearts show a gene expression profile superimposable to that of sham hearts. Conversely, propranolol treatment is associated with an increased expression of genes which negatively regulate cell cycle progression. It remains to be established whether a mechanistic link between gene expression changes and the antihypertrophic action of propranolol occurs.

Independent component analysis for the extraction of reliable protein signal profiles from MALDI-TOF mass spectra.

Science.gov (United States)

Mantini, Dante; Petrucci, Francesca; Del Boccio, Piero; Pieragostino, Damiana; Di Nicola, Marta; Lugaresi, Alessandra; Federici, Giorgio; Sacchetta, Paolo; Di Ilio, Carmine; Urbani, Andrea

2008-01-01

Independent component analysis (ICA) is a signal processing technique that can be utilized to recover independent signals from a set of their linear mixtures. We propose ICA for the analysis of signals obtained from large proteomics investigations such as clinical multi-subject studies based on MALDI-TOF MS profiling. The method is validated on simulated and experimental data for demonstrating its capability of correctly extracting protein profiles from MALDI-TOF mass spectra. The comparison on peak detection with an open-source and two commercial methods shows its superior reliability in reducing the false discovery rate of protein peak masses. Moreover, the integration of ICA and statistical tests for detecting the differences in peak intensities between experimental groups allows to identify protein peaks that could be indicators of a diseased state. This data-driven approach demonstrates to be a promising tool for biomarker-discovery studies based on MALDI-TOF MS technology. The MATLAB implementation of the method described in the article and both simulated and experimental data are freely available at http://www.unich.it/proteomica/bioinf/.

Modeling pedestrian crossing speed profiles considering speed change behavior for the safety assessment of signalized intersections.

Science.gov (United States)

Iryo-Asano, Miho; Alhajyaseen, Wael K M

2017-11-01

Pedestrian safety is one of the most challenging issues in road networks. Understanding how pedestrians maneuver across an intersection is the key to applying countermeasures against traffic crashes. It is known that the behaviors of pedestrians at signalized crosswalks are significantly different from those in ordinary walking spaces, and they are highly influenced by signal indication, potential conflicts with vehicles, and intersection geometries. One of the most important characteristics of pedestrian behavior at crosswalks is the possible sudden speed change while crossing. Such sudden behavioral change may not be expected by conflicting vehicles, which may lead to hazardous situations. This study aims to quantitatively model the sudden speed changes of pedestrians as they cross signalized crosswalks under uncongested conditions. Pedestrian speed profiles are collected from empirical data and speed change events are extracted assuming that the speed profiles are stepwise functions. The occurrence of speed change events is described by a discrete choice model as a function of the necessary walking speed to complete crossing before the red interval ends, current speed, and the presence of turning vehicles in the conflict area. The amount of speed change before and after the event is modeled using regression analysis. A Monte Carlo simulation is applied for the entire speed profile of the pedestrians. The results show that the model can represent the pedestrian travel time distribution more accurately than the constant speed model. Copyright © 2017 Elsevier Ltd. All rights reserved.

Gaia’s Cepheids and RR Lyrae stars and luminosity calibrations based on Tycho-Gaia Astrometric Solution

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Clementini Gisella

2017-01-01

Full Text Available Gaia Data Release 1 contains parallaxes for more than 700 Galactic Cepheids and RR Lyrae stars, computed as part of the Tycho-Gaia Astrometric Solution (TGAS. We have used TGAS parallaxes, along with literature (V, I, J, Ks, W1 photometry and spectroscopy, to calibrate the zero point of the period-luminosity and period-Wesenheit relations of classical and type II Cepheids, and the near-infrared period-luminosity, period-luminosity-metallicity and optical luminosity-metallicity relations of RR Lyrae stars. In this contribution we briefly summarise results obtained by fitting these basic relations adopting different techniques that operate either in parallax or distance (absolute magnitude space.

Protein Signaling Networks from Single Cell Fluctuations and Information Theory Profiling

Science.gov (United States)

Shin, Young Shik; Remacle, F.; Fan, Rong; Hwang, Kiwook; Wei, Wei; Ahmad, Habib; Levine, R.D.; Heath, James R.

2011-01-01

Protein signaling networks among cells play critical roles in a host of pathophysiological processes, from inflammation to tumorigenesis. We report on an approach that integrates microfluidic cell handling, in situ protein secretion profiling, and information theory to determine an extracellular protein-signaling network and the role of perturbations. We assayed 12 proteins secreted from human macrophages that were subjected to lipopolysaccharide challenge, which emulates the macrophage-based innate immune responses against Gram-negative bacteria. We characterize the fluctuations in protein secretion of single cells, and of small cell colonies (n = 2, 3,···), as a function of colony size. Measuring the fluctuations permits a validation of the conditions required for the application of a quantitative version of the Le Chatelier's principle, as derived using information theory. This principle provides a quantitative prediction of the role of perturbations and allows a characterization of a protein-protein interaction network. PMID:21575571

A Discrete Dynamical System Approach to Pathway Activation Profiles of Signaling Cascades.

Science.gov (United States)

Catozzi, S; Sepulchre, J-A

2017-08-01

In living organisms, cascades of covalent modification cycles are one of the major intracellular signaling mechanisms, allowing to transduce physical or chemical stimuli of the external world into variations of activated biochemical species within the cell. In this paper, we develop a novel method to study the stimulus-response of signaling cascades and overall the concept of pathway activation profile which is, for a given stimulus, the sequence of activated proteins at each tier of the cascade. Our approach is based on a correspondence that we establish between the stationary states of a cascade and pieces of orbits of a 2D discrete dynamical system. The study of its possible phase portraits in function of the biochemical parameters, and in particular of the contraction/expansion properties around the fixed points of this discrete map, as well as their bifurcations, yields a classification of the cascade tiers into three main types, whose biological impact within a signaling network is examined. In particular, our approach enables to discuss quantitatively the notion of cascade amplification/attenuation from this new perspective. The method allows also to study the interplay between forward and "retroactive" signaling, i.e., the upstream influence of an inhibiting drug bound to the last tier of the cascade.

Precise Temporal Profiling of Signaling Complexes in Primary Cells Using SWATH Mass Spectrometry

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Etienne Caron

2017-03-01

Full Text Available Spatiotemporal organization of protein interactions in cell signaling is a fundamental process that drives cellular functions. Given differential protein expression across tissues and developmental stages, the architecture and dynamics of signaling interaction proteomes is, likely, highly context dependent. However, current interaction information has been almost exclusively obtained from transformed cells. In this study, we applied an advanced and robust workflow combining mouse genetics and affinity purification (AP-SWATH mass spectrometry to profile the dynamics of 53 high-confidence protein interactions in primary T cells, using the scaffold protein GRB2 as a model. The workflow also provided a sufficient level of robustness to pinpoint differential interaction dynamics between two similar, but functionally distinct, primary T cell populations. Altogether, we demonstrated that precise and reproducible quantitative measurements of protein interaction dynamics can be achieved in primary cells isolated from mammalian tissues, allowing resolution of the tissue-specific context of cell-signaling events.

Transcription Profiles Reveal Sugar and Hormone Signaling Pathways Mediating Flower Induction in Apple (Malus domestica Borkh.).

Science.gov (United States)

Xing, Li-Bo; Zhang, Dong; Li, You-Mei; Shen, Ya-Wen; Zhao, Cai-Ping; Ma, Juan-Juan; An, Na; Han, Ming-Yu

2015-10-01

Flower induction in apple (Malus domestica Borkh.) is regulated by complex gene networks that involve multiple signal pathways to ensure flower bud formation in the next year, but the molecular determinants of apple flower induction are still unknown. In this research, transcriptomic profiles from differentiating buds allowed us to identify genes potentially involved in signaling pathways that mediate the regulatory mechanisms of flower induction. A hypothetical model for this regulatory mechanism was obtained by analysis of the available transcriptomic data, suggesting that sugar-, hormone- and flowering-related genes, as well as those involved in cell-cycle induction, participated in the apple flower induction process. Sugar levels and metabolism-related gene expression profiles revealed that sucrose is the initiation signal in flower induction. Complex hormone regulatory networks involved in cytokinin (CK), abscisic acid (ABA) and gibberellic acid pathways also induce apple flower formation. CK plays a key role in the regulation of cell formation and differentiation, and in affecting flowering-related gene expression levels during these processes. Meanwhile, ABA levels and ABA-related gene expression levels gradually increased, as did those of sugar metabolism-related genes, in developing buds, indicating that ABA signals regulate apple flower induction by participating in the sugar-mediated flowering pathway. Furthermore, changes in sugar and starch deposition levels in buds can be affected by ABA content and the expression of the genes involved in the ABA signaling pathway. Thus, multiple pathways, which are mainly mediated by crosstalk between sugar and hormone signals, regulate the molecular network involved in bud growth and flower induction in apple trees. © The Author 2015. Published by Oxford University Press on behalf of Japanese Society of Plant Physiologists.

The laser astrometric test of relativity mission

International Nuclear Information System (INIS)

Turyshev, Slava G.; Shao, Michael; Nordtvedt, Kenneth L.

2004-01-01

This paper discusses new fundamental physics experiment to test relativistic gravity at the accuracy better than the effects of the 2nd order in the gravitational field strength, ∝ G 2 . The Laser Astrometric Test Of Relativity (LATOR) mission uses laser interferometry between two micro-spacecraft whose lines of sight pass close by the Sun to accurately measure deflection of light in the solar gravity. The key element of the experimental design is a redundant geometry optical truss provided by a long-baseline (100 m) multi-channel stellar optical interferometer placed on the International Space Station (ISS). The interferometer is used for measuring the angles between the two spacecraft. In Euclidean geometry, determination of a triangle's three sides determines any angle therein; with gravity changing the optical lengths of sides passing close by the Sun and deflecting the light, the Euclidean relationships are overthrown. The geometric redundancy enables LATOR to measure the departure from Euclidean geometry caused by the solar gravity field to a very high accuracy. LATOR will not only improve the value of the parameterized post-Newtonian (PPN) parameter γ to unprecedented levels of accuracy of 10 -8 , it will also reach ability to measure effects of the next post-Newtonian order (c -4 ) of light deflection resulting from gravity's intrinsic non-linearity. The solar quadrupole moment parameter, J2, will be measured with high precision, as well as a variety of other relativistic effects including Lense-Thirring precession. LATOR will lead to very robust advances in the tests of fundamental physics: this mission could discover a violation or extension of general relativity, or reveal the presence of an additional long range interaction in the physical law. There are no analogs to the LATOR experiment; it is unique and is a natural culmination of solar system gravity experiments

First results of astrometric and photometric processing of scanned plates DLFA MAO NAS of Ukraine

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Shatokhina, S.; Andruk, V.; Yatsenko, A.

2011-02-01

In the paper the first estimation of astrometric and photometric results of digitization of images on plates of Double Long Focus Astrograph (DLFA) was made. The digitization of plates was carried out with the scanner Microtek ScanMaker 9800XL TMA. For image processing the package LINUX/MIDAS/ROMAFOT was used. For selected plates DLFA mean square errors for equatorial coordinates (in a system of TYCHO-2 catalogue) and stellar magnitudes (in the Johnson B-system) per one image are 0.06" and 0.13m. The errors are of random nature and there are no systematic dependences on coordinates, magnitudes and colour of stars. The comparison of obtained results with that of earlier plate measurements obtained with complex PARSEC was made.

Estimation of position and velocity for a low dynamic vehicle in near space using nonresolved photometric and astrometric data.

Science.gov (United States)

Jing, Nan; Li, Chuang; Chong, Yaqin

2017-01-20

An estimation method for indirectly observable parameters for a typical low dynamic vehicle (LDV) is presented. The estimation method utilizes apparent magnitude, azimuth angle, and elevation angle to estimate the position and velocity of a typical LDV, such as a high altitude balloon (HAB). In order to validate the accuracy of the estimated parameters gained from an unscented Kalman filter, two sets of experiments are carried out to obtain the nonresolved photometric and astrometric data. In the experiments, a HAB launch is planned; models of the HAB dynamics and kinematics and observation models are built to use as time update and measurement update functions, respectively. When the HAB is launched, a ground-based optoelectronic detector is used to capture the object images, which are processed using aperture photometry technology to obtain the time-varying apparent magnitude of the HAB. Two sets of actual and estimated parameters are given to clearly indicate the parameter differences. Two sets of errors between the actual and estimated parameters are also given to show how the estimated position and velocity differ with respect to the observation time. The similar distribution curve results from the two scenarios, which agree within 3σ, verify that nonresolved photometric and astrometric data can be used to estimate the indirectly observable state parameters (position and velocity) for a typical LDV. This technique can be applied to small and dim space objects in the future.

Differences in gene expression profiles and signaling pathways in rhabdomyolysis-induced acute kidney injury.

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Geng, Xiaodong; Wang, Yuanda; Hong, Quan; Yang, Jurong; Zheng, Wei; Zhang, Gang; Cai, Guangyan; Chen, Xiangmei; Wu, Di

2015-01-01

Rhabdomyolysis is a threatening syndrome because it causes the breakdown of skeletal muscle. Muscle destruction leads to the release of myoglobin, intracellular proteins, and electrolytes into the circulation. The aim of this study was to investigate the differences in gene expression profiles and signaling pathways upon rhabdomyolysis-induced acute kidney injury (AKI). In this study, we used glycerol-induced renal injury as a model of rhabdomyolysis-induced AKI. We analyzed data and relevant information from the Gene Expression Omnibus database (No: GSE44925). The gene expression data for three untreated mice were compared to data for five mice with rhabdomyolysis-induced AKI. The expression profiling of the three untreated mice and the five rhabdomyolysis-induced AKI mice was performed using microarray analysis. We examined the levels of Cyp3a13, Rela, Aldh7a1, Jun, CD14. And Cdkn1a using RT-PCR to determine the accuracy of the microarray results. The microarray analysis showed that there were 1050 downregulated and 659 upregulated genes in the rhabdomyolysis-induced AKI mice compared to the control group. The interactions of all differentially expressed genes in the Signal-Net were analyzed. Cyp3a13 and Rela had the most interactions with other genes. The data showed that Rela and Aldh7a1 were the key nodes and had important positions in the Signal-Net. The genes Jun, CD14, and Cdkn1a were also significantly upregulated. The pathway analysis classified the differentially expressed genes into 71 downregulated and 48 upregulated pathways including the PI3K/Akt, MAPK, and NF-κB signaling pathways. The results of this study indicate that the NF-κB, MAPK, PI3K/Akt, and apoptotic pathways are regulated in rhabdomyolysis-induced AKI.

Absolute Nuv magnitudes of Gaia DR1 astrometric stars and a search for hot companions in nearby systems

Science.gov (United States)

Makarov, V. V.

2017-10-01

Accurate parallaxes from Gaia DR1 (TGAS) are combined with GALEX visual Nuv magnitudes to produce absolute Mnuv magnitudes and an ultraviolet HR diagram for a large sample of astrometric stars. A functional fit is derived of the lower envelope main sequence of the nearest 1403 stars (distance Pleiades, or, most likely, tight interacting binaries of the BY Dra-type. A separate collection of 40 stars with precise trigonometric parallaxes and Nuv-G colors bluer than 2 mag is presented. It includes several known novae, white dwarfs, and binaries with hot subdwarf (sdOB) components, but most remain unexplored.

Profiling calcium signals of in vitro polarized human effector CD4+ T cells.

Science.gov (United States)

Kircher, Sarah; Merino-Wong, Maylin; Niemeyer, Barbara A; Alansary, Dalia

2018-06-01

Differentiation of naïve CD4 + T cells into effector subtypes with distinct cytokine profiles and physiological roles is a tightly regulated process, the imbalance of which can lead to an inadequate immune response or autoimmune disease. The crucial role of Ca 2+ signals, mainly mediated by the store operated Ca 2+ entry (SOCE) in shaping the immune response is well described. However, it is unclear if human effector CD4 + T cell subsets show differential Ca 2+ signatures in response to different stimulation methods. Herein, we provide optimized in vitro culture conditions for polarization of human CD4 + effector T cells and characterize their SOCE following both pharmacological store depletion and direct T-cell receptor (TCR) activation. Moreover, we measured whole cell Ca 2+ release activated Ca 2+ currents (I CRAC ) and investigated whether the observed differences correlate to the expression of CRAC genes. Our results show that Ca 2+ profiles of helper CD4 + Th1, Th2 and Th17 are distinct and in part shaped by the intensity of stimulation. Regulatory T cells (Treg) are unique being the subtype with the most prominent SOCE response. Analysis of in vivo differentiated Treg unraveled the role of differential expression of ORAI2 in fine-tuning signals in Treg vs. conventional CD4 + T cells. Copyright © 2018 The Author(s). Published by Elsevier B.V. All rights reserved.

Gene expression profiling reveals different molecular patterns in G-protein coupled receptor signaling pathways between early- and late-onset preeclampsia.

Science.gov (United States)

Liang, Mengmeng; Niu, Jianmin; Zhang, Liang; Deng, Hua; Ma, Jian; Zhou, Weiping; Duan, Dongmei; Zhou, Yuheng; Xu, Huikun; Chen, Longding

2016-04-01

Early-onset preeclampsia and late-onset preeclampsia have been regarded as two different phenotypes with heterogeneous manifestations; To gain insights into the pathogenesis of the two traits, we analyzed the gene expression profiles in preeclamptic placentas. A whole genome-wide microarray was used to determine the gene expression profiles in placental tissues from patients with early-onset (n = 7; 36 weeks) preeclampsia and their controls who delivered preterm (n = 5; 36 weeks). Genes were termed differentially expressed if they showed a fold-change ≥ 2 and q-value preeclampsia (177 genes were up-regulated and 450 were down-regulated). Gene ontology analysis identified significant alterations in several biological processes; the top two were immune response and cell surface receptor linked signal transduction. Among the cell surface receptor linked signal transduction-related, differentially expressed genes, those involved in the G-protein coupled receptor protein signaling pathway were significantly enriched. G-protein coupled receptor signaling pathway related genes, such as GPR124 and MRGPRF, were both found to be down-regulated in early-onset preeclampsia. The results were consistent with those of western blotting that the abundance of GPR124 was lower in early-onset compared with late-onset preeclampsia. The different gene expression profiles reflect the different levels of transcription regulation between the two conditions and supported the hypothesis that they are separate disease entities. Moreover, the G-protein coupled receptor signaling pathway related genes may contribute to the mechanism underlying early- and late-onset preeclampsia. Copyright © 2016 Elsevier Ltd. All rights reserved.

Expression profiling associates blood and brain glucocorticoid receptor signaling with trauma-related individual differences in both sexes.

Science.gov (United States)

Daskalakis, Nikolaos P; Cohen, Hagit; Cai, Guiqing; Buxbaum, Joseph D; Yehuda, Rachel

2014-09-16

Delineating the molecular basis of individual differences in the stress response is critical to understanding the pathophysiology and treatment of posttraumatic stress disorder (PTSD). In this study, 7 d after predator-scent-stress (PSS) exposure, male and female rats were classified into vulnerable (i.e., "PTSD-like") and resilient (i.e., minimally affected) phenotypes on the basis of their performance on a variety of behavioral measures. Genome-wide expression profiling in blood and two limbic brain regions (amygdala and hippocampus), followed by quantitative PCR validation, was performed in these two groups of animals, as well as in an unexposed control group. Differentially expressed genes were identified in blood and brain associated with PSS-exposure and with distinct behavioral profiles postexposure. There was a small but significant between-tissue overlap (4-21%) for the genes associated with exposure-related individual differences, indicating convergent gene expression in both sexes. To uncover convergent signaling pathways across tissue and sex, upstream activated/deactivated transcription factors were first predicted for each tissue and then the respective pathways were identified. Glucocorticoid receptor (GR) signaling was the only convergent pathway associated with individual differences when using the most stringent statistical threshold. Corticosterone treatment 1 h after PSS-exposure prevented anxiety and hyperarousal 7 d later in both sexes, confirming the GR involvement in the PSS behavioral response. In conclusion, genes and pathways associated with extreme differences in the traumatic stress behavioral response can be distinguished from those associated with trauma exposure. Blood-based biomarkers can predict aspects of brain signaling. GR signaling is a convergent signaling pathway, associated with trauma-related individual differences in both sexes.

A reliability index for assessment of crack profile reconstructed from ECT signals using a neural-network approach

International Nuclear Information System (INIS)

Yusa, Noritaka; Chen, Zhenmao; Miya, Kenzo; Cheng, Weiying

2002-01-01

This paper proposes a reliability parameter to enhance an version scheme developed by authors. The scheme is based upon an artificial neural network that simulates mapping between eddy current signals and crack profiles. One of the biggest advantages of the scheme is that it can deal with conductive cracks, which is necessary to reconstruct natural cracks. However, it has one significant disadvantage: the reliability of reconstructed profiles was unknown. The parameter provides an index for assessment of the crack profile and overcomes this disadvantage. After the parameter is validated by reconstruction of simulated cracks, it is applied to reconstruction of natural cracks that occurred in steam generator tubes of a pressurized water reactor. It is revealed that the parameter is applicable to not only simulated cracks but also natural ones. (author)

Revisiting TW Hydrae in light of new astrometric data

Science.gov (United States)

Teixeira, R.; Ducourant, C.; Galli, P. A. B.; Le Campion, J. F.; Zuckerman, B.; Krone-Martins, A. G. O.; Chauvin, G.; Song, I.

2014-10-01

Our efforts in the present work focused mainly on refining and improving the previous description and understanding of the stellar association TW Hydrae (TWA) including a very detailed membership analysis and its dynamical and evolutionary age.To achieve our objectives in a fully reliable way we take advantage of our own astrometric measurements (Ducourant et al. 2013) performed with NTT/EFOSC2 - ESO (La Silla - Chile) spread over three years (2007 - 2010) and of those published in the literature.A very detailed membership analysis based on the convergent point strategy as developed by our team (Galli et al. 2012, 2013) allowed us to define a consistent kinematic group containing 31 stars among the 44 proposed as TWA member in the literature. Assuming that our sample of stars may be contaminated by non-members and to get rid of the particular influence of each star we applied a Jacknife resampling technique generating 2000 random lists of 13 stars taken from our 16 stars and calculated for each the epoch of convergence when the radius is minimum. The mean of the epochs obtained and the dispersion about the mean give a dynamical age of 7.5± 0.7 Myr for the association that is in good agreement with the previous traceback age (De La Reza et al. 2006). We also estimated age for TWA moving group members from pre-main sequence evolutionary models (Siess et al. 2000) and find a mean age of 7.4± 1.2 Myr. These results show that the dynamical age of the association obtained via the traceback technique and the average age derived from theoretical evolutionary models are in good agreement.

Thickness of Weathering Profiles:Relaying Tectonic Signal to Biogeochemical Cycles

Science.gov (United States)

Yoo, K.; Weinman, B. A.; Hurst, M. D.; Mudd, S. M.; Gabet, E. J.; Attal, M.; Maher, K.

2011-12-01

geochemical processes that control the thicknesses of weathering profiles, by determining their turn over time as well, relay the tectonic signal to the cycles of biologically relevant elements.

Precision Orbit of δ Delphini and Prospects for Astrometric Detection of Exoplanets

Science.gov (United States)

Gardner, Tyler; Monnier, John D.; Fekel, Francis C.; Williamson, Mike; Duncan, Douglas K.; White, Timothy R.; Ireland, Michael; Adams, Fred C.; Barman, Travis; Baron, Fabien; ten Brummelaar, Theo; Che, Xiao; Huber, Daniel; Kraus, Stefan; Roettenbacher, Rachael M.; Schaefer, Gail; Sturmann, Judit; Sturmann, Laszlo; Swihart, Samuel J.; Zhao, Ming

2018-03-01

Combining visual and spectroscopic orbits of binary stars leads to a determination of the full 3D orbit, individual masses, and distance to the system. We present a full analysis of the evolved binary system δ Delphini using astrometric data from the MIRC and PAVO instruments on the CHARA long-baseline interferometer, 97 new spectra from the Fairborn Observatory, and 87 unpublished spectra from the Lick Observatory. We determine the full set of orbital elements for δ Del, along with masses of 1.78 ± 0.07 M ⊙ and 1.62 ± 0.07 M ⊙ for each component, and a distance of 63.61 ± 0.89 pc. These results are important in two contexts: for testing stellar evolution models and for defining the detection capabilities for future planet searches. We find that the evolutionary state of this system is puzzling, as our measured flux ratios, radii, and masses imply a ∼200 Myr age difference between the components, using standard stellar evolution models. Possible explanations for this age discrepancy include mass transfer scenarios with a now-ejected tertiary companion. For individual measurements taken over a span of two years, we achieve 2 M J on orbits >0.75 au around individual components of hot binary stars via differential astrometry.

Identification of Two Protein-Signaling States Delineating Transcriptionally Heterogeneous Human Medulloblastoma

Directory of Open Access Journals (Sweden)

Walderik W. Zomerman

2018-03-01

Full Text Available Summary: The brain cancer medulloblastoma consists of different transcriptional subgroups. To characterize medulloblastoma at the phosphoprotein-signaling level, we performed high-throughput peptide phosphorylation profiling on a large cohort of SHH (Sonic Hedgehog, group 3, and group 4 medulloblastomas. We identified two major protein-signaling profiles. One profile was associated with rapid death post-recurrence and resembled MYC-like signaling for which MYC lesions are sufficient but not necessary. The second profile showed enrichment for DNA damage, as well as apoptotic and neuronal signaling. Integrative analysis demonstrated that heterogeneous transcriptional input converges on these protein-signaling profiles: all SHH and a subset of group 3 patients exhibited the MYC-like protein-signaling profile; the majority of the other group 3 subset and group 4 patients displayed the DNA damage/apoptotic/neuronal signaling profile. Functional analysis of enriched pathways highlighted cell-cycle progression and protein synthesis as therapeutic targets for MYC-like medulloblastoma. : Using peptide phosphorylation profiling, Zomerman et al. identify two medulloblastoma phosphoprotein-signaling profiles that have prognostic value and are potentially targetable. They find that these profiles extend across transcriptome-based subgroup borders. This suggests that diverse genetic information converges on common protein-signaling pathways and highlights protein-signaling as a unique information layer. Keywords: medulloblastoma, protein-signaling, protein synthesis, MYC, TP53, proteome, phosphoproteome

THE APPLICATION OF MULTIVIEW METHODS FOR HIGH-PRECISION ASTROMETRIC SPACE VLBI AT LOW FREQUENCIES

Energy Technology Data Exchange (ETDEWEB)

Dodson, R.; Rioja, M.; Imai, H. [International Centre for Radio Astronomy Research, M468, University of Western Australia, 35 Stirling Hwy, Crawley, Western Australia 6009 (Australia); Asaki, Y. [Institute of Space and Astronautical Science, 3-1-1 Yoshinodai, Chuou, Sagamihara, Kanagawa 252-5210 (Japan); Hong, X.-Y.; Shen, Z., E-mail: richard.dodson@icrar.org [Shanghai Astronomical Observatory, CAS, 200030 Shanghai (China)

2013-06-15

High-precision astrometric space very long baseline interferometry (S-VLBI) at the low end of the conventional frequency range, i.e., 20 cm, is a requirement for a number of high-priority science goals. These are headlined by obtaining trigonometric parallax distances to pulsars in pulsar-black hole pairs and OH masers anywhere in the Milky Way and the Magellanic Clouds. We propose a solution for the most difficult technical problems in S-VLBI by the MultiView approach where multiple sources, separated by several degrees on the sky, are observed simultaneously. We simulated a number of challenging S-VLBI configurations, with orbit errors up to 8 m in size and with ionospheric atmospheres consistent with poor conditions. In these simulations we performed MultiView analysis to achieve the required science goals. This approach removes the need for beam switching requiring a Control Moment Gyro, and the space and ground infrastructure required for high-quality orbit reconstruction of a space-based radio telescope. This will dramatically reduce the complexity of S-VLBI missions which implement the phase-referencing technique.

THE APPLICATION OF MULTIVIEW METHODS FOR HIGH-PRECISION ASTROMETRIC SPACE VLBI AT LOW FREQUENCIES

International Nuclear Information System (INIS)

Dodson, R.; Rioja, M.; Imai, H.; Asaki, Y.; Hong, X.-Y.; Shen, Z.

2013-01-01

High-precision astrometric space very long baseline interferometry (S-VLBI) at the low end of the conventional frequency range, i.e., 20 cm, is a requirement for a number of high-priority science goals. These are headlined by obtaining trigonometric parallax distances to pulsars in pulsar-black hole pairs and OH masers anywhere in the Milky Way and the Magellanic Clouds. We propose a solution for the most difficult technical problems in S-VLBI by the MultiView approach where multiple sources, separated by several degrees on the sky, are observed simultaneously. We simulated a number of challenging S-VLBI configurations, with orbit errors up to 8 m in size and with ionospheric atmospheres consistent with poor conditions. In these simulations we performed MultiView analysis to achieve the required science goals. This approach removes the need for beam switching requiring a Control Moment Gyro, and the space and ground infrastructure required for high-quality orbit reconstruction of a space-based radio telescope. This will dramatically reduce the complexity of S-VLBI missions which implement the phase-referencing technique.

Expression profile and function of Wnt signaling mechanisms in malignant mesothelioma cells

International Nuclear Information System (INIS)

Fox, Simon A.; Richards, Alex K.; Kusumah, Ivonne; Perumal, Vanathi; Bolitho, Erin M.; Mutsaers, Steven E.; Dharmarajan, Arun M.

2013-01-01

Highlights: •Expression profile of Wnt pathway related genes in mesothelioma cells. •Differential expression of key Wnt pathway molecules and regulators. •Wnt3a stimulated mesothelioma growth whereas sFRP4 was inhibitory. •Targeting β-Catenin can sensitise mesothelioma cells to cytotoxic drugs. -- Abstract: Malignant mesothelioma (MM) is an uncommon and particularly aggressive cancer associated with asbestos exposure, which currently presents an intractable clinical challenge. Wnt signaling has been reported to play a role in the neoplastic properties of mesothelioma cells but has not been investigated in detail in this cancer. We surveyed expression of Wnts, their receptors, and other key molecules in this pathway in well established in vitro mesothelioma models in comparison with primary mesothelial cultures. We also tested the biological response of MM cell lines to exogenous Wnt and secreted regulators, as well as targeting β-catenin. We detected frequent expression of Wnt3 and Wnt5a, as well as Fzd 2, 4 and 6. The mRNA of Wnt4, Fzd3, sFRP4, APC and axin2 were downregulated in MM relative to mesothelial cells while LEF1 was overexpressed in MM. Functionally, we observed that Wnt3a stimulated MM proliferation while sFRP4 was inhibitory. Furthermore, directly targeting β-catenin expression could sensitise MM cells to cytotoxic drugs. These results provide evidence for altered expression of a number of Wnt/Fzd signaling molecules in MM. Modulation of Wnt signaling in MM may prove a means of targeting proliferation and drug resistance in this cancer

Expression profile and function of Wnt signaling mechanisms in malignant mesothelioma cells

Energy Technology Data Exchange (ETDEWEB)

Fox, Simon A., E-mail: s.fox@curtin.edu.au [Molecular Pharmacology Laboratory, School of Pharmacy, Curtin Health Innovation Research Institute, Curtin University, Bentley, WA (Australia); Richards, Alex K.; Kusumah, Ivonne; Perumal, Vanathi [Molecular Pharmacology Laboratory, School of Pharmacy, Curtin Health Innovation Research Institute, Curtin University, Bentley, WA (Australia); Bolitho, Erin M. [Western Australian Institute for Medical Research, The University of Western Australia Centre for Medical Research, Perth, WA (Australia); Mutsaers, Steven E. [Lung Institute of Western Australia, Centre for Asthma Allergy and Respiratory Research, University of Western Australia, Nedlands (Australia); Centre for Cell Therapy and Regenerative Medicine, School of Medicine and Pharmacology, University of Western Australia and Western Australian Institute for Medical Research, Nedlands (Australia); Dharmarajan, Arun M. [School of Biomedical Sciences, Curtin Health Innovation Research Institute, Curtin University, Bentley, WA (Australia)

2013-10-11

Highlights: •Expression profile of Wnt pathway related genes in mesothelioma cells. •Differential expression of key Wnt pathway molecules and regulators. •Wnt3a stimulated mesothelioma growth whereas sFRP4 was inhibitory. •Targeting β-Catenin can sensitise mesothelioma cells to cytotoxic drugs. -- Abstract: Malignant mesothelioma (MM) is an uncommon and particularly aggressive cancer associated with asbestos exposure, which currently presents an intractable clinical challenge. Wnt signaling has been reported to play a role in the neoplastic properties of mesothelioma cells but has not been investigated in detail in this cancer. We surveyed expression of Wnts, their receptors, and other key molecules in this pathway in well established in vitro mesothelioma models in comparison with primary mesothelial cultures. We also tested the biological response of MM cell lines to exogenous Wnt and secreted regulators, as well as targeting β-catenin. We detected frequent expression of Wnt3 and Wnt5a, as well as Fzd 2, 4 and 6. The mRNA of Wnt4, Fzd3, sFRP4, APC and axin2 were downregulated in MM relative to mesothelial cells while LEF1 was overexpressed in MM. Functionally, we observed that Wnt3a stimulated MM proliferation while sFRP4 was inhibitory. Furthermore, directly targeting β-catenin expression could sensitise MM cells to cytotoxic drugs. These results provide evidence for altered expression of a number of Wnt/Fzd signaling molecules in MM. Modulation of Wnt signaling in MM may prove a means of targeting proliferation and drug resistance in this cancer.

Molecular profiling of signalling proteins for effects induced by the anti-cancer compound GSAO with 400 antibodies

International Nuclear Information System (INIS)

Cadd, Verity A; Hogg, Philip J; Harris, Adrian L; Feller, Stephan M

2006-01-01

GSAO (4-[N-[S-glutathionylacetyl]amino] phenylarsenoxide) is a hydrophilic derivative of the protein tyrosine phosphatase inhibitor phenylarsine oxide (PAO). It inhibits angiogenesis and tumour growth in mouse models and may be evaluated in a phase I clinical trial in the near future. Initial experiments have implicated GSAO in perturbing mitochondrial function. Other molecular effects of GSAO in human cells, for example on the phosphorylation of proteins, are still largely unknown. Peripheral white blood cells (PWBC) from healthy volunteers were isolated and used to profile effects of GSAO vs. a control compound, GSCA. Changes in site-specific phosphorylations, other protein modifications and expression levels of many signalling proteins were analysed using more than 400 different antibodies in Western blots. PWBC were initially cultured in low serum conditions, with the aim to reduce basal protein phosphorylation and to increase detection sensitivity. Under these conditions pleiotropic intracellular signalling protein changes were induced by GSAO. Subsequently, PWBC were cultured in 100% donor serum to reflect more closely in vivo conditions. This eliminated detectable GSAO effects on most, but not all signalling proteins analysed. Activation of the MAP kinase Erk2 was still observed and the paxillin homologue Hic-5 still displayed a major shift in protein mobility upon GSAO-treatment. A GSAO induced change in Hic-5 mobility was also found in endothelial cells, which are thought to be the primary target of GSAO in vivo. Serum conditions greatly influence the molecular activity profile of GSAO in vitro. Low serum culture, which is typically used in experiments analysing protein phosphorylation, is not suitable to study GSAO activity in cells. The signalling proteins affected by GSAO under high serum conditions are candidate surrogate markers for GSAO bioactivity in vivo and can be analysed in future clinical trials. GSAO effects on Hic-5 in endothelial cells may

Molecular pathway profiling of T lymphocyte signal transduction pathways; Th1 and Th2 genomic fingerprints are defined by TCR and CD28-mediated signaling

Directory of Open Access Journals (Sweden)

Smeets Ruben L

2012-03-01

Full Text Available Abstract Background T lymphocytes are orchestrators of adaptive immunity. Naïve T cells may differentiate into Th1, Th2, Th17 or iTreg phenotypes, depending on environmental co-stimulatory signals. To identify genes and pathways involved in differentiation of Jurkat T cells towards Th1 and Th2 subtypes we performed comprehensive transcriptome analyses of Jurkat T cells stimulated with various stimuli and pathway inhibitors. Results from these experiments were validated in a human experimental setting using whole blood and purified CD4+ Tcells. Results Calcium-dependent activation of T cells using CD3/CD28 and PMA/CD3 stimulation induced a Th1 expression profile reflected by increased expression of T-bet, RUNX3, IL-2, and IFNγ, whereas calcium-independent activation via PMA/CD28 induced a Th2 expression profile which included GATA3, RXRA, CCL1 and Itk. Knock down with siRNA and gene expression profiling in the presence of selective kinase inhibitors showed that proximal kinases Lck and PKCθ are crucial signaling hubs during T helper cell activation, revealing a clear role for Lck in Th1 development and for PKCθ in both Th1 and Th2 development. Medial signaling via MAPkinases appeared to be less important in these pathways, since specific inhibitors of these kinases displayed a minor effect on gene expression. Translation towards a primary, whole blood setting and purified human CD4+ T cells revealed that PMA/CD3 stimulation induced a more pronounced Th1 specific, Lck and PKCθ dependent IFNγ production, whereas PMA/CD28 induced Th2 specific IL-5 and IL-13 production, independent of Lck activation. PMA/CD3-mediated skewing towards a Th1 phenotype was also reflected in mRNA expression of the master transcription factor Tbet, whereas PMA/CD28-mediated stimulation enhanced GATA3 mRNA expression in primary human CD4+ Tcells. Conclusions This study identifies stimulatory pathways and gene expression profiles for in vitro skewing of T helper cell

Fast estimation of defect profiles from the magnetic flux leakage signal based on a multi-power affine projection algorithm.

Science.gov (United States)

Han, Wenhua; Shen, Xiaohui; Xu, Jun; Wang, Ping; Tian, Guiyun; Wu, Zhengyang

2014-09-04

Magnetic flux leakage (MFL) inspection is one of the most important and sensitive nondestructive testing approaches. For online MFL inspection of a long-range railway track or oil pipeline, a fast and effective defect profile estimating method based on a multi-power affine projection algorithm (MAPA) is proposed, where the depth of a sampling point is related with not only the MFL signals before it, but also the ones after it, and all of the sampling points related to one point appear as serials or multi-power. Defect profile estimation has two steps: regulating a weight vector in an MAPA filter and estimating a defect profile with the MAPA filter. Both simulation and experimental data are used to test the performance of the proposed method. The results demonstrate that the proposed method exhibits high speed while maintaining the estimated profiles clearly close to the desired ones in a noisy environment, thereby meeting the demand of accurate online inspection.

Social environment has a primary influence on the microbial and odor profiles of a chemically signaling songbird

Directory of Open Access Journals (Sweden)

Danielle June Whittaker

2016-08-01

Full Text Available Chemical signaling is an underappreciated means of communication among birds, as may be the potential contributions of symbiotic microbes to animal chemical communication in general. The dark-eyed junco (Junco hyemalis produces and detects volatile compounds that may be important in reproductive behavior. These compounds are found in preen oil secreted by the uropygial gland, and this gland supports diverse bacterial communities including genera known to produce some of these volatile compounds. We investigated the relative contributions of shared environments and genetic relatedness in shaping juncos’ symbiotic bacterial communities, and investigated whether these bacterial communities underlie juncos’ chemical signaling behavior. We sampled parents and nestlings at 9 junco nests during one breeding season at Mountain Lake Biological Station in Virginia, USA. From each individual, we collected swabs of the uropygial gland and the cloaca, preen oil, and a small blood sample for paternity testing. We characterized junco bacterial communities through 16S rRNA gene surveys and preen oil volatile compounds via gas chromatography-mass spectrometry. Nest membership and age class had the strongest influence on the structure of bacterial and volatile profiles. We compared father-offspring similarity based on paternity, and nestling similarity in nests containing full siblings and half siblings, and found that relatedness did not noticeably affect bacterial or volatile profiles. While we cannot rule out an influence of genetic relatedness on these profiles, it is clear that shared environments are more influential in shaping bacterial and volatile profiles among juncos.We did not find significant covariation between individual bacterial and volatile profiles. Possible explanations for this result include: 1 bacteria do not underlie volatile production; 2 ample redundancy in volatile production among bacterial types obscures covariation; or 3 the

Autoimmunity and autoinflammation: A systems view on signaling pathway dysregulation profiles.

Directory of Open Access Journals (Sweden)

Arsen Arakelyan

Full Text Available Autoinflammatory and autoimmune disorders are characterized by aberrant changes in innate and adaptive immunity that may lead from an initial inflammatory state to an organ specific damage. These disorders possess heterogeneity in terms of affected organs and clinical phenotypes. However, despite the differences in etiology and phenotypic variations, they share genetic associations, treatment responses and clinical manifestations. The mechanisms involved in their initiation and development remain poorly understood, however the existence of some clear similarities between autoimmune and autoinflammatory disorders indicates variable degrees of interaction between immune-related mechanisms.Our study aims at contributing to a holistic, pathway-centered view on the inflammatory condition of autoimmune and autoinflammatory diseases. We have evaluated similarities and specificities of pathway activity changes in twelve autoimmune and autoinflammatory disorders by performing meta-analysis of publicly available gene expression datasets generated from peripheral blood mononuclear cells, using a bioinformatics pipeline that integrates Self Organizing Maps and Pathway Signal Flow algorithms along with KEGG pathway topologies.The results reveal that clinically divergent disease groups share common pathway perturbation profiles. We identified pathways, similarly perturbed in all the studied diseases, such as PI3K-Akt, Toll-like receptor, and NF-kappa B signaling, that serve as integrators of signals guiding immune cell polarization, migration, growth, survival and differentiation. Further, two clusters of diseases were identified based on specifically dysregulated pathways: one gathering mostly autoimmune and the other mainly autoinflammatory diseases. Cluster separation was driven not only by apparent involvement of pathways implicated in adaptive immunity in one case, and inflammation in the other, but also by processes not explicitly related to immune

Shave-off depth profiling: Depth profiling with an absolute depth scale

International Nuclear Information System (INIS)

Nojima, M.; Maekawa, A.; Yamamoto, T.; Tomiyasu, B.; Sakamoto, T.; Owari, M.; Nihei, Y.

2006-01-01

Shave-off depth profiling provides profiling with an absolute depth scale. This method uses a focused ion beam (FIB) micro-machining process to provide the depth profile. We show that the shave-off depth profile of a particle reflected the spherical shape of the sample and signal intensities had no relationship to the depth. Through the introduction of FIB micro-sampling, the shave-off depth profiling of a dynamic random access memory (DRAM) tip was carried out. The shave-off profile agreed with a blue print from the manufacturing process. Finally, shave-off depth profiling is discussed with respect to resolutions and future directions

Generating strain signals under consideration of road surface profiles

Science.gov (United States)

Putra, T. E.; Abdullah, S.; Schramm, D.; Nuawi, M. Z.; Bruckmann, T.

2015-08-01

The current study aimed to develop the mechanism for generating strain signal utilising computer-based simulation. The strain data, caused by the acceleration, were undertaken from a fatigue data acquisition involving car movements. Using a mathematical model, the measured strain signals yielded to acceleration data used to describe the bumpiness of road surfaces. The acceleration signals were considered as an external disturbance on generating strain signals. Based on this comparison, both the actual and simulated strain data have similar pattern. The results are expected to provide new knowledge to generate a strain signal via a simulation.

Transcriptional profiling of ErbB signalling in mammary luminal epithelial cells - interplay of ErbB and IGF1 signalling through IGFBP3 regulation

International Nuclear Information System (INIS)

Worthington, Jenny; Bertani, Mariana; Chan, Hong-Lin; Gerrits, Bertran; Timms, John F

2010-01-01

Members of the ErbB family of growth factor receptors are intricately linked with epithelial cell biology, development and tumourigenesis; however, the mechanisms involved in their downstream signalling are poorly understood. Indeed, it is unclear how signal specificity is achieved and the relative contribution each receptor has to specific gene expression. Gene expression profiling of a human mammary luminal epithelial cell model of ErbB2-overexpression was carried out using cDNA microarrays with a common RNA reference approach to examine long-term overlapping and differential responses to EGF and heregulin beta1 treatment in the context of ErbB2 overexpression. Altered gene expression was validated using quantitative real time PCR and/or immunoblotting. One gene of interest was targeted for further characterisation, where the effects of siRNA-mediated silencing on IGF1-dependent signalling and cellular phenotype were examined and compared to the effects of loss of ErbB2 expression. 775 genes were differentially expressed and clustered in terms of their growth factor responsiveness. As well as identifying uncharacterized genes as novel targets of ErbB2-dependent signalling, ErbB2 overexpression augmented the induction of multiple genes involved in proliferation (e.g. MYC, MAP2K1, MAP2K3), autocrine growth factor signalling (VEGF, PDGF) and adhesion/cytoskeletal regulation (ZYX, THBS1, VCL, CNN3, ITGA2, ITGA3, NEDD9, TAGLN), linking them to the hyper-poliferative and altered adhesive phenotype of the ErbB2-overexpressing cells. We also report ErbB2-dependent down-regulation of multiple interferon-stimulated genes that may permit ErbB2-overexpressing cells to resist the anti-proliferative action of interferons. Finally, IGFBP3 was unique in its pattern of regulation and we further investigated a possible role for IGFBP3 down-regulation in ErbB2-dependent transformation through suppressed IGF1 signalling. We show that IGF1-dependent signalling and proliferation were

Expression profiling and functional analysis reveals that TOR is a key player in regulating photosynthesis and phytohormone signaling pathways in Arabidopsis.

Science.gov (United States)

Dong, Pan; Xiong, Fangjie; Que, Yumei; Wang, Kai; Yu, Lihua; Li, Zhengguo; Ren, Maozhi

2015-01-01

Target of rapamycin (TOR) acts as a master regulator to control cell growth by integrating nutrient, energy, and growth factors in all eukaryotic species. TOR plays an evolutionarily conserved role in regulating the transcription of genes associated with anabolic and catabolic processes in Arabidopsis, but little is known about the functions of TOR in photosynthesis and phytohormone signaling, which are unique features of plants. In this study, AZD8055 (AZD) was screened as the strongest active-site TOR inhibitor (asTORi) in Arabidopsis compared with TORIN1 and KU63794 (KU). Gene expression profiles were evaluated using RNA-seq after treating Arabidopsis seedlings with AZD. More than three-fold differentially expressed genes (DEGs) were identified in AZD-treated plants relative to rapamycin-treated plants in previous studies. Most of the DEGs and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways involved in cell wall elongation, ribosome biogenesis, and cell autophagy were common to both AZD- and rapamycin-treated samples, but AZD displayed much broader and more efficient inhibition of TOR compared with rapamycin. Importantly, the suppression of TOR by AZD resulted in remodeling of the expression profile of the genes associated with photosynthesis and various phytohormones, indicating that TOR plays a crucial role in modulating photosynthesis and phytohormone signaling in Arabidopsis. These newly identified DEGs expand the understanding of TOR signaling in plants. This study elucidates the novel functions of TOR in photosynthesis and phytohormone signaling and provides a platform to study the downstream targets of TOR in Arabidopsis.

Metabolic Profiles of Brain Metastases

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Tone F. Bathen

2013-01-01

Full Text Available Metastasis to the brain is a feared complication of systemic cancer, associated with significant morbidity and poor prognosis. A better understanding of the tumor metabolism might help us meet the challenges in controlling brain metastases. The study aims to characterize the metabolic profile of brain metastases of different origin using high resolution magic angle spinning (HR-MAS magnetic resonance spectroscopy (MRS to correlate the metabolic profiles to clinical and pathological information. Biopsy samples of human brain metastases (n = 49 were investigated. A significant correlation between lipid signals and necrosis in brain metastases was observed (p < 0.01, irrespective of their primary origin. The principal component analysis (PCA showed that brain metastases from malignant melanomas cluster together, while lung carcinomas were metabolically heterogeneous and overlap with other subtypes. Metastatic melanomas have higher amounts of glycerophosphocholine than other brain metastases. A significant correlation between microscopically visible lipid droplets estimated by Nile Red staining and MR visible lipid signals was observed in metastatic lung carcinomas (p = 0.01, indicating that the proton MR visible lipid signals arise from cytoplasmic lipid droplets. MRS-based metabolomic profiling is a useful tool for exploring the metabolic profiles of metastatic brain tumors.

An astrometric search for a stellar companion to the sun

International Nuclear Information System (INIS)

Perlmutter, S.

1986-01-01

A companion star within 0.8 pc of the Sun has been postulated to explain a possible 26 Myr periodicity in mass extinctions of species on the Earth. Such a star would already be catalogued in the Yale Bright Star catalogue unless it is fainter than m/sub nu/ = 6.5; this limits the possible stellar types for an unseen companion to red dwarfs, brown dwarfs, or compact objects. Red dwarfs account for about 75% of these possible stars. We describe here the design and development of an astrometric search for a nearby red dwarf companion with a six-month peak-to-peak parallax of ≥2.5 arcseconds. We are measuring the parallax of 2770 candidate faint red stars selected from the Dearborn Observatory catalogue. An automated 30-inch telescope and CCD camera system collect digitized images of the candidate stars, along with a 13' x 16' surrounding field of background stars. Second-epoch images, taken a few months later, are registered to the first epoch images using the background stars as fiducials. An apparent motion, m/sub a/, of the candidate stars is found to a precision of σ/sub m//sub a/ ≅ 0.08 pixel ≅ 0.2 arcseconds for fields with N/sub fiducial/ ≥ 10 fiducial stars visible above the background noise. This precision is sufficient to detect the parallactic motion of a star at 0.8 pc with a two month interval between the observation epochs. Images with fewer fiducial stars above background noise are observed with a longer interval between epochs. If a star is found with high parallactic motion, we will confirm its distance with further parallax measurements, photometry, and spectral studies, and will measure radial velocity and proper motion to establish its orbit. We have demonstrated the search procedure with observations of 41 stars, and have shown that none of these is a nearby star. 37 refs., 16 figs., 3 tabs

Integrated Optimization of Speed Profiles and Power Split for a Tram with Hybrid Energy Storage Systems on a Signalized Route

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Zhuang Xiao

2018-02-01

Full Text Available A tram with on-board hybrid energy storage systems based on batteries and supercapacitors is a new option for the urban traffic system. This configuration enables the tram to operate in both catenary zones and catenary-free zones, and the storage of regenerative braking energy for later usage. This paper presents a multiple phases integrated optimization (MPIO method for the coordination of speed profiles and power split considering the signal control strategy. The objective is to minimize the equivalent total energy consumption of all the power sources, which includes both the energy from the traction substation and energy storage systems. The constraints contain running time, variable gradients and curves, speed limits, power balance and signal time at some intersections. The integrated optimization problem is formulated as a multiple phases model based on the characters of the signalized route. An integrated calculation framework, using hp-adaptive pseudospectral method, is proposed for the integrated optimization problem. The effectiveness of the method is verified under fixed time signal (FTS control strategy and tram priority signal (TPS control strategy. Illustrative results show that this method can be successfully applied for trams with hybrid energy storage systems to improve their energy efficiency.

Demand side management using profile steering

NARCIS (Netherlands)

Gerards, Marco Egbertus Theodorus; Toersche, Hermen; Hoogsteen, Gerwin; van der Klauw, Thijs; Hurink, Johann L.; Smit, Gerardus Johannes Maria

2015-01-01

Many Demand Side Management (DSM) approaches use energy prices as steering signals. This paper shows that such steering signals may result in power quality problems and high losses. As an alternative, this paper proposes to use desired (e.g., flat) power profiles as steering signals and presents an

High-throughput profiling of signaling networks identifies mechanism-based combination therapy to eliminate microenvironmental resistance in acute myeloid leukemia.

Science.gov (United States)

Zeng, Zhihong; Liu, Wenbin; Tsao, Twee; Qiu, YiHua; Zhao, Yang; Samudio, Ismael; Sarbassov, Dos D; Kornblau, Steven M; Baggerly, Keith A; Kantarjian, Hagop M; Konopleva, Marina; Andreeff, Michael

2017-09-01

The bone marrow microenvironment is known to provide a survival advantage to residual acute myeloid leukemia cells, possibly contributing to disease recurrence. The mechanisms by which stroma in the microenvironment regulates leukemia survival remain largely unknown. Using reverse-phase protein array technology, we profiled 53 key protein molecules in 11 signaling pathways in 20 primary acute myeloid leukemia samples and two cell lines, aiming to understand stroma-mediated signaling modulation in response to the targeted agents temsirolimus (MTOR), ABT737 (BCL2/BCL-XL), and Nutlin-3a (MDM2), and to identify the effective combination therapy targeting acute myeloid leukemia in the context of the leukemia microenvironment. Stroma reprogrammed signaling networks and modified the sensitivity of acute myeloid leukemia samples to all three targeted inhibitors. Stroma activated AKT at Ser473 in the majority of samples treated with single-agent ABT737 or Nutlin-3a. This survival mechanism was partially abrogated by concomitant treatment with temsirolimus plus ABT737 or Nutlin-3a. Mapping the signaling networks revealed that combinations of two inhibitors increased the number of affected proteins in the targeted pathways and in multiple parallel signaling, translating into facilitated cell death. These results demonstrated that a mechanism-based selection of combined inhibitors can be used to guide clinical drug selection and tailor treatment regimens to eliminate microenvironment-mediated resistance in acute myeloid leukemia. Copyright© 2017 Ferrata Storti Foundation.

Wind Profiling Radar

Data.gov (United States)

National Oceanic and Atmospheric Administration, Department of Commerce — Clutter present in radar return signals as used for wind profiling is substantially removed by carrying out a Daubechies wavelet transformation on a time series of...

Network modeling reveals prevalent negative regulatory relationships between signaling sectors in Arabidopsis immune signaling.

Directory of Open Access Journals (Sweden)

Masanao Sato

Full Text Available Biological signaling processes may be mediated by complex networks in which network components and network sectors interact with each other in complex ways. Studies of complex networks benefit from approaches in which the roles of individual components are considered in the context of the network. The plant immune signaling network, which controls inducible responses to pathogen attack, is such a complex network. We studied the Arabidopsis immune signaling network upon challenge with a strain of the bacterial pathogen Pseudomonas syringae expressing the effector protein AvrRpt2 (Pto DC3000 AvrRpt2. This bacterial strain feeds multiple inputs into the signaling network, allowing many parts of the network to be activated at once. mRNA profiles for 571 immune response genes of 22 Arabidopsis immunity mutants and wild type were collected 6 hours after inoculation with Pto DC3000 AvrRpt2. The mRNA profiles were analyzed as detailed descriptions of changes in the network state resulting from the genetic perturbations. Regulatory relationships among the genes corresponding to the mutations were inferred by recursively applying a non-linear dimensionality reduction procedure to the mRNA profile data. The resulting static network model accurately predicted 23 of 25 regulatory relationships reported in the literature, suggesting that predictions of novel regulatory relationships are also accurate. The network model revealed two striking features: (i the components of the network are highly interconnected; and (ii negative regulatory relationships are common between signaling sectors. Complex regulatory relationships, including a novel negative regulatory relationship between the early microbe-associated molecular pattern-triggered signaling sectors and the salicylic acid sector, were further validated. We propose that prevalent negative regulatory relationships among the signaling sectors make the plant immune signaling network a "sector

Phosphoproteomic profiling of in vivo signaling in liver by the mammalian target of rapamycin complex 1 (mTORC1.

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Gokhan Demirkan

Full Text Available Our understanding of signal transduction networks in the physiological context of an organism remains limited, partly due to the technical challenge of identifying serine/threonine phosphorylated peptides from complex tissue samples. In the present study, we focused on signaling through the mammalian target of rapamycin (mTOR complex 1 (mTORC1, which is at the center of a nutrient- and growth factor-responsive cell signaling network. Though studied extensively, the mechanisms involved in many mTORC1 biological functions remain poorly understood.We developed a phosphoproteomic strategy to purify, enrich and identify phosphopeptides from rat liver homogenates. Using the anticancer drug rapamycin, the only known target of which is mTORC1, we characterized signaling in liver from rats in which the complex was maximally activated by refeeding following 48 hr of starvation. Using protein and peptide fractionation methods, TiO(2 affinity purification of phosphopeptides and mass spectrometry, we reproducibly identified and quantified over four thousand phosphopeptides. Along with 5 known rapamycin-sensitive phosphorylation events, we identified 62 new rapamycin-responsive candidate phosphorylation sites. Among these were PRAS40, gephyrin, and AMP kinase 2. We observed similar proportions of increased and reduced phosphorylation in response to rapamycin. Gene ontology analysis revealed over-representation of mTOR pathway components among rapamycin-sensitive phosphopeptide candidates.In addition to identifying potential new mTORC1-mediated phosphorylation events, and providing information relevant to the biology of this signaling network, our experimental and analytical approaches indicate the feasibility of large-scale phosphoproteomic profiling of tissue samples to study physiological signaling events in vivo.

Deciphering Phosphotyrosine-Dependent Signaling Networks in Cancer by SH2 Profiling

Science.gov (United States)

Machida, Kazuya; Khenkhar, Malik

2012-01-01

It has been a decade since the introduction of SH2 profiling, a modular domain-based molecular diagnostics tool. This review covers the original concept of SH2 profiling, different analytical platforms, and their applications, from the detailed analysis of single proteins to broad screening in translational research. Illustrated by practical examples, we discuss the uniqueness and advantages of the approach as well as its limitations and challenges. We provide guidance for basic researchers and oncologists who may consider SH2 profiling in their respective cancer research, especially for those focusing on tyrosine phosphoproteomics. SH2 profiling can serve as an alternative phosphoproteomics tool to dissect aberrant tyrosine kinase pathways responsible for individual malignancies, with the goal of facilitating personalized diagnostics for the treatment of cancer. PMID:23226573

Signal transduction profile of chemical sensitisers in dendritic cells: An endpoint to be included in a cell-based in vitro alternative approach to hazard identification?

International Nuclear Information System (INIS)

Neves, Bruno Miguel; Goncalo, Margarida; Figueiredo, Americo; Duarte, Carlos B.; Lopes, Maria Celeste; Cruz, Maria Teresa

2011-01-01

The development of non-animal testing methods for the assessment of skin sensitisation potential is an urgent challenge within the framework of existing and forthcoming legislation. Efforts have been made to replace current animal tests, but so far no alternative methods have been developed. It is widely recognised that alternatives to animal testing cannot be accomplished with a single approach, but rather will require the integration of results obtained from different in vitro and in silico assays. The argument subjacent to the development of in vitro dendritic cell (DC)-based assays is that sensitiser-induced changes in the DC phenotype can be differentiated from those induced by irritants. This assumption is derived from the unique capacity of DC to convert environmental signals encountered at the skin into a receptor expression pattern (MHC class II molecules, co-stimulatory molecules, chemokine receptors) and a soluble mediator release profile that will stimulate T lymphocytes. Since signal transduction cascades precede changes in surface marker expression and cytokine/chemokine secretion, these phenotypic modifications are a consequence of a signal transduction profile that is specifically triggered by sensitisers and not by irritants. A limited number of studies have addressed this subject and the present review attempts to summarise and highlight all of the signalling pathways modulated by skin sensitisers and irritants. Furthermore, we conclude this review by focusing on the most promising strategies suitable for inclusion into a cell-based in vitro alternative approach to hazard identification.

Tyrosine kinase signalling in breast cancer: Modulation of tyrosine kinase signalling in human breast cancer through altered expression of signalling intermediates

International Nuclear Information System (INIS)

Kairouz, Rania; Daly, Roger J

2000-01-01

The past decade has seen the definition of key signalling pathways downstream of receptor tyrosine kinases (RTKs) in terms of their components and the protein-protein interactions that facilitate signal transduction. Given the strong evidence that links signalling by certain families of RTKs to the progression of breast cancer, it is not surprising that the expression profile of key downstream signalling intermediates in this disease has also come under scrutiny, particularly because some exhibit transforming potential or amplify mitogenic signalling pathways when they are overexpressed. Reflecting the diverse cellular processes regulated by RTKs, it is now clear that altered expression of such signalling proteins in breast cancer may influence not only cellular proliferation (eg Grb2) but also the invasive properties of the cancer cells (eg EMS1/cortactin)

How and Why to Do VLBI on GPS

Science.gov (United States)

Dickey, J. M.

2010-01-01

In order to establish the position of the center of mass of the Earth in the International Celestial Reference Frame, observations of the Global Positioning Satellite (GPS) constellation using the IVS network are important. With a good frame-tie between the coordinates of the IVS telescopes and nearby GPS receivers, plus a common local oscillator reference signal, it should be possible to observe and record simultaneously signals from the astrometric calibration sources and the GPS satellites. The standard IVS solution would give the atmospheric delay and clock offsets to use in analysis of the GPS data. Correlation of the GPS signals would then give accurate orbital parameters of the satellites in the ICRF reference frame, i.e., relative to the positions of the astrometric sources. This is particularly needed to determine motion of the center of mass of the earth along the rotation axis.

A deep investigation into the adipogenesis mechanism: Profile of microRNAs regulating adipogenesis by modulating the canonical Wnt/β-catenin signaling pathway

Directory of Open Access Journals (Sweden)

Li Jing

2010-05-01

Full Text Available Abstract Background MicroRNAs (miRNAs are a large class of tiny non-coding RNAs (~22-24 nt that regulate diverse biological processes at the posttranscriptional level by controlling mRNA stability or translation. As a molecular switch, the canonical Wnt/β-catenin signaling pathway should be suppressed during the adipogenesis; However, activation of this pathway leads to the inhibition of lipid depots formation. The aim of our studies was to identify miRNAs that might be involved in adipogenesis by modulating WNT signaling pathway. Here we established two types of cell model, activation and repression of WNT signaling, and investigated the expression profile of microRNAs using microarray assay. Results The high throughput microarray data revealed 18 miRNAs that might promote adipogenesis by repressing WNT signaling: miR-210, miR-148a, miR-194, miR-322 etc. Meanwhile, we also identified 29 miRNAs that might have negative effect on adipogenesis by activating WNT signaling: miR-344, miR-27 and miR-181 etc. The targets of these miRNAs were also analysed by bioinformatics. To validate the predicted targets and the potential functions of these identified miRNAs, the mimics of miR-210 were transfected into 3T3-L1 cells and enlarged cells with distinct lipid droplets were observed; Meanwhile, transfection with the inhibitor of miR-210 could markedly decrease differentiation-specific factors at the transcription level, which suggested the specific role of miR-210 in promoting adipogenesis. Tcf7l2, the predicted target of miR-210, is a transcription factor triggering the downstream responsive genes of WNT signaling, was blocked at transcription level. Furthermore, the activity of luciferase reporter bearing Tcf7l2 mRNA 3' UTR was decreased after co-transfection with miR-210 in HEK-293FT cells. Last but not least, the protein expression level of β-catenin was increased in the lithium (LiCl treated 3T3-L1 cells after transfection with miR-210. These

Signal generation in gas detectors

International Nuclear Information System (INIS)

Stillman, A.

1993-01-01

This tutorial describes the generation of electrical signals in gas detectors. Ionization of the gas by the passage of charged particles generates these signals. Starting with the Bethe-Bloch equation, the treatment is a general introduction to the production of ion-pairs in gas devices. I continue with the characterization of the ionization as an electrical signal, and calculate the signal current in a simple example. Another example demonstrates the effect of space charge on the design of a detector. The AGS Booster ionization profile monitor is a model for this calculation

Astrometrically registered simultaneous observations of the 22 GHz H{sub 2}O and 43 GHz SiO masers toward R Leonis Minoris using KVN and source/frequency phase referencing

Energy Technology Data Exchange (ETDEWEB)

Dodson, Richard; Rioja, María J.; Jung, Tae-Hyun; Sohn, Bong-Won; Byun, Do-Young; Cho, Se-Hyung; Lee, Sang-Sung; Kim, Jongsoo; Kim, Kee-Tae; Oh, Chung-Sik; Han, Seog-Tae; Je, Do-Heung; Chung, Moon-Hee; Wi, Seog-Oh; Kang, Jiman; Lee, Jung-Won; Chung, Hyunsoo; Kim, Hyo-Ryoung; Kim, Hyun-Goo; Lee, Chang-Hoon, E-mail: rdodson@kasi.re.kr [Korea Astronomy and Space Science Institute, Daedeokdae-ro 776, Yuseong-gu, Daejeon 305-348 (Korea, Republic of); and others

2014-11-01

Oxygen-rich asymptotic giant branch (AGB) stars can be intense emitters of SiO (v = 1 and 2, J = 1 → 0) and H{sub 2}O maser lines at 43 and 22 GHz, respectively. Very long baseline interferometry (VLBI) observations of the maser emission provide a unique tool to probe the innermost layers of the circumstellar envelopes in AGB stars. Nevertheless, the difficulties in achieving astrometrically aligned H{sub 2}O and v = 1 and v = 2 SiO maser maps have traditionally limited the physical constraints that can be placed on the SiO maser pumping mechanism. We present phase-referenced simultaneous spectral-line VLBI images for the SiO v = 1 and v = 2, J = 1 → 0, and H{sub 2}O maser emission around the AGB star R LMi, obtained from the Korean VLBI Network (KVN). The simultaneous multi-channel receivers of the KVN offer great possibilities for astrometry in the frequency domain. With this facility, we have produced images with bona fide absolute astrometric registration between high-frequency maser transitions of different species to provide the positions of the H{sub 2}O maser emission and the center of the SiO maser emission, hence reducing the uncertainty in the proper motions for R LMi by an order of magnitude over that from Hipparcos. This is the first successful demonstration of source frequency phase referencing for millimeter VLBI spectral-line observations and also where the ratio between the frequencies is not an integer.

Fizeau interferometry from space: a challenging frontier in global astrometry

Science.gov (United States)

Loreggia, Davide; Gardiol, Daniele; Gai, Mario; Lattanzi, Mario G.; Busonero, Deborah

2004-10-01

The design and performance of a Fizeau interferometer with long focal length and large field of view are discussed. The optical scheme presented is well suited for very accurate astrometric measurements from space, being optimised, in terms of geometry and aberrations, to observe astronomical targets down to the visual magnitude mV=20, with a measurement accuracy of 10 microarcseconds at mV=15. This study is in the context of the next generation astrometric space missions, in particular for a mission profile similar to that of the Gaia mission of the European Space Agency. Beyond the accuracy goal, the great effort in optical aberrations reduction, particularly distortion, aims at the optimal exploitation of data acquisition done with CCD arrays working in Time Delay Integration mode. The design solution we present reaches the astrometric goals with a field of view of 0.5 square degrees.

Optimization of E r-density profile for efficient pumping and high signal gain in Erbium-doped fiber amplifiers

International Nuclear Information System (INIS)

Arzi, E.; Hassani, A.; Esmaili Seraji, F.

2000-01-01

Recently, the Erbium-Doped Fiber Amplifier has been shown to have a great potentiality in Fiber-Optics Communication. A model is suggested for calculating the E r-density profile, using the propagation and rate equations of a homogeneous two-level laser medium in Erbium-Doped Fiber Amplifier, such that efficient pumping and high signal gain is achieved for different fiber waveguide structure. The result of this numerical calculation shows that the gain, compared with the gain of the existing Erbium-Doped Fiber Amplifier, is higher by a factor of 3.5. This model is applicable in all active waveguides and any other dopant as well

Another look at AM Herculis - radio-astrometric campaign with the e-EVN at 6 cm

Science.gov (United States)

Gawroński, M. P.; Goździewski, K.; Katarzyński, K.; Rycyk, G.

2018-03-01

We conducted radio-interferometric observations of the well-known binary cataclysmic system AM Herculis. This particular system is formed from a magnetic white dwarf (primary) and a red dwarf (secondary), and it is the prototype of so-called polars. Our observations were conducted with the European VLBI Network (EVN) in e-EVN mode at 5 GHz. We obtained six astrometric measurements spanning 1 yr, which make it possible to update the annual parallax for this system with the best precision to date (π = 11.29 ± 0.08 mas), which is equivalent to a distance of 88.6 ± 0.6 pc. The system was observed mostly in the quiescent phase (visual magnitude mv ˜ 15.3), when the radio emission was at the level of about 300 μJy. Our analysis suggests that the radio flux of AM Herculis is modulated with the orbital motion. Such specific properties of the radiation can be explained using an emission mechanism like the scenario proposed for V471 Tau and, in general, for RS CVn-type stars. In this scenario, the radio emission arises near the surface of the red dwarf, where the global magnetic field strength may reach a few kG. We argue that the quiescent radio emission distinguishes AM Herculis and AR Ursae Majoris (a second known persistent radio polar) from other polars, which are systems with a magnetized secondary star.

Gene expression profiling of low-grade endometrial stromal sarcoma indicates fusion protein-mediated activation of the Wnt signaling pathway.

Science.gov (United States)

Przybyl, Joanna; Kidzinski, Lukasz; Hastie, Trevor; Debiec-Rychter, Maria; Nusse, Roel; van de Rijn, Matt

2018-05-01

Low-grade endometrial stromal sarcomas (LGESS) harbor chromosomal translocations that affect proteins associated with chromatin remodeling Polycomb Repressive Complex 2 (PRC2), including SUZ12, PHF1 and EPC1. Roughly half of LGESS also demonstrate nuclear accumulation of β-catenin, which is a hallmark of Wnt signaling activation. However, the targets affected by the fusion proteins and the role of Wnt signaling in the pathogenesis of these tumors remain largely unknown. Here we report the results of a meta-analysis of three independent gene expression profiling studies on LGESS and immunohistochemical evaluation of nuclear expression of β-catenin and Lef1 in 112 uterine sarcoma specimens obtained from 20 LGESS and 89 LMS patients. Our results demonstrate that 143 out of 310 genes overexpressed in LGESS are known to be directly regulated by SUZ12. In addition, our gene expression meta-analysis shows activation of multiple genes implicated in Wnt signaling. We further emphasize the role of the Wnt signaling pathway by demonstrating concordant nuclear expression of β-catenin and Lef1 in 7/16 LGESS. Based on our findings, we suggest that LGESS-specific fusion proteins disrupt the repressive function of the PRC2 complex similar to the mechanism seen in synovial sarcoma, where the SS18-SSX fusion proteins disrupt the mSWI/SNF (BAF) chromatin remodeling complex. We propose that these fusion proteins in LGESS contribute to overexpression of Wnt ligands with subsequent activation of Wnt signaling pathway and formation of an active β-catenin/Lef1 transcriptional complex. These observations could lead to novel therapeutic approaches that focus on the Wnt pathway in LGESS. Copyright © 2018 Elsevier Inc. All rights reserved.

Simulation of X-ray signals

International Nuclear Information System (INIS)

Weller, A.

1980-12-01

A parameterized form of the local emissivity is used for the simulation of soft X-ray signals obtained on the WENDELSTEIN W VII-A stellarator with a 30 diode array. Numerical calculation of the line integrals for the different viewing angles and for a set of rotation angles covering one full signal period provides simulated periodic signals. In addition radial profiles of the line integrated emmission averaged over some time interval or at specific times, the relative amplitude modulation and the relative phase of the oscillations are calculated. These have to be fitted to the corresponding measured signals and profiles in order to get a reliable picture of the local emissivity. The model can take into account two poloidally asymmetric contributions of the type m = 1,2,3 or 4 (m = poloidal mode number). Each asymmetry can be generated in two ways (modulation of intensity and of geometry parameters). Besides an uniform rotation of the asymmetric terms some specific simple time evolution of the signals can be included (non-uniform rotation, growth of oscillations, sawtooth oscillations). The various input parameters are illustrated and the result of a simulation procedure is presented for a particular discharge in W VII-A. (orig.)

SPE-NMR metabolite sub-profiling of urine

NARCIS (Netherlands)

Jacobs, D.M.; Spiesser, L.; Garnier, M.; Roo, de N.; Dorsten, van F.; Hollebrands, B.; Velzen, van E.; Draijer, R.; Duynhoven, van J.P.M.

2012-01-01

NMR-based metabolite profiling of urine is a fast and reproducible method for detection of numerous metabolites with diverse chemical properties. However, signal overlap in the (1)H NMR profiles of human urine may hamper quantification and identification of metabolites. Therefore, a new method has

Update on Astrometric Follow-Up at Apache Point Observatory by Adler Planetarium

Science.gov (United States)

Nault, Kristie A.; Brucker, Melissa; Hammergren, Mark

2016-10-01

We began our NEO astrometric follow-up and characterization program in 2014 Q4 using about 500 hours of observing time per year with the Astrophysical Research Consortium (ARC) 3.5m telescope at Apache Point Observatory (APO). Our observing is split into 2 hour blocks approximately every other night for astrometry (this poster) and several half-nights per month for spectroscopy (see poster by M. Hammergren et al.) and light curve studies.For astrometry, we use the ARC Telescope Imaging Camera (ARCTIC) with an SDSS r filter, in 2 hour observing blocks centered around midnight. ARCTIC has a magnitude limit of V~23 in 60s, and we target 20 NEOs per session. ARCTIC has a FOV 1.57 times larger and a readout time half as long as the previous imager, SPIcam, which we used from 2014 Q4 through 2015 Q3. Targets are selected primarily from the Minor Planet Center's (MPC) NEO Confirmation Page (NEOCP), and NEA Observation Planning Aid; we also refer to JPL's What's Observable page, the Spaceguard Priority List and Faint NEOs List, and requests from other observers. To quickly adapt to changing weather and seeing conditions, we create faint, midrange, and bright target lists. Detected NEOs are measured with Astrometrica and internal software, and the astrometry is reported to the MPC.As of June 19, 2016, we have targeted 2264 NEOs, 1955 with provisional designations, 1582 of which were detected. We began observing NEOCP asteroids on January 30, 2016, and have targeted 309, 207 of which were detected. In addition, we serendipitously observed 281 moving objects, 201 of which were identified as previously known objects.This work is based on observations obtained with the Apache Point Observatory 3.5m telescope, which is owned and operated by the Astrophysical Research Consortium. We gratefully acknowledge support from NASA NEOO award NNX14AL17G and thank the University of Chicago Department of Astronomy and Astrophysics for observing time in 2014.

915-MHz Radar Wind Profiler (915RWP) Handbook

Energy Technology Data Exchange (ETDEWEB)

Coulter, R

2005-01-01

The 915 MHz radar wind profiler/radio acoustic sounding system (RWP/RASS) measures wind profiles and backscattered signal strength between (nominally) 0.1 km and 5 km and virtual temperature profiles between 0.1 km and 2.5 km. It operates by transmitting electromagnetic energy into the atmosphere and measuring the strength and frequency of backscattered energy. Virtual temperatures are recovered by transmitting an acoustic signal vertically and measuring the electromagnetic energy scattered from the acoustic wavefront. Because the propagation speed of the acoustic wave is proportional to the square root of the virtual temperature of the air, the virtual temperature can be recovered by measuring the Doppler shift of the scattered electromagnetic wave.

Defense to Sclerotinia sclerotiorum in oilseed rape is associated with the sequential activations of salicylic acid signaling and jasmonic acid signaling.

Science.gov (United States)

Wang, Zheng; Tan, Xiaoli; Zhang, Zhiyan; Gu, Shoulai; Li, Guanying; Shi, Haifeng

2012-03-01

Signaling pathways mediated by salicylic acid (SA) and jasmonic acid (JA) are widely studied in various host-pathogen interactions. For oilseed rape (Brassica napus)-Sclerotinia sclerotiorum interaction, little information of the two signaling molecules has been described in detail. In this study, we showed that the level of SA and JA in B. napus leaves was increased with a distinct temporal profile, respectively, after S. sclerotiorum infection. The application of SA or methyl jasmonate enhanced the resistance to the pathogen. Furthermore, a set of SA and JA signaling marker genes were identified from B. napus and were used to monitor the signaling responses to S. sclerotiorum infection by examining the temporal expression profiles of these marker genes. The SA signaling was activated within 12h post inoculation (hpi) followed by the JA signaling which was activated around 24 hpi. In addition, SA-JA crosstalk genes were activated during this process. These results suggested that defense against S. sclerotiorum in oilseed rape is associated with a sequential activation of SA signaling and JA signaling, which provide important clues for designing strategies to curb diseases caused by S. sclerotioru. Copyright © 2011 Elsevier Ireland Ltd. All rights reserved.

HRR Profiling on Integrated Radar-Communication Systems Using OFDM-PCSF Signals

Directory of Open Access Journals (Sweden)

Xuanxuan Tian

2017-01-01

Full Text Available In order to improve both the transmission data rate and the range resolution simultaneously in integrated radar-communication (RadCom systems, orthogonal frequency-division multiplexing with phase-coded and stepped-frequency (OFDM-PCSF waveform is proposed. A corresponding high resolution range (HRR profile generation method is also presented. We first perform OFDM-PCSF waveform design by combining the intrapulse phase coding with the interpulse stepped-frequency modulation. We then give the ambiguity function (AF based on the presented waveforms. Then, the synthetic range profile (SRP processing to achieve HRR performance is analyzed. Theoretical analysis and simulation results show that the proposed methods can achieve HRR profiles of the targets and high data rate transmissions, while a relative low computational complexity can be achieved.

Uniform, optimal signal processing of mapped deep-sequencing data.

Science.gov (United States)

Kumar, Vibhor; Muratani, Masafumi; Rayan, Nirmala Arul; Kraus, Petra; Lufkin, Thomas; Ng, Huck Hui; Prabhakar, Shyam

2013-07-01

Despite their apparent diversity, many problems in the analysis of high-throughput sequencing data are merely special cases of two general problems, signal detection and signal estimation. Here we adapt formally optimal solutions from signal processing theory to analyze signals of DNA sequence reads mapped to a genome. We describe DFilter, a detection algorithm that identifies regulatory features in ChIP-seq, DNase-seq and FAIRE-seq data more accurately than assay-specific algorithms. We also describe EFilter, an estimation algorithm that accurately predicts mRNA levels from as few as 1-2 histone profiles (R ∼0.9). Notably, the presence of regulatory motifs in promoters correlates more with histone modifications than with mRNA levels, suggesting that histone profiles are more predictive of cis-regulatory mechanisms. We show by applying DFilter and EFilter to embryonic forebrain ChIP-seq data that regulatory protein identification and functional annotation are feasible despite tissue heterogeneity. The mathematical formalism underlying our tools facilitates integrative analysis of data from virtually any sequencing-based functional profile.

Deciphering of ADP-induced, phosphotyrosine-dependent signaling networks in human platelets by Src-homology 2 region (SH2)-profiling.

Science.gov (United States)

Schweigel, Hardy; Geiger, Jörg; Beck, Florian; Buhs, Sophia; Gerull, Helwe; Walter, Ulrich; Sickmann, Albert; Nollau, Peter

2013-03-01

Tyrosine phosphorylation plays a central role in signal transduction controlling many important biological processes. In platelets, the activity of several signaling proteins is controlled by tyrosine phosphorylation ensuring proper platelet activation and aggregation essential for regulation of the delicate balance between bleeding and hemostasis. Here, we applied Src-homology 2 region (SH2)-profiling for deciphering of the phosphotyrosine state of human platelets activated by adenosine diphosphate (ADP). Applying a panel of 31 SH2-domains, rapid and complex regulation of the phosphotyrosine state of platelets was observed after ADP stimulation. Specific inhibition of platelet P2Y receptors by synthetic drugs revealed a major role for the P2Y1 receptor in tyrosine phosphorylation. Concomitant activation of protein kinase A (PKA) abolished ADP-induced tyrosine phosphorylation in a time and concentration-dependent manner. Given the fact that PKA activity is negatively regulated by the P2Y12 receptor, our data provide evidence for a novel link of synergistic control of the state of tyrosine phosphorylation by both P2Y receptors. By SH2 domain pull down and MS/MS analysis, we identified distinct tyrosine phosphorylation sites in cell adhesion molecules, intracellular adapter proteins and phosphatases suggesting a major, functional role of tyrosine phosphorylation of theses candidate proteins in ADP-dependent signaling in human platelets. © 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Different profiles of notch signaling in cigarette smoke-induced pulmonary emphysema and bleomycin-induced pulmonary fibrosis.

Science.gov (United States)

Li, Shi; Hu, Xiaofei; Wang, Zheng; Wu, Meng; Zhang, Jinnong

2015-05-01

Different profiles of Notch signaling mediate naive T cell differentiation which might be involved in pulmonary emphysema and fibrosis. C57BL/6 mice were randomized into cigarette smoke (CS) exposure, bleomycin (BLM) exposure, and two separate groups of control for sham exposure to CS or BLM. The paratracheal lymph nodes of the animals were analyzed by real-time PCR and immunohistochemistry. Morphometry of the lung parenchyma, measurement of the cytokines, and cytometry of the bronchoalveolar lavage fluid (BALF) were also done accordingly. In comparison with controls, all Notch receptors and ligands were upregulated by chronic CS exposure, especially Notch3 and DLL1 (P emphysema-like morphology and Th1-biased inflammation. While Notch3 and DLL1 were downregulated by BLM exposure (P pulmonary emphysema. Unable to initiate the Th1 response or inhibit it may lead to Th2 polarization and aberrant repair.

Layered signaling regulatory networks analysis of gene expression involved in malignant tumorigenesis of non-resolving ulcerative colitis via integration of cross-study microarray profiles.

Science.gov (United States)

Fan, Shengjun; Pan, Zhenyu; Geng, Qiang; Li, Xin; Wang, Yefan; An, Yu; Xu, Yan; Tie, Lu; Pan, Yan; Li, Xuejun

2013-01-01

Ulcerative colitis (UC) was the most frequently diagnosed inflammatory bowel disease (IBD) and closely linked to colorectal carcinogenesis. By far, the underlying mechanisms associated with the disease are still unclear. With the increasing accumulation of microarray gene expression profiles, it is profitable to gain a systematic perspective based on gene regulatory networks to better elucidate the roles of genes associated with disorders. However, a major challenge for microarray data analysis is the integration of multiple-studies generated by different groups. In this study, firstly, we modeled a signaling regulatory network associated with colorectal cancer (CRC) initiation via integration of cross-study microarray expression data sets using Empirical Bayes (EB) algorithm. Secondly, a manually curated human cancer signaling map was established via comprehensive retrieval of the publicly available repositories. Finally, the co-differently-expressed genes were manually curated to portray the layered signaling regulatory networks. Overall, the remodeled signaling regulatory networks were separated into four major layers including extracellular, membrane, cytoplasm and nucleus, which led to the identification of five core biological processes and four signaling pathways associated with colorectal carcinogenesis. As a result, our biological interpretation highlighted the importance of EGF/EGFR signaling pathway, EPO signaling pathway, T cell signal transduction and members of the BCR signaling pathway, which were responsible for the malignant transition of CRC from the benign UC to the aggressive one. The present study illustrated a standardized normalization approach for cross-study microarray expression data sets. Our model for signaling networks construction was based on the experimentally-supported interaction and microarray co-expression modeling. Pathway-based signaling regulatory networks analysis sketched a directive insight into colorectal carcinogenesis

UCAC3 PIXEL PROCESSING

International Nuclear Information System (INIS)

Zacharias, Norbert

2010-01-01

The third US Naval Observatory CCD Astrograph Catalog, UCAC3, was released at the IAU General Assembly on 2009 August 10. It is a highly accurate, all-sky astrometric catalog of about 100 million stars in the R = 8-16 mag range. Recent epoch observations are based on over 270,000 CCD exposures, which have been re-processed for the UCAC3 release applying traditional and new techniques. Challenges in the data have been high dark current and asymmetric image profiles due to the poor charge transfer efficiency of the detector. Non-Gaussian image profile functions were explored and correlations are found for profile fit parameters with properties of the CCD frames. These were utilized to constrain the image profile fit models and adequately describe the observed point-spread function of stellar images with a minimum number of free parameters. Using an appropriate model function, blended images of double stars could be fit successfully. UCAC3 positions are derived from two-dimensional image profile fits with a five-parameter, symmetric Lorentz profile model. Internal precisions of about 5 mas per coordinate and single exposure are found, which are degraded by the atmosphere to about 10 mas. However, systematic errors exceeding 100 mas are present in the x, y data which have been corrected in the astrometric reductions following the x, y data reduction step described here.

Estimating Planetary Boundary Layer Heights from NOAA Profiler Network Wind Profiler Data

Science.gov (United States)

Molod, Andrea M.; Salmun, H.; Dempsey, M

2015-01-01

An algorithm was developed to estimate planetary boundary layer (PBL) heights from hourly archived wind profiler data from the NOAA Profiler Network (NPN) sites located throughout the central United States. Unlike previous studies, the present algorithm has been applied to a long record of publicly available wind profiler signal backscatter data. Under clear conditions, summertime averaged hourly time series of PBL heights compare well with Richardson-number based estimates at the few NPN stations with hourly temperature measurements. Comparisons with clear sky reanalysis based estimates show that the wind profiler PBL heights are lower by approximately 250-500 m. The geographical distribution of daily maximum PBL heights corresponds well with the expected distribution based on patterns of surface temperature and soil moisture. Wind profiler PBL heights were also estimated under mostly cloudy conditions, and are generally higher than both the Richardson number based and reanalysis PBL heights, resulting in a smaller clear-cloudy condition difference. The algorithm presented here was shown to provide a reliable summertime climatology of daytime hourly PBL heights throughout the central United States.

Expression and secretory profile of buffalo fetal fibroblasts and Wharton's jelly feeder layers.

Science.gov (United States)

Parmar, Mehtab S; Mishra, Smruti Ranjan; Somal, Anjali; Pandey, Sriti; Kumar, G Sai; Sarkar, Mihir; Chandra, Vikash; Sharma, G Taru

2017-05-01

The present study examined the comparative expression and secretory profile of vital signaling molecules in buffalo fetal fibroblasts (BFF) and Wharton's jelly (BWJ) feeder layers at different passages. Both feeder layers were expanded up to 8th passage. Signaling molecules viz. bone morphogenetic protein 4 (BMP4), fibroblast growth factor 2 (FGF2), leukemia inhibitory factor (LIF) and transforming growth factor beta 1 (TGFB1) and pluripotency-associated transcriptional factors (POU5F1, SOX2, NANOG, KLF4, MYC and FOXD3) were immunolocalized in the both feeder types. A clear variation in the expression pattern of key signaling molecules with passaging was registered in both feeders compared to primary culture (0 passage). The conditioned media (CM) was collected from different passages (2, 4, 6, 8) of both the feeder layers and was quantified using enzyme-linked immunosorbent assay (ELISA). Concomitant to expression profile, protein quantification also revealed differences in the concentration of signaling molecules at different time points. Conjointly, expression and secretory profile revealed that 2nd passage of BFF and 6th passage of BWJ exhibit optimal levels of key signaling molecules thus may be selected as best passages for embryonic stem cells (ESCs) propagation. Further, the effect of mitomycin-C (MMC) treatment on the expression profile of signaling molecules in the selected passages of BFF and BWJ revealed that MMC modulates the expression profile of these molecules. In conclusion, the results indicate that feeder layers vary in expression and secretory pattern of vital signaling molecules with passaging. Based on these findings, the appropriate feeder passages may be selected for the quality propagation of buffalo ESCs. Copyright © 2017 Elsevier B.V. All rights reserved.

Analysis of global gene expression profile of rice in response to methylglyoxal indicates its possible role as a stress signal molecule

Directory of Open Access Journals (Sweden)

Charanpreet eKaur

2015-09-01

Full Text Available Methylglyoxal (MG is a toxic metabolite produced primarily as a byproduct of glycolysis. Being a potent glycating agent, it can readily bind macromolecules like DNA, RNA or proteins, modulating their expression and activity. In plants, despite the known inhibitory effects of MG on growth and development, still limited information is available about the molecular mechanisms and response pathways elicited upon elevation in MG levels. To gain insight into the molecular basis of MG response, we have investigated changes in global gene expression profiles in rice upon exposure to exogenous MG using GeneChip microarrays. Initially, growth of rice seedlings was monitored in response to increasing MG concentrations which could retard plant growth in a dose-dependent manner. Upon exposure to 10 mM concentration of MG, a total of 1685 probe sets were up- or down-regulated by more than 1.5-fold in shoot tissues within 16 h. These were classified into ten functional categories. The genes involved in signal transduction such as, protein kinases and transcription factors, were significantly over-represented in the perturbed transcriptome, of which several are known to be involved in abiotic and biotic stress response indicating a cross-talk between MG-responsive and stress-responsive signal transduction pathways. Through in silico studies, we could predict 7-8 bp long conserved motif as a possible MG-responsive element (MGRE in the 1 kb upstream region of genes that were more than ten-fold up- or down-regulated in the analysis. Since several perturbations were found in signaling cascades in response to MG, we hereby suggest that it plays an important role in signal transduction probably acting as a stress signal molecule.

VIRAC: the VVV Infrared Astrometric Catalogue

Science.gov (United States)

Smith, L. C.; Lucas, P. W.; Kurtev, R.; Smart, R.; Minniti, D.; Borissova, J.; Jones, H. R. A.; Zhang, Z. H.; Marocco, F.; Contreras Peña, C.; Gromadzki, M.; Kuhn, M. A.; Drew, J. E.; Pinfield, D. J.; Bedin, L. R.

2018-02-01

We present VIRAC version 1, a near-infrared proper motion and parallax catalogue of the VISTA Variables in the Via Lactea (VVV) survey for 312 587 642 unique sources averaged across all overlapping pawprint and tile images covering 560 deg2 of the bulge of the Milky Way and southern disc. The catalogue includes 119 million high-quality proper motion measurements, of which 47 million have statistical uncertainties below 1 mas yr-1. In the 11 stars and brown dwarfs, subdwarfs, white dwarfs) and kinematic distance measurements of young stellar objects. Nearby objects discovered include LTT 7251 B, an L7 benchmark companion to a G dwarf with over 20 published elemental abundances, a bright L subdwarf, VVV 1256-6202, with extremely blue colours and nine new members of the 25 pc sample. We also demonstrate why this catalogue remains useful in the era of Gaia. Future versions will be based on profile fitting photometry, use the Gaia absolute reference frame and incorporate the longer time baseline of the VVV extended survey.

Sonic Detection and Ranging (SODAR) Wind Profiler Instrument Handbook

Energy Technology Data Exchange (ETDEWEB)

Coulter, Richard L. [Argonne National Lab. (ANL), Argonne, IL (United States)

2016-04-01

The SODAR (Sonic Detection and Ranging) wind profiler measures wind profiles and backscattered signal strength between (nominally) 15 meters (m) and 500 m. It operates by transmitting acoustic energy into the atmosphere and measuring the strength and frequency of backscattered energy. The strength of the backscattered signal is determined by the strength of temperature inhomogeneities with size on the order of 10 centimeters (cm). Assuming the scattering elements in the atmosphere are moving with the mean wind, the horizontal wind field can be derived. The U.S. Department of Energy (DOE)’s Atmospheric Radiation Measurement (ARM) Climate Research Facility Mobile Facility (AMF) has a system developed by Scintec, Inc. that transmits a sequence of frequencies to enhance signal determination.

Meteorological information in GPS-RO reflected signals

Directory of Open Access Journals (Sweden)

K. Boniface

2011-07-01

Full Text Available Vertical profiles of the atmosphere can be obtained globally with the radio-occultation technique. However, the lowest layers of the atmosphere are less accurately extracted. A good description of these layers is important for the good performance of Numerical Weather Prediction (NWP systems, and an improvement of the observational data available for the low troposphere would thus be of great interest for data assimilation. We outline here how supplemental meteorological information close to the surface can be extracted whenever reflected signals are available. We separate the reflected signal through a radioholographic filter, and we interpret it with a ray tracing procedure, analyzing the trajectories of the electromagnetic waves over a 3-D field of refractive index. A perturbation approach is then used to perform an inversion, identifying the relevant contribution of the lowest layers of the atmosphere to the properties of the reflected signal, and extracting some supplemental information to the solution of the inversion of the direct propagation signals. It is found that there is a significant amount of useful information in the reflected signal, which is sufficient to extract a stand-alone profile of the low atmosphere, with a precision of approximately 0.1 %. The methodology is applied to one reflection case.

Combination of geo- pedo- and technogenic magnetic and geochemical signals in soil profiles - Diversification and its interpretation: A new approach.

Science.gov (United States)

Szuszkiewicz, Marcin; Łukasik, Adam; Magiera, Tadeusz; Mendakiewicz, Maria

2016-07-01

Magnetic and geochemical parameters of soils are determined with respect to geology, pedogenesis and anthropopression. Depending on local conditions these factors affect magnetic and geochemical signals simultaneously or in various configurations. We examined four type of soils (Entic Podzol, Eutric Cambisol, Humic Cambisol and Dystric Cambisol) developed on various bedrock (the Tumlin Sandstone, basaltoid, amphibolite and serpentinite, respectively). Our primary aim was to characterize the origin and diversification of the magnetic and geochemical signal in soils in order to distinguish the most reliable methods for correct interpretation of measured parameters. Presented data include selected parameters, both magnetic (mass magnetic susceptibility - χ, frequency-dependent magnetic susceptibility - χfd and thermomagnetic susceptibility measurement - TSM), and geochemical (selected heavy metal contents: Co, Cr, Cu, Fe, Mn, Ni, Pb, Zn). Additionally, the enrichment factor (EF) and index of geoaccumulation (Igeo) were calculated. Our results suggest the following: (1) the χ/Fe ratio may be a reliable indicator for determining changes of magnetic signal origin in soil profiles; (2) magnetic and geochemical signals are simultaneously higher (the increment of χ and lead and zinc was noted) in topsoil horizons because of the deposition of technogenic magnetic particles (TMPs); (3) EF and Igeo evaluated for lead and zinc unambiguously showed anthropogenic influence in terms of increasing heavy metal contents in topsoil regardless of bedrock or soil type; (4) magnetic susceptibility measurements supported by TSM curves for soil samples of different genetic horizons are a helpful tool for interpreting the origin and nature of the mineral phases responsible for the changes of magnetic susceptibility values. Copyright © 2016 Elsevier Ltd. All rights reserved.

Modeling of very low frequency (VLF radio wave signal profile due to solar flares using the GEANT4 Monte Carlo simulation coupled with ionospheric chemistry

Directory of Open Access Journals (Sweden)

S. Palit

2013-09-01

Full Text Available X-ray photons emitted during solar flares cause ionization in the lower ionosphere (~60 to 100 km in excess of what is expected to occur due to a quiet sun. Very low frequency (VLF radio wave signals reflected from the D-region of the ionosphere are affected by this excess ionization. In this paper, we reproduce the deviation in VLF signal strength during solar flares by numerical modeling. We use GEANT4 Monte Carlo simulation code to compute the rate of ionization due to a M-class flare and a X-class flare. The output of the simulation is then used in a simplified ionospheric chemistry model to calculate the time variation of electron density at different altitudes in the D-region of the ionosphere. The resulting electron density variation profile is then self-consistently used in the LWPC code to obtain the time variation of the change in VLF signal. We did the modeling of the VLF signal along the NWC (Australia to IERC/ICSP (India propagation path and compared the results with observations. The agreement is found to be very satisfactory.

Prediction of Clinically Relevant Safety Signals of Nephrotoxicity through Plasma Metabolite Profiling

Directory of Open Access Journals (Sweden)

W. B. Mattes

2013-01-01

Full Text Available Addressing safety concerns such as drug-induced kidney injury (DIKI early in the drug pharmaceutical development process ensures both patient safety and efficient clinical development. We describe a unique adjunct to standard safety assessment wherein the metabolite profile of treated animals is compared with the MetaMap Tox metabolomics database in order to predict the potential for a wide variety of adverse events, including DIKI. To examine this approach, a study of five compounds (phenytoin, cyclosporin A, doxorubicin, captopril, and lisinopril was initiated by the Technology Evaluation Consortium under the auspices of the Drug Safety Executive Council (DSEC. The metabolite profiles for rats treated with these compounds matched established reference patterns in the MetaMap Tox metabolomics database indicative of each compound’s well-described clinical toxicities. For example, the DIKI associated with cyclosporine A and doxorubicin was correctly predicted by metabolite profiling, while no evidence for DIKI was found for phenytoin, consistent with its clinical picture. In some cases the clinical toxicity (hepatotoxicity, not generally seen in animal studies, was detected with MetaMap Tox. Thus metabolite profiling coupled with the MetaMap Tox metabolomics database offers a unique and powerful approach for augmenting safety assessment and avoiding clinical adverse events such as DIKI.

Characteristics of time-domain optical coherence tomography profiles generated from blood-saline mixtures

International Nuclear Information System (INIS)

Popescu, Dan P; Sowa, Michael G

2009-01-01

Time-domain optical coherence tomography (OCT) employing a 1300 nm broadband source is used to study flowing blood-saline mixtures with blood concentration ranging from 20% to 100%. The study emphasizes the characteristics of the recorded OCT signal and its connection with the properties of the corresponding fluids. There are three regions with distinct properties along the compounded OCT profiles showing the signal dependence on depth. The recorded OCT signal increases for the first 80 μm into the fluid. The flow characteristics of the solution and the average spatial orientation of the blood cells can be extracted from this region of the OCT profile. In the second region, the OCT signal decreases with depth into the sample. An admixture of quasi-ballistic light detected after a single reflection and light recorded after undergoing multiple-scattering interactions with blood cells contributes to the signal recorded in this region. As a consequence, the attenuation of OCT signal with depth into the sample shows a weak dependence on the concentration of blood over this region. The third region starts at a depth of approximately 0.6 mm within all the studied blood-saline mixtures. OCT signal recorded from this region is dominated by light detected after multiple-scattering interactions with blood cells. This region of the OCT profile is characterized by a reduced rate of attenuation with depth compared to the rate recorded along the second region of the compounded profile. A geometrical method is used to estimate the contribution from multiple-scattered light to the OCT signal. The multiple-scattered component shows a parabolic dependence on blood concentration with a maximum contribution at a blood concentration of 55%.

Sensitivity of CTA to dark matter signals from the Galactic Center

Energy Technology Data Exchange (ETDEWEB)

Pierre, Mathias [Département Physique, École Normale Supérieure de Cachan, 61 Avenue du Président Wilson, Cachan, 94230 France (France); Siegal-Gaskins, Jennifer M. [California Institute of Technology, 1200 E. California Blvd., Pasadena, CA, 91125 (United States); Scott, Pat, E-mail: mathias.pierre@ens-cachan.fr, E-mail: jsg@tapir.caltech.edu, E-mail: patscott@physics.mcgill.ca [Department of Physics, McGill University, 3600 Rue University, Montréal, Québec, H3A 2T8 Canada (Canada)

2014-06-01

The Galactic Center is one of the most promising targets for indirect detection of dark matter with gamma rays. We investigate the sensitivity of the upcoming Cherenkov Telescope Array (CTA) to dark matter annihilation and decay in the Galactic Center. As the inner density profile of the Milky Way's dark matter halo is uncertain, we study the impact of the slope of the Galactic density profile, inwards of the Sun, on the prospects for detecting a dark matter signal with CTA. Adopting the Ring Method to define the signal and background regions in an ON-OFF analysis approach, we find that the sensitivity achieved by CTA to annihilation signals is strongly dependent on the inner profile slope, whereas the dependence is more mild in the case of dark matter decay. Surprisingly, we find that the optimal choice of signal and background regions is virtually independent of the assumed density profile. For the fiducial case of a Navarro-Frenk-White profile, we find that CTA will be able to probe annihilation cross-sections well below the canonical thermal relic value for dark matter masses from a few tens of GeV up to ∼ 5 TeV for annihilation to τ{sup +}τ{sup −}, and will achieve only a slightly weaker sensitivity for annihilation to b b-bar or μ{sup +}μ{sup −}. CTA will improve significantly on current sensitivity to annihilation signals for dark matter masses above ∼ 100 GeV, covering parameter space that is complementary to that probed by searches with the Fermi Large Area Telescope. The interpretation of apparent excesses in the measured cosmic-ray electron and positron spectra as signals of dark matter decay will also be testable with CTA observations of the Galactic Center. We demonstrate that both for annihilation and for decay, including spectral information for hard channels (such as μ{sup +}μ{sup −} and τ{sup +}τ{sup −}) leads to enhanced sensitivity for dark matter masses above m{sub DM} ∼ 200 GeV.

Sensitivity of CTA to dark matter signals from the Galactic Center

International Nuclear Information System (INIS)

Pierre, Mathias; Siegal-Gaskins, Jennifer M.; Scott, Pat

2014-01-01

The Galactic Center is one of the most promising targets for indirect detection of dark matter with gamma rays. We investigate the sensitivity of the upcoming Cherenkov Telescope Array (CTA) to dark matter annihilation and decay in the Galactic Center. As the inner density profile of the Milky Way's dark matter halo is uncertain, we study the impact of the slope of the Galactic density profile, inwards of the Sun, on the prospects for detecting a dark matter signal with CTA. Adopting the Ring Method to define the signal and background regions in an ON-OFF analysis approach, we find that the sensitivity achieved by CTA to annihilation signals is strongly dependent on the inner profile slope, whereas the dependence is more mild in the case of dark matter decay. Surprisingly, we find that the optimal choice of signal and background regions is virtually independent of the assumed density profile. For the fiducial case of a Navarro-Frenk-White profile, we find that CTA will be able to probe annihilation cross-sections well below the canonical thermal relic value for dark matter masses from a few tens of GeV up to ∼ 5 TeV for annihilation to τ + τ − , and will achieve only a slightly weaker sensitivity for annihilation to b b-bar or μ + μ − . CTA will improve significantly on current sensitivity to annihilation signals for dark matter masses above ∼ 100 GeV, covering parameter space that is complementary to that probed by searches with the Fermi Large Area Telescope. The interpretation of apparent excesses in the measured cosmic-ray electron and positron spectra as signals of dark matter decay will also be testable with CTA observations of the Galactic Center. We demonstrate that both for annihilation and for decay, including spectral information for hard channels (such as μ + μ − and τ + τ − ) leads to enhanced sensitivity for dark matter masses above m DM ∼ 200 GeV

In vivo immunotoxicity of perfluorooctane sulfonate in BALB/c mice: Identification of T-cell receptor and calcium-mediated signaling pathway disruption through gene expression profiling of the spleen.

Science.gov (United States)

Lv, Qi-Yan; Wan, Bin; Guo, Liang-Hong; Yang, Yu; Ren, Xiao-Min; Zhang, Hui

2015-10-05

Perfluorooctane sulfonate (PFOS) is a persistent organic pollutant that is used worldwide and is continuously being detected in biota and the environment, thus presenting potential threats to the ecosystem and human health. Although PFOS is highly immunotoxic, its underlying molecular mechanisms remain largely unknown. The present study examined PFOS-induced immunotoxicity in the mouse spleen and explored its underlying mechanisms by gene expression profiling. Oral exposure of male BALB/c mice for three weeks followed by one-week recovery showed that a 10 mg/kg/day PFOS exposure damaged the splenic architecture, inhibited T-cell proliferation in response to mitogen, and increased the percentages of T helper (CD3(+)CD4(+)) and cytotoxic T (CD3(+)CD8(+)) cells, despite the decrease in the absolute number of these cells. A delayed type of PFOS immunotoxicity was observed, which mainly occurred during the recovery period. Global gene expression profiling of mouse spleens and QRT-PCR analyses suggest that PFOS inhibited the expression of genes involved in cell cycle regulation and NRF2-mediated oxidative stress response, and upregulated those in TCR signaling, calcium signaling, and p38/MAPK signaling pathways. Western blot analysis confirmed that the expressions of CAMK4, THEMIS, and CD3G, which were involved in the upregulated pathways, were induced upon PFOS exposure. Acute PFOS exposure modulated calcium homoeostasis in splenocytes. These results indicate that PFOS exposure can activate TCR signaling and calcium ion influx, which provides a clue for the potential mechanism of PFOS immunotoxicity. The altered signaling pathways by PFOS treatment as revealed in the present study might facilitate in better understanding PFOS immunotoxicity and explain the association between immune disease and PFOS exposure. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Single-cell network profiling of peripheral blood mononuclear cells from healthy donors reveals age- and race-associated differences in immune signaling pathway activation.

Science.gov (United States)

Longo, Diane M; Louie, Brent; Putta, Santosh; Evensen, Erik; Ptacek, Jason; Cordeiro, James; Wang, Ena; Pos, Zoltan; Hawtin, Rachael E; Marincola, Francesco M; Cesano, Alessandra

2012-02-15

A greater understanding of the function of the human immune system at the single-cell level in healthy individuals is critical for discerning aberrant cellular behavior that occurs in settings such as autoimmunity, immunosenescence, and cancer. To achieve this goal, a systems-level approach capable of capturing the response of the interdependent immune cell types to external stimuli is required. In this study, an extensive characterization of signaling responses in multiple immune cell subpopulations within PBMCs from a cohort of 60 healthy donors was performed using single-cell network profiling (SCNP). SCNP is a multiparametric flow cytometry-based approach that enables the simultaneous measurement of basal and evoked signaling in multiple cell subsets within heterogeneous populations. In addition to establishing the interindividual degree of variation within a broad panel of immune signaling responses, the possible association of any observed variation with demographic variables including age and race was investigated. Using half of the donors as a training set, multiple age- and race-associated variations in signaling responses in discrete cell subsets were identified, and several were subsequently confirmed in the remaining samples (test set). Such associations may provide insight into age-related immune alterations associated with high infection rates and diminished protection following vaccination and into the basis for ethnic differences in autoimmune disease incidence and treatment response. SCNP allowed for the generation of a functional map of healthy immune cell signaling responses that can provide clinically relevant information regarding both the mechanisms underlying immune pathological conditions and the selection and effect of therapeutics.

Objective measurement of inhaler inhalation flow profile using acoustic methods

Energy Technology Data Exchange (ETDEWEB)

Lacalle, H.; Taylor, T.E.; Marco, S.; Reilly, R.B.

2016-07-01

Patients with asthma and chronic obstructive pulmonary diseases (COPD) are mostly treated with inhalers that deliver medication directly to their airways. Drug delivery from dry powder inhalers (DPIs) is very much reliant on the inhalation manoeuvre, specifically the peak inspiratory flow rate (PIFR), inspiratory capacity (IC) and inhalation rise time (IRT) of the inhalation. It has been widely reported that patients may not follow correct inhalation technique while using their inhaler. In this study, a novel acoustic method is proposed to accurately estimate inhalation flow profile using only one inhalation recording for calibration. An Ellipta DPI was placed inside an airtight container with a spirometer connected in order to measure inhalation flow parameters. An acoustic recording device (Inhaler Compliance Assessment (INCA)) was also attached to the DPI. Inhalation audio and flow signals were recorded simultaneously. The data were collected from 20 healthy subjects while performing inhaler inhalations at a range of inspiratory flow rates. A power law regression model was computed to obtain the relationship between the acoustic envelope of the inhalation and flow profile of each recording. Each model was tested on the remaining audio signals to estimate flow profile. The average estimation error was found to be 10.5±0.3% for estimating flow profile from audio signals. Inhalation flow profile parameters (PIFR, IC and IRT) could then be measured from the estimated flow profile with high accuracy giving information on user inhalation technique. This method may assist in improving patient inhaler adherence and overall disease control. (Author)

Information content in reflected signals during GPS Radio Occultation observations

Science.gov (United States)

Aparicio, Josep M.; Cardellach, Estel; Rodríguez, Hilda

2018-04-01

The possibility of extracting useful information about the state of the lower troposphere from the surface reflections that are often detected during GPS radio occultations (GPSRO) is explored. The clarity of the reflection is quantified, and can be related to properties of the surface and the low troposphere. The reflected signal is often clear enough to show good phase coherence, and can be tracked and processed as an extension of direct non-reflected GPSRO atmospheric profiles. A profile of bending angle vs. impact parameter can be obtained for these reflected signals, characterized by impact parameters that are below the apparent horizon, and that is a continuation at low altitude of the standard non-reflected bending angle profile. If there were no reflection, these would correspond to tangent altitudes below the local surface, and in particular below the local mean sea level. A forward operator is presented, for the evaluation of the bending angle of reflected GPSRO signals, given atmospheric properties as described by a numerical weather prediction system. The operator is an extension, at lower impact parameters, of standard bending angle operators, and reproduces both the direct and reflected sections of the measured profile. It can be applied to the assimilation of the reflected section of the profile as supplementary data to the direct section. Although the principle is also applicable over land, this paper is focused on ocean cases, where the topographic height of the reflecting surface, the sea level, is better known a priori.

The Role of Interpretation and Diagnosis in Signal Processing

Science.gov (United States)

1988-01-01

122b. TELEPHONE (Incude Area Code) 2cOFIESYMBOL Elisabeth Colford - RLE Contract Reports I(617)258-5871I DO Form 1473, JUN 84 Previous editions ame...6] S. Lee, E. Milios, R. Greiner , and J. Rossiter. Signal ab- stractions in the machine analysis of radar signals for ice profiling. In International

Gamma-ray emission profile measurements during JET ICRH discharges

Energy Technology Data Exchange (ETDEWEB)

Howarth, P.J.A. [Birmingham Univ. (United Kingdom); Adams, J.M.; Bond, D.S.; Watkins, N. [AEA Technology, Harwell (United Kingdom); Jarvis, O.N.; Marcus, F.B.; Sadler, G.; Belle, P. van [Commission of the European Communities, Abingdon (United Kingdom). JET Joint Undertaking

1994-12-31

Ion Cyclotron Resonant Heating (ICRH) that is tuned to minority fuel ions can induce an energy diffusion of the heated species and create high energy tail temperatures of {approx} 1 MeV. The most energetic of these accelerated minority ions can undergo nuclear reactions with impurity Be and C that produces {gamma}-ray emission from the decay of the excited product nuclei. This RF-induced {gamma}-ray emission has been recorded using the JET neutron emission profile diagnostic which is capable of distinguishing neutrons and {gamma}-rays. Appropriate data processing has enabled the RF-induced {gamma}-ray emission signals to be isolated from the {gamma}-ray emission signals associated with neutron interactions in the material surrounding the profile monitor. The 2-d {gamma}-ray emission profiles show that virtually all the radiation originates from the low field side of the RF resonance layer, as expected from RF-induced pitch angle diffusion. The emission profiles indicate the presence of a small population of resonant {sup 3}He ions that possess orbits lying near the passing-trapped boundary. (author) 6 refs., 4 figs.

Using scale heights derived from bottomside ionograms for modelling the IRI topside profile

Directory of Open Access Journals (Sweden)

B. W. Reinisch

2004-01-01

Full Text Available Groundbased ionograms measure the Chapman scale height HT at the F2-layer peak that is used to construct the topside profile. After a brief review of the topside model extrapolation technique, comparisons are presented between the modeled profiles with incoherent scatter radar and satellite measurements for the mid latitude and equatorial ionosphere. The total electron content TEC, derived from measurements on satellite beacon signals, is compared with the height-integrated profiles ITEC from the ionograms. Good agreement is found with the ISR profiles and with results using the low altitude TOPEX satellite. The TEC values derived from GPS signal analysis are systematically larger than ITEC. It is suggested to use HT , routinely measured by a large number of Digisondes around the globe, for the construction of the IRI topside electron density profile.

Adaptive Sensing Based on Profiles for Sensor Systems

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Yoshiteru Ishida

2009-10-01

Full Text Available This paper proposes a profile-based sensing framework for adaptive sensor systems based on models that relate possibly heterogeneous sensor data and profiles generated by the models to detect events. With these concepts, three phases for building the sensor systems are extracted from two examples: a combustion control sensor system for an automobile engine, and a sensor system for home security. The three phases are: modeling, profiling, and managing trade-offs. Designing and building a sensor system involves mapping the signals to a model to achieve a given mission.

Integrative RNA- and miRNA-Profile Analysis Reveals a Likely Role of BR and Auxin Signaling in Branch Angle Regulation of B. napus

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Hongtao Cheng

2017-05-01

Full Text Available Oilseed rape (Brassica napus L. is the second largest oilseed crop worldwide and one of the most important oil crops in China. As a component of plant architecture, branch angle plays an important role in yield performance, especially under high-density planting conditions. However, the mechanisms underlying the regulation of branch angle are still largely not understood. Two oilseed rape lines with significantly different branch angles were used to conduct RNA- and miRNA-profiling at two developmental stages, identifying differential expression of a large number of genes involved in auxin- and brassinosteroid (BR-related pathways. Many auxin response genes, including AUX1, IAA, GH3, and ARF, were enriched in the compact line. However, a number of genes involved in BR signaling transduction and biosynthesis were down-regulated. Differentially expressed miRNAs included those involved in auxin signaling transduction. Expression patterns of most target genes were fine-tuned by related miRNAs, such as miR156, miR172, and miR319. Some miRNAs were found to be differentially expressed at both developmental stages, including three miR827 members. Our results provide insight that auxin- and BR-signaling may play a pivotal role in branch angle regulation.

X-Ray Pulsar Profile Recovery Based on Tracking-Differentiator

Directory of Open Access Journals (Sweden)

Dapeng Zhang

2016-01-01

Full Text Available The profile recovery is an important work in X-ray pulsar-based navigation. It is a key step for the analysis on the pulsar signal’s characteristic and the computing of time of arrival (TOA. This paper makes an argument for an algorithm based on the tracking-differentiator (TD to recover the profile from the low Signal-to-Noise Ratio (SNR signals. In the method, a TD filter with cascade structure is designed which has very low phase delay and amplitude distortion. In the simulation experiment, two typical pulsars (PSR B0531+21 and PSR B1937+21 are used to verify the algorithm’s performance. The simulation results show that the method satisfies the application requirements in the aspects of SNR and profile fidelity. By processing the data collected by the Rossi X-Ray Timing Explorer (RXTE satellite in space, similar results can also be achieved.

Transcriptional profiling of putative human epithelial stem cells

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Koçer Salih S

2008-07-01

Full Text Available Abstract Background Human interfollicular epidermis is sustained by the proliferation of stem cells and their progeny, transient amplifying cells. Molecular characterization of these two cell populations is essential for better understanding of self renewal, differentiation and mechanisms of skin pathogenesis. The purpose of this study was to obtain gene expression profiles of alpha 6+/MHCI+, transient amplifying cells and alpha 6+/MHCI-, putative stem cells, and to compare them with existing data bases of gene expression profiles of hair follicle stem cells. The expression of Major Histocompatibility Complex (MHC class I, previously shown to be absent in stem cells in several tissues, and alpha 6 integrin were used to isolate MHCI positive basal cells, and MHCI low/negative basal cells. Results Transcriptional profiles of the two cell populations were determined and comparisons made with published data for hair follicle stem cell gene expression profiles. We demonstrate that presumptive interfollicular stem cells, alpha 6+/MHCI- cells, are enriched in messenger RNAs encoding surface receptors, cell adhesion molecules, extracellular matrix proteins, transcripts encoding members of IFN-alpha family proteins and components of IFN signaling, but contain lower levels of transcripts encoding proteins which take part in energy metabolism, cell cycle, ribosome biosynthesis, splicing, protein translation, degradation, DNA replication, repair, and chromosome remodeling. Furthermore, our data indicate that the cell signaling pathways Notch1 and NF-κB are downregulated/inhibited in MHC negative basal cells. Conclusion This study demonstrates that alpha 6+/MHCI- cells have additional characteristics attributed to stem cells. Moreover, the transcription profile of alpha 6+/MHCI- cells shows similarities to transcription profiles of mouse hair follicle bulge cells known to be enriched for stem cells. Collectively, our data suggests that alpha 6+/MHCI- cells

Detecting planets around stars in nearby galaxies

NARCIS (Netherlands)

Covone, G; de Ritis, R; Dominik, M; Marino, AA

The only way to detect planets around stars at distances greater than or similar to several kpc is by (photometric or astrometric) microlensing (mu L) observations. In this paper, we show that the capability of photometric mu L extends to the detection of signals caused by planets around stars in

Ocean Profile Measurements During the Seasonal Ice Zone Reconnaissance Surveys Ocean Profiles

Science.gov (United States)

2017-01-01

converted to engineering units by the TSK Converter and recorded on the laptop computer . A backup recording of the raw received signal is made with...S, V, internal waves/mixing Clouds and the Evolution of the SIZ in Beaufort and Chukchi Seas Schweiger Lindsay, Zhang, Maslanik, Lawrence...Atmospheric profiles (dropsondes, micro-aircraft), cloud top/base heights UpTempO buoys for understanding and prediction…. Steele UpTempO buoy

Singular Location and Signaling Profile of Adenosine A2A-Cannabinoid CB1 Receptor Heteromers in the Dorsal Striatum.

Science.gov (United States)

Moreno, Estefanía; Chiarlone, Anna; Medrano, Mireia; Puigdellívol, Mar; Bibic, Lucka; Howell, Lesley A; Resel, Eva; Puente, Nagore; Casarejos, María J; Perucho, Juan; Botta, Joaquín; Suelves, Nuria; Ciruela, Francisco; Ginés, Silvia; Galve-Roperh, Ismael; Casadó, Vicent; Grandes, Pedro; Lutz, Beat; Monory, Krisztina; Canela, Enric I; Lluís, Carmen; McCormick, Peter J; Guzmán, Manuel

2018-04-01

The dorsal striatum is a key node for many neurobiological processes such as motor activity, cognitive functions, and affective processes. The proper functioning of striatal neurons relies critically on metabotropic receptors. Specifically, the main adenosine and endocannabinoid receptors present in the striatum, ie, adenosine A 2A receptor (A 2A R) and cannabinoid CB 1 receptor (CB 1 R), are of pivotal importance in the control of neuronal excitability. Facilitatory and inhibitory functional interactions between striatal A 2A R and CB 1 R have been reported, and evidence supports that this cross-talk may rely, at least in part, on the formation of A 2A R-CB 1 R heteromeric complexes. However, the specific location and properties of these heteromers have remained largely unknown. Here, by using techniques that allowed a precise visualization of the heteromers in situ in combination with sophisticated genetically modified animal models, together with biochemical and pharmacological approaches, we provide a high-resolution expression map and a detailed functional characterization of A 2A R-CB 1 R heteromers in the dorsal striatum. Specifically, our data unveil that the A 2A R-CB 1 R heteromer (i) is essentially absent from corticostriatal projections and striatonigral neurons, and, instead, is largely present in striatopallidal neurons, (ii) displays a striking G protein-coupled signaling profile, where co-stimulation of both receptors leads to strongly reduced downstream signaling, and (iii) undergoes an unprecedented dysfunction in Huntington's disease, an archetypal disease that affects striatal neurons. Altogether, our findings may open a new conceptual framework to understand the role of coordinated adenosine-endocannabinoid signaling in the indirect striatal pathway, which may be relevant in motor function and neurodegenerative diseases.

Input-profile-based software failure probability quantification for safety signal generation systems

International Nuclear Information System (INIS)

Kang, Hyun Gook; Lim, Ho Gon; Lee, Ho Jung; Kim, Man Cheol; Jang, Seung Cheol

2009-01-01

The approaches for software failure probability estimation are mainly based on the results of testing. Test cases represent the inputs, which are encountered in an actual use. The test inputs for the safety-critical application such as a reactor protection system (RPS) of a nuclear power plant are the inputs which cause the activation of protective action such as a reactor trip. A digital system treats inputs from instrumentation sensors as discrete digital values by using an analog-to-digital converter. Input profile must be determined in consideration of these characteristics for effective software failure probability quantification. Another important characteristic of software testing is that we do not have to repeat the test for the same input value since the software response is deterministic for each specific digital input. With these considerations, we propose an effective software testing method for quantifying the failure probability. As an example application, the input profile of the digital RPS is developed based on the typical plant data. The proposed method in this study is expected to provide a simple but realistic mean to quantify the software failure probability based on input profile and system dynamics.

The Effect of high temperature plasma on GPS satellite signals

International Nuclear Information System (INIS)

Aghanajafi, C.; Alizadeh, M.M.

2002-01-01

Ionospheric disturbances caused by pulses of electromagnetic radiation are observed in the propagation of radio signals. Specific events affecting particular aspects of radio propagation are sudden phase anomaly; sudden frequency deviation, sudden cosmic noise and short wave fade out. Global positioning System (GPS) is a space-based navigation system, developed by the United States, to satisfy the requirements for the military forces and the civilians to determine their position, velocity and time in a common reference system anywhere on or near the earth. The purpose of this paper is to calculate the effect of ionosphere on GPS satellite signals. In order to find this effects, calculation of the total column electron content is needed. The lack of data necessary to generate real Electron Density Profile versus altitude, latitude, time, season and solar activity; causes the introduction of a new method to reproduce the topside and bottom side component of the peak electron density. Electron density profiles computed in this method are compared with GPS derived profiles, which use observations of dual frequency receivers. Ionospheric range corrections, for signal point positioning, using two methods have also been discussed

Lag profile inversion method for EISCAT data analysis

Directory of Open Access Journals (Sweden)

I. I. Virtanen

2008-03-01

Full Text Available The present standard EISCAT incoherent scatter experiments are based on alternating codes that are decoded in power domain by simple summation and subtraction operations. The signal is first digitised and then different lagged products are calculated and decoded in real time. Only the decoded lagged products are saved for further analysis so that both the original data samples and the undecoded lagged products are lost. A fit of plasma parameters can be later performed using the recorded lagged products. In this paper we describe a different analysis method, which makes use of statistical inversion in removing range ambiguities from the lag profiles. An analysis program carrying out both the lag profile inversion and the fit of the plasma parameters has been constructed. Because recording the received signal itself instead of the lagged products allows very flexible data analysis, the program is constructed to use raw data, i.e. IQ-sampled signal recorded from an IF stage of the radar. The program is now capable of analysing standard alternating-coded EISCAT experiments as well as experiments with any other kind of radar modulation if raw data is available. The program calculates the ambiguous lag profiles and is capable of inverting them as such but, for analysis in real time, time integration is needed before inversion. We demonstrate the method using alternating code experiments in the EISCAT UHF radar and specific hardware connected to the second IF stage of the receiver. This method produces a data stream of complex samples, which are stored for later processing. The raw data is analysed with lag profile inversion and the results are compared to those given by the standard method.

Clustering of transcriptional profiles identifies changes to insulin signaling as an early event in a mouse model of Alzheimer's disease.

Science.gov (United States)

Jackson, Harriet M; Soto, Ileana; Graham, Leah C; Carter, Gregory W; Howell, Gareth R

2013-11-25

Alzheimer's disease affects more than 35 million people worldwide but there is no known cure. Age is the strongest risk factor for Alzheimer's disease but it is not clear how age-related changes impact the disease. Here, we used a mouse model of Alzheimer's disease to identify age-specific changes that occur prior to and at the onset of traditional Alzheimer-related phenotypes including amyloid plaque formation. To identify these early events we used transcriptional profiling of mouse brains combined with computational approaches including singular value decomposition and hierarchical clustering. Our study identifies three key events in early stages of Alzheimer's disease. First, the most important drivers of Alzheimer's disease onset in these mice are age-specific changes. These include perturbations of the ribosome and oxidative phosphorylation pathways. Second, the earliest detectable disease-specific changes occur to genes commonly associated with the hypothalamic-adrenal-pituitary (HPA) axis. These include the down-regulation of genes relating to metabolism, depression and appetite. Finally, insulin signaling, in particular the down-regulation of the insulin receptor substrate 4 (Irs4) gene, may be an important event in the transition from age-related changes to Alzheimer's disease specific-changes. A combination of transcriptional profiling combined with computational analyses has uncovered novel features relevant to Alzheimer's disease in a widely used mouse model and offers avenues for further exploration into early stages of AD.

Characterisation of Supra- and Infratentorial ICP Profiles.

Science.gov (United States)

Moyse, Emmanuel; Ros, Maxime; Marhar, Fouad; Swider, Pascal; Schmidt, Eric Albert

2016-01-01

In pathophysiology and clinical practice, the intracranial pressure (ICP) profiles in the supratentorial and infratentorial compartments are unclear. We know that the pressure within the skull is unevenly distributed, with demonstrated ICP gradients. We recorded and characterised the supra- and infratentorial ICP patterns to understand what drives the transtentorial ICP gradient.A 70-year-old man was operated on for acute cerebellar infarction. One supratentorial probe and one cerebellar probe were implanted. Both signals were recorded concurrently and analysed off-line. We calculated mean ICP, ICP pulse amplitude, respiratory waves, slow waves and the RAP index of supra- and infratentorial ICP signals. Then, we measured transtentorial difference and performed correlation analysis for every index.Supratentorial ICP mean was 8.5 mmHg lower than infratentorial ICP, but the difference lessens for higher values. Both signals across the tentorium showed close correlation. Supra- and infratentorial pulse amplitude, respiratory waves and slow waves also showed a high degree of correlation. The compensatory reserve (RAP) showed good correlation. In this case report, we demonstrate that the mean value of ICP is higher in the posterior fossa, with a strong correlation across the tentorium. All other ICP-derived parameters display a symmetrical profile.

Role of chrysin on expression of insulin signaling molecules

Directory of Open Access Journals (Sweden)

Kottireddy Satyanarayana

2015-01-01

Full Text Available Background: Currently available drugs are unsuccessful for the treatment of tye-2 diabetes due to their adverseside-effects. Hence, a search for novel drugs, especially ofplant origin, continues. Chrysin (5,7-dihydroxyflavone is a flavonoid, natural component of traditional medicinal herbs, present in honey, propolis and many plant extracts that hasbeen used in traditional medicine around the world to treat numerous ailments. Objective: The present study was aimed to identify the protective role of chrysin on the expression of insulin-signaling molecules in the skeletal muscle of high fat and sucrose-induced type-2 diabetic adult male rats. Materials and Methods: The oral effective dose of chrysin (100 mg/kg body weight was given once a day until the end of the study (30 days post-induction of diabetes to high fat diet-induced diabetic rats.At the end of the experimental period, fasting blood glucose, oral glucose tolerance, serum lipid profile, lipid peroxidation (LPO and free radical generation, as well as the levels of insulin signaling molecules and tissue glycogen in the gastrocnemius muscle were assessed. Results: Diabetic rats showed impaired glucose tolerance and impairment in insulin signaling molecules (IR, IRS-1, p-IRS-1Tyr 632 , p- Akt Thr308 , glucose transporter subtype 4 [GLUT4] proteins and glycogen concentration. Serum insulin, lipid profile, LPO and free radical generation were found to be increased in diabetic control rats.The treatment with chrysin normalized the altered levels of blood glucose, serum insulin, lipid profile, LPO and insulin signaling molecules as well as GLUT4 proteins. Conclusion: Our present findings indicate that chrysin improves glycemic control through activation of insulin signal transduction in the gastrocnemius muscle of high fat and sucrose-induced type-2 diabetic male rats.

Two different protein expression profiles of oral squamous cell carcinoma analyzed by immunoprecipitation high-performance liquid chromatography.

Science.gov (United States)

Kim, Soung Min; Jeong, Dasul; Kim, Min Keun; Lee, Sang Shin; Lee, Suk Keun

2017-08-08

Oral squamous cell carcinoma (OSCC) is one of the most dangerous cancers in the body, producing serious complications with individual behaviors. Many different pathogenetic factors are involved in the carcinogenesis of OSCC. Cancer cells derived from oral keratinocytes can produce different carcinogenic signaling pathways through differences in protein expression, but their protein expression profiles cannot be easily explored with ordinary detection methods. The present study compared the protein expression profiles between two different types of OSCCs, which were analyzed through immunoprecipitation high-performance liquid chromatography (IP-HPLC). Two types of squamous cell carcinoma (SCC) occurred in a mandibular (SCC-1) and maxillary gingiva (SCC-2), but their clinical features and progression were quite different from each other. SCC-1 showed a large gingival ulceration with severe halitosis and extensive bony destruction, while SCC-2 showed a relatively small papillary gingival swelling but rapidly grew to form a large submucosal mass, followed by early cervical lymph node metastasis. In the histological observation, SCC-1 was relatively well differentiated with a severe inflammatory reaction, while SCC-2 showed severely infiltrative growth of each cancer islets accompanied with a mild inflammatory reaction. IP-HPLC analysis revealed contrary protein expression profiles analyzed by 72 different oncogenic proteins. SCC-1 showed more cellular apoptosis and invasive growth than SCC-2 through increased expression of caspases, MMPs, p53 signaling, FAS signaling, TGF-β1 signaling, and angiogenesis factors, while SCC-2 showed more cellular growth and survival than SCC-1 through the increased expression of proliferating factors, RAS signaling, eIF5A signaling, WNT signaling, and survivin. The increased trends of cellular apoptosis and invasiveness in the protein expression profiles of SCC-1 were implicative of its extensive gingival ulceration and bony destruction

Radioresistance-related signaling pathways in nasopharyngeal carcinoma cells

International Nuclear Information System (INIS)

Guo Ya; Zhu Xiaodong; Qu Song; Su Fang; Wang Qi; Zhang Wei

2011-01-01

Objective: To study the difference of gene expression profile between the radioresistant human nasopharyngeal carcinoma cell line CNE-2R and CNE-2, and to screen the signaling pathway associated with radioresistance of nasopharyngeal carcinoma. Methods: The radioresistant nasopharyngeal carcinoma cell line CNE-2R was constructed from the original cell line CNE-2. CNE-2R and CNE-2 cells were cultured and administered with 60 Co γ-ray irradiation at the dose of 400 cGy for 15 times. Human-6v 3.0 whole genome expression profile was used to screen the differentially expressed genes. Bioinformatic analysis was used to identify the pathways related to radioresistance. Results: The number of the differentially expressed genes that were found in these 2 experiments was 374. The Kegg pathway and Biocarta pathway analysis of the differentially expressed genes showed the biological importance of Toll-like receptor signaling pathway and IL-1 R-mediated signal transduction pathway to the radioresistance of the CNE-2R cells and the significant differences of 13 genes in these 2 pathways,including JUN, MYD88, CCL5, CXCL10, STAT1, LY96, FOS, CCL3, IL-6, IL-8, IL-1α, IL-1β, and IRAK2 (t=13.47-66.57, P<0.05). Conclusions: Toll-like receptor signaling pathway and IL-1R-mediated signal transduction pathway might be related to the occurrence of radioresistance. (authors)

Influence of the Laser Spot Size, Focal Beam Profile, and Tissue Type on the Lipid Signals Obtained by MALDI-MS Imaging in Oversampling Mode.

Science.gov (United States)

Wiegelmann, Marcel; Dreisewerd, Klaus; Soltwisch, Jens

2016-12-01

To improve the lateral resolution in matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI-MSI) beyond the dimensions of the focal laser spot oversampling techniques are employed. However, few data are available on the effect of the laser spot size and its focal beam profile on the ion signals recorded in oversampling mode. To investigate these dependencies, we produced 2 times six spots with dimensions between ~30 and 200 μm. By optional use of a fundamental beam shaper, square flat-top and Gaussian beam profiles were compared. MALDI-MSI data were collected using a fixed pixel size of 20 μm and both pixel-by-pixel and continuous raster oversampling modes on a QSTAR mass spectrometer. Coronal mouse brain sections coated with 2,5-dihydroxybenzoic acid matrix were used as primary test systems. Sizably higher phospholipid ion signals were produced with laser spots exceeding a dimension of ~100 μm, although the same amount of material was essentially ablated from the 20 μm-wide oversampling pixel at all spot size settings. Only on white matter areas of the brain these effects were less apparent to absent. Scanning electron microscopy images showed that these findings can presumably be attributed to different matrix morphologies depending on tissue type. We propose that a transition in the material ejection mechanisms from a molecular desorption at large to ablation at smaller spot sizes and a concomitant reduction in ion yields may be responsible for the observed spot size effects. The combined results indicate a complex interplay between tissue type, matrix crystallization, and laser-derived desorption/ablation and finally analyte ionization. Graphical Abstract ᅟ.

Transmission congestion and voltage profile management coordination in competitive electricity markets

International Nuclear Information System (INIS)

Yamin, H.Y.; Shahidehpour, S.M.

2003-01-01

This paper describes a generalized active/reactive iterative coordination process between GENCOs and the Independent System Operator (ISO) for active (transmission congestion) and reactive (voltage profile) management in the day-ahead market. GENCOs apply priced-based unit commitment without transmission and voltage security constraints, schedule their units and submit their initial bids to the ISO. The ISO executes congestion and voltage profile management for eliminating transmission and voltage profile violations. If violations are not eliminated, the ISO minimizes the transmission and voltage profile violations and sends a signal via the Internet to GENCOs. GENCOs reschedule their units taking into account the ISO signals and submit modified bids to the ISO. The voltage problem is addressed and a linear model is formulated and used in the proposed method. The voltage problem is formulated as a linear programming with a block-angular structure and Dantzig-Wolfe decomposition is applied to generate several smaller problems for a faster and easier solution of large-scale power systems. Two 36 unit GENCOs are used to demonstrate the performance of the proposed generalized active/reactive coordination algorithm. (author)

Planck intermediate results: V. Pressure profiles of galaxy clusters from the Sunyaev-Zeldovich effect

DEFF Research Database (Denmark)

Bartlett, J.G.; Cardoso, J.-F.; Castex, G.

2013-01-01

that most clusters are individually detected at least out to R500. By stacking the radial profiles, we have statistically detected the radial SZ signal out to 3 × R500, i.e., at a density contrast of about 50-100, though the dispersion about the mean profile dominates the statistical errors across the whole......Taking advantage of the all-sky coverage and broadfrequency range of the Planck satellite, we study the Sunyaev-Zeldovich (SZ) and pressure profiles of 62 nearby massive clusters detected at high significance in the 14-month nominal survey. Careful reconstruction of the SZ signal indicates...... flatter than most predictions from numerical simulations. Combining the SZ and X-ray observed profiles into a joint fit to a generalised pressure profile gives best-fit parameters [P0,c500,γ, α,β] = [6.41,1.81,0.31,1.33,4.13]. Using a reasonable hypothesis for the gas temperature in the cluster outskirts...

Inter-donor variation in cell subset specific immune signaling responses in healthy individuals.

Science.gov (United States)

Longo, Diane M; Louie, Brent; Wang, Ena; Pos, Zoltan; Marincola, Francesco M; Hawtin, Rachael E; Cesano, Alessandra

2012-01-01

Single cell network profiling (SCNP) is a multi-parameter flow cytometry based approach that allows for the simultaneous interrogation of intracellular signaling pathways in multiple cell subpopulations within heterogeneous tissues, without the need for individual cell subset isolation. Thus, the technology is extremely well-suited for characterizing the multitude of interconnected signaling pathways and immune cell subpopulations that regulate the function of the immune system. Recently, SCNP was applied to generate a functional map of the healthy human immune cell signaling network by profiling immune signaling pathways downstream of 12 immunomodulators in 7 distinct immune cell subsets within peripheral blood mononuclear cells (PBMCs) from 60 healthy donors. In the study reported here, the degree of inter-donor variation in the magnitude of the immune signaling responses was analyzed. The highest inter-donor differences in immune signaling pathway activity occurred following perturbation of the immune signaling network, rather than in basal signaling. When examining the full panel of immune signaling responses, as one may expect, the overall degree of inter-donor variation was positively correlated (r = 0.727) with the magnitude of node response (i.e. a larger median signaling response was associated with greater inter-donor variation). However, when examining the degree of heterogeneity across cell subpopulations for individual signaling nodes, cell subset specificity in the degree of inter-donor variation was observed for several nodes. For such nodes, relatively weak correlations between inter-donor variation and the magnitude of the response were observed. Further, within the phenotypically distinct subpopulations, a fraction of the immune signaling responses had bimodal response profiles in which (a) only a portion of the cells had elevated phospho-protein levels following modulation and (b) the proportion of responsive cells varied by donor. These data

Profile Monitors Based on Residual Gas Interaction

CERN Document Server

Forck, P; Giacomini, T; Peters, A

2005-01-01

The precise determination of transverse beam profiles at high current hadron accelerators has to be performed non-interceptingly. Two methods will be discussed based on the excitation of the residual gas molecules by the beam particles: Firstly, by beam induced fluorescence (BIF) light is emitted from the residual gas molecules and is observed with an image intensified CCD camera. At most laboratories N2 gas is inserted, which has a large cross section for emission in the blue wave length region. Secondly, a larger signal strength is achieved by detecting the ionization products in an Ionization Profile Monitor (IPM). By applying an electric field all ionization products are accelerated toward a spatial resolving Micro-Channel Plate. The signal read-out can either be performed by observing the light from a phosphor screen behind the MCP or electronically by a wire array. Methods to achieve a high spatial resolution and a fast turn-by-turn readout capability are discussed. Even though various approaches at dif...

RF slice profile effects in magnetic resonance fingerprinting.

Science.gov (United States)

Hong, Taehwa; Han, Dongyeob; Kim, Min-Oh; Kim, Dong-Hyun

2017-09-01

The radio frequency (RF) slice profile effects on T1 and T2 estimation in magnetic resonance fingerprinting (MRF) are investigated with respect to time-bandwidth product (TBW), flip angle (FA) level and field inhomogeneities. Signal evolutions are generated incorporating the non-ideal slice selective excitation process using Bloch simulation and matched to the original dictionary with and without the non-ideal slice profile taken into account. For validation, phantom and in vivo experiments are performed at 3T. Both simulations and experiments results show that T1 and T2 error from non-ideal slice profile increases with increasing FA level, off-resonance, and low TBW values. Therefore, RF slice profile effects should be compensated for accurate determination of the MR parameters. Copyright © 2017 Elsevier Inc. All rights reserved.

Interior properties of the inner Saturnian moons from space astrometry data

Science.gov (United States)

Lainey, Valery; Noyelles, Benoît; Cooper, Nick; Murray, Carl; Park, Ryan; Rambaux, Nicolas

2018-04-01

During thirteen years in orbit around Saturn before its final plunge, the Cassini spacecraft provided more than ten thousand astrometric measurements. Such large amounts of accurate data enable the search for extremely faint signals in the orbital motion of the moons. Among those, the detection of the dynamical feedback of the rotation of the inner moons of Saturn on their respective orbits becomes possible. Using all the currently available astrometric data associated with Atlas, Prometheus, Pandora, Janus and Epimetheus, we provide a detailed analysis of the ISS data, with special emphasis on their statistical behavior and source of biases. Then, we try quantifying the physical librations of Prometheus, Pandora, Epimetheus and Janus from the monitoring of their orbits. Last, we show how introducing measurements directly derived from imaging can provide tighter constraints on these quantities.

UAV-Borne Profiling Radar for Forest Research

Directory of Open Access Journals (Sweden)

Yuwei Chen

2017-01-01

Full Text Available Microwave Radar is an attractive solution for forest mapping and inventories because microwave signals penetrates into the forest canopy and the backscattering signal can provide information regarding the whole forest structure. Satellite-borne and airborne imaging radars have been used in forest resources mapping for many decades. However, their accuracy with respect to the main forest inventory attributes substantially varies depending on the wavelength and techniques used in the estimation. Systems providing canopy backscatter as a function of canopy height are, practically speaking, missing. Therefore, there is a need for a radar system that would enable the scientific community to better understand the radar backscatter response from the forest canopy. Consequently, we undertook a research study to develop an unmanned aerial vehicle (UAV-borne profiling (i.e., waveform radar that could be used to improve the understanding of the radar backscatter response for forestry mapping and inventories. A frequency modulation continuous waveform (FMCW profiling radar, termed FGI-Tomoradar, was introduced, designed and tested. One goal is the total weight of the whole system is less than 7 kg, including the radar system and georeferencing system, with centimetre-level positioning accuracy. Achieving this weight goal would enable the FGI-Tomoradar system to be installed on the Mini-UAV platform. The prototype system had all four linear polarization measuring capabilities, with bistatic configuration in Ku-band. In system performance tests in this study, FGI-Tomoradar was mounted on a manned helicopter together with a Riegl VQ-480-U laser scanner and tested in several flight campaigns performed at the Evo site, Finland. Airborne laser scanning data was simultaneously collected to investigate the differences and similarities of the outputs for the same target area for better understanding the penetration of the microwave signal into the forest canopy

Halo-independent determination of the unmodulated WIMP signal in DAMA: the isotropic case

Energy Technology Data Exchange (ETDEWEB)

Gondolo, Paolo [Department of Physics, University of Utah, 115 South 1400 East #201, Salt Lake City, Utah 84112-0830 (United States); Scopel, Stefano, E-mail: paolo.gondolo@utah.edu, E-mail: scopel@sogang.ac.kr [Department of Physics, Sogang University, Seoul 121-742 (Korea, Republic of)

2017-09-01

We present a halo-independent determination of the unmodulated signal corresponding to the DAMA modulation if interpreted as due to dark matter weakly interacting massive particles (WIMPs). First we show how a modulated signal gives information on the WIMP velocity distribution function in the Galactic rest frame from which the unmodulated signal descends. Then we describe a mathematically-sound profile likelihood analysis in which the likelihood is profiled over a continuum of nuisance parameters (namely, the WIMP velocity distribution). As a first application of the method, which is very general and valid for any class of velocity distributions, we restrict the analysis to velocity distributions that are isotropic in the Galactic frame. In this way we obtain halo-independent maximum-likelihood estimates and confidence intervals for the DAMA unmodulated signal. We find that the estimated unmodulated signal is in line with expectations for a WIMP-induced modulation and is compatible with the DAMA background+signal rate. Specifically, for the isotropic case we find that the modulated amplitude ranges between a few percent and about 25% of the unmodulated amplitude, depending on the WIMP mass.

Molecular and functional profiling of histamine receptor-mediated calcium ion signals in different cell lines.

Science.gov (United States)

Meisenberg, Annika; Kaschuba, Dagmar; Balfanz, Sabine; Jordan, Nadine; Baumann, Arnd

2015-10-01

Calcium ions (Ca(2+)) play a pivotal role in cellular physiology. Often Ca(2+)-dependent processes are studied in commonly available cell lines. To induce Ca(2+) signals on demand, cells may need to be equipped with additional proteins. A prominent group of membrane proteins evoking Ca(2+) signals are G-protein coupled receptors (GPCRs). These proteins register external signals such as photons, odorants, and neurotransmitters and convey ligand recognition into cellular responses, one of which is Ca(2+) signaling. To avoid receptor cross-talk or cross-activation with introduced proteins, the repertoire of cell-endogenous receptors must be known. Here we examined the presence of histamine receptors in six cell lines frequently used as hosts to study cellular signaling processes. In a concentration-dependent manner, histamine caused a rise in intracellular Ca(2+) in HeLa, HEK 293, and COS-1 cells. The concentration for half-maximal activation (EC50) was in the low micromolar range. In individual cells, transient Ca(2+) signals and Ca(2+) oscillations were uncovered. The results show that (i) HeLa, HEK 293, and COS-1 cells express sufficient amounts of endogenous receptors to study cellular Ca(2+) signaling processes directly and (ii) these cell lines are suitable for calibrating Ca(2+) biosensors in situ based on histamine receptor evoked responses. Copyright © 2015 Elsevier Inc. All rights reserved.

Electron density profile measurements by microwave reflectometry on Tore Supra

International Nuclear Information System (INIS)

Clairet, F.; Paume, M.; Chareau, J.M.

1995-01-01

A proposal is presented developing reflectometry diagnostic for electron density profile measurements as routine diagnostic without manual intervention as achieved at JET. Since density fluctuations seriously perturb the reflected signal and the measurement of the group delay, a method is described to overcome the irrelevant results with the help of an adaptive filtering technique. Accurate profiles are estimated for about 70% of the shots. (author) 3 refs.; 6 figs

Instrument for real-time pulse-shape analysis of slit-scan flow cytometry signals

NARCIS (Netherlands)

van Oven, C.; Aten, J. A.

1990-01-01

An instrument is described which analyses shapes of fluorescence profiles generated by particles passing through the focussed laser beam of a flow cytometer. The output signal of this pulse-shape analyzer is used as input for the signal processing electronics of a commercial flow cytometer system.

Earthquake early warning system using real-time signal processing

Energy Technology Data Exchange (ETDEWEB)

Leach, R.R. Jr.; Dowla, F.U.

1996-02-01

An earthquake warning system has been developed to provide a time series profile from which vital parameters such as the time until strong shaking begins, the intensity of the shaking, and the duration of the shaking, can be derived. Interaction of different types of ground motion and changes in the elastic properties of geological media throughout the propagation path result in a highly nonlinear function. We use neural networks to model these nonlinearities and develop learning techniques for the analysis of temporal precursors occurring in the emerging earthquake seismic signal. The warning system is designed to analyze the first-arrival from the three components of an earthquake signal and instantaneously provide a profile of impending ground motion, in as little as 0.3 sec after first ground motion is felt at the sensors. For each new data sample, at a rate of 25 samples per second, the complete profile of the earthquake is updated. The profile consists of a magnitude-related estimate as well as an estimate of the envelope of the complete earthquake signal. The envelope provides estimates of damage parameters, such as time until peak ground acceleration (PGA) and duration. The neural network based system is trained using seismogram data from more than 400 earthquakes recorded in southern California. The system has been implemented in hardware using silicon accelerometers and a standard microprocessor. The proposed warning units can be used for site-specific applications, distributed networks, or to enhance existing distributed networks. By producing accurate, and informative warnings, the system has the potential to significantly minimize the hazards of catastrophic ground motion. Detailed system design and performance issues, including error measurement in a simple warning scenario are discussed in detail.

Flying wire beam profile monitor at the J-PARC MR

International Nuclear Information System (INIS)

Igarashi, Susumu; Arakawa, Dai; Hashimoto, Yoshinori; Teshima, Masaki; Toyama, Takeshi; Hanamura, Kotoku

2008-01-01

A flying wire beam profile monitor has been assembled and installed at the main ring of the Japan Proton Accelerator Research Complex. The monitor is to measure the horizontal beam profile using a carbon fiber of 7 μmφ. The fiber crosses the beam with the speed of 10 m/s. Secondary particles from the beam-wire scattering is detected using a scintillation counter. The scintillator signal as a function of the wire position is to be reconstructed as a beam profile. The high scanning speed and the minimum material are necessary for the accurate beam profile measurement. The monitor has been operated in the beam commissioning run of the main ring. The beam profile data have been successfully acquired after the reduction of the beam background. (author)

Metabolic profiling reveals potential metabolic markers associated with Hypoxia Inducible Factor-mediated signalling in hypoxic cancer cells.

Science.gov (United States)

Armitage, Emily G; Kotze, Helen L; Allwood, J William; Dunn, Warwick B; Goodacre, Royston; Williams, Kaye J

2015-10-28

Hypoxia inducible factors (HIFs) plays an important role in oxygen compromised environments and therefore in tumour survival. In this research, metabolomics has been applied to study HIFs metabolic function in two cell models: mouse hepatocellular carcinoma and human colon carcinoma, whereby the metabolism has been profiled for a range of oxygen potentials. Wild type cells have been compared to cells deficient in HIF signalling to reveal its effect on cellular metabolism under normal oxygen conditions as well as low oxygen, hypoxic and anoxic environments. Characteristic responses to hypoxia that were conserved across both cell models involved the anti-correlation between 2-hydroxyglutarate, 2-oxoglutarate, fructose, hexadecanoic acid, hypotaurine, pyruvate and octadecenoic acid with 4-hydroxyproline, aspartate, cysteine, glutamine, lysine, malate and pyroglutamate. Further to this, network-based correlation analysis revealed HIF specific pathway responses to each oxygen condition that were also conserved between cell models. From this, 4-hydroxyproline was revealed as a regulating hub in low oxygen survival of WT cells while fructose appeared to be in HIF deficient cells. Pathways surrounding these hubs were built from the direct connections of correlated metabolites that look beyond traditional pathways in order to understand the mechanism of HIF response to low oxygen environments.

Expression profiling analysis: Uncoupling protein 2 deficiency improves hepatic glucose, lipid profiles and insulin sensitivity in high-fat diet-fed mice by modulating expression of genes in peroxisome proliferator-activated receptor signaling pathway.

Science.gov (United States)

Zhou, Mei-Cen; Yu, Ping; Sun, Qi; Li, Yu-Xiu

2016-03-01

Uncoupling protein 2 (UCP2), which was an important mitochondrial inner membrane protein associated with glucose and lipid metabolism, widely expresses in all kinds of tissues including hepatocytes. The present study aimed to explore the impact of UCP2 deficiency on glucose and lipid metabolism, insulin sensitivity and its effect on the liver-associated signaling pathway by expression profiling analysis. Four-week-old male UCP2-/- mice and UCP2+/+ mice were randomly assigned to four groups: UCP2-/- on a high-fat diet, UCP2-/- on a normal chow diet, UCP2+/+ on a high-fat diet and UCP2+/+ on a normal chow diet. The differentially expressed genes in the four groups on the 16th week were identified by Affymetrix gene array. The results of intraperitoneal glucose tolerance test and insulin tolerance showed that blood glucose and β-cell function were improved in the UCP2-/- group on high-fat diet. Enhanced insulin sensitivity was observed in the UCP2-/- group. The differentially expressed genes were mapped to 23 pathways (P high-fat diet. The upregulation of genes in the PPAR signaling pathway could explain our finding that UCP2 deficiency ameliorated insulin sensitivity. The manipulation of UCP2 protein expression could represent a new strategy for the prevention and treatment of diabetes.

Fast Faraday fading of long range satellite signals.

Science.gov (United States)

Heron, M. L.

1972-01-01

20 MHz radio signals have been received during the day from satellite Beacon-B when it was below the optical horizon by using a bank of narrow filters to improve the signal to noise ratio. The Faraday fading rate becomes constant, under these conditions, at a level determined by the plasma frequency just below the F-layer peak. Variations in the Faraday fading rate reveal fluctuations in the electron density near the peak, while the rate of attaining the constant level depends on the shape of the electron density profile.

Tunable signal processing in synthetic MAP kinase cascades.

Science.gov (United States)

O'Shaughnessy, Ellen C; Palani, Santhosh; Collins, James J; Sarkar, Casim A

2011-01-07

The flexibility of MAPK cascade responses enables regulation of a vast array of cell fate decisions, but elucidating the mechanisms underlying this plasticity is difficult in endogenous signaling networks. We constructed insulated mammalian MAPK cascades in yeast to explore how intrinsic and extrinsic perturbations affect the flexibility of these synthetic signaling modules. Contrary to biphasic dependence on scaffold concentration, we observe monotonic decreases in signal strength as scaffold concentration increases. We find that augmenting the concentration of sequential kinases can enhance ultrasensitivity and lower the activation threshold. Further, integrating negative regulation and concentration variation can decouple ultrasensitivity and threshold from the strength of the response. Computational analyses show that cascading can generate ultrasensitivity and that natural cascades with different kinase concentrations are innately biased toward their distinct activation profiles. This work demonstrates that tunable signal processing is inherent to minimal MAPK modules and elucidates principles for rational design of synthetic signaling systems. Copyright © 2011 Elsevier Inc. All rights reserved.

Design and Manufacture of a Low-Profile Radar Retro-Reflector

National Research Council Canada - National Science Library

Bird, Dudley

2005-01-01

.... Radar retro-reflectors are often passive, but active elements can be included to enhance the backscattered signal, or to modify it in some way, such as by the introduction of modulation or simulation of range profiles...

Approaching nanometre accuracy in measurement of the profile deviation of a large plane mirror

International Nuclear Information System (INIS)

Müller, Andreas; Hofmann, Norbert; Manske, Eberhard

2012-01-01

The interferometric nanoprofilometer (INP), developed at the Institute of Process Measurement and Sensor Technology at the Ilmenau University of Technology, is a precision device for measuring the profile deviations of plane mirrors with a profile length of up to 250 mm at the nanometre scale. As its expanded uncertainty of U(l) = 7.8 nm at a confidence level of p = 95% (k = 2) was mainly influenced by the uncertainty of the straightness standard (3.6 nm) and the uncertainty caused by the signal and demodulation errors of the interferometer signals (1.2 nm), these two sources of uncertainty have been the subject of recent analyses and modifications. To measure the profile deviation of the standard mirror we performed a classic three-flat test using the INP. The three-flat test consists of a combination of measurements between three different test flats. The shape deviations of the three flats can then be determined by applying a least-squares solution of the resulting equation system. The results of this three-flat test showed surprisingly good consistency, enabling us to correct this systematic error in profile deviation measurements and reducing the uncertainty component of the standard mirror to 0.4 nm. Another area of research is the signal and demodulation error arising during the interpretation of the interferometer signals. In the case of the interferometric nanoprofilometer, the special challenge is that the maximum path length differences are too small during the scan of the entire profile deviation over perfectly aligned 250 mm long mirrors for proper interpolation and correction since they do not yet cover even half of an interference fringe. By applying a simple method of weighting to the interferometer data the common ellipse fitting could be performed successfully and the demodulation error was greatly reduced. The remaining uncertainty component is less than 0.5 nm. In summary we were successful in greatly reducing two major systematic errors. The

Transverse electric fields' effects in the Dark Energy Camera CCDs

International Nuclear Information System (INIS)

Plazas, A A; Sheldon, E S; Bernstein, G M

2014-01-01

Spurious electric fields transverse to the surface of thick CCDs displace the photo-generated charges, effectively modifying the pixel area and producing noticeable signals in astrometric and photometric measurements. We use data from the science verification period of the Dark Energy Survey (DES) to characterize these effects in the Dark Energy Camera (DECam) CCDs, where the transverse fields manifest as concentric rings (impurity gradients or ''tree rings'') and bright stripes near the boundaries of the detectors (''edge distortions'') with relative amplitudes of about 1% and 10%, respectively. Using flat-field images, we derive templates in the five DES photometric bands (grizY) for the tree rings and the edge distortions as a function of their position on each DECam detector. Comparison of the astrometric and photometric residuals confirms their nature as pixel-size variations. The templates are directly incorporated into the derivation of photometric and astrometric residuals. The results presented in these proceedings are a partial report of analysis performed before the workshop ''Precision Astronomy with Fully depleted CDDs'' at Brookhaven National Laboratory. Additional work is underway, and the final results and analysis will be published elsewhere (Plazas, Bernstein and Sheldon 2014, in prep.)

a Universal De-Noising Algorithm for Ground-Based LIDAR Signal

Science.gov (United States)

Ma, Xin; Xiang, Chengzhi; Gong, Wei

2016-06-01

Ground-based lidar, working as an effective remote sensing tool, plays an irreplaceable role in the study of atmosphere, since it has the ability to provide the atmospheric vertical profile. However, the appearance of noise in a lidar signal is unavoidable, which leads to difficulties and complexities when searching for more information. Every de-noising method has its own characteristic but with a certain limitation, since the lidar signal will vary with the atmosphere changes. In this paper, a universal de-noising algorithm is proposed to enhance the SNR of a ground-based lidar signal, which is based on signal segmentation and reconstruction. The signal segmentation serving as the keystone of the algorithm, segments the lidar signal into three different parts, which are processed by different de-noising method according to their own characteristics. The signal reconstruction is a relatively simple procedure that is to splice the signal sections end to end. Finally, a series of simulation signal tests and real dual field-of-view lidar signal shows the feasibility of the universal de-noising algorithm.

Positional information generated by spatially distributed signaling cascades.

Directory of Open Access Journals (Sweden)

Javier Muñoz-García

2009-03-01

Full Text Available The temporal and stationary behavior of protein modification cascades has been extensively studied, yet little is known about the spatial aspects of signal propagation. We have previously shown that the spatial separation of opposing enzymes, such as a kinase and a phosphatase, creates signaling activity gradients. Here we show under what conditions signals stall in the space or robustly propagate through spatially distributed signaling cascades. Robust signal propagation results in activity gradients with long plateaus, which abruptly decay at successive spatial locations. We derive an approximate analytical solution that relates the maximal amplitude and propagation length of each activation profile with the cascade level, protein diffusivity, and the ratio of the opposing enzyme activities. The control of the spatial signal propagation appears to be very different from the control of transient temporal responses for spatially homogenous cascades. For spatially distributed cascades where activating and deactivating enzymes operate far from saturation, the ratio of the opposing enzyme activities is shown to be a key parameter controlling signal propagation. The signaling gradients characteristic for robust signal propagation exemplify a pattern formation mechanism that generates precise spatial guidance for multiple cellular processes and conveys information about the cell size to the nucleus.

Global astrometry with the space interferometry mission

Science.gov (United States)

Boden, A.; Unwin, S.; Shao, M.

1997-01-01

The prospects for global astrometric measurements with the space interferometry mission (SIM) are discussed. The SIM mission will perform four microarcsec astrometric measurements on objects as faint as 20 mag using the optical interferometry technique with a 10 m baseline. The SIM satellite will perform narrow angle astrometry and global astrometry by means of an astrometric grid. The sensitivities of the SIM global astrometric performance and the grid accuracy versus instrumental parameters and sky coverage schemes are reported on. The problems in finding suitable astrometric grid objects to support microarcsec astrometry, and related ground-based observation programs are discussed.

Gene Expression Profiling Identifies Downregulation of the Neurotrophin-MAPK Signaling Pathway in Female Diabetic Peripheral Neuropathy Patients.

Science.gov (United States)

Luo, Lin; Zhou, Wen-Hua; Cai, Jiang-Jia; Feng, Mei; Zhou, Mi; Hu, Su-Pei; Xu, Jin; Ji, Lin-Dan

2017-01-01

Diabetic peripheral neuropathy (DPN) is a common complication of diabetes mellitus (DM). It is not diagnosed or managed properly in the majority of patients because its pathogenesis remains controversial. In this study, human whole genome microarrays identified 2898 and 4493 differentially expressed genes (DEGs) in DM and DPN patients, respectively. A further KEGG pathway analysis indicated that DPN and DM share four pathways, including apoptosis, B cell receptor signaling pathway, endocytosis, and Toll-like receptor signaling pathway. The DEGs identified through comparison of DPN and DM were significantly enriched in MAPK signaling pathway, NOD-like receptor signaling pathway, and neurotrophin signaling pathway, while the "neurotrophin-MAPK signaling pathway" was notably downregulated. Seven DEGs from the neurotrophin-MAPK signaling pathway were validated in additional 78 samples, and the results confirmed the initial microarray findings. These findings demonstrated that downregulation of the neurotrophin-MAPK signaling pathway may be the major mechanism of DPN pathogenesis, thus providing a potential approach for DPN treatment.

Real-time evaluation of electron and current density profile parameters on TEXTOR

International Nuclear Information System (INIS)

Bruessau, W.D.; Soltwisch, H.

1985-08-01

The shapes of electron and current density profiles are monitored in real-time mode in order to get rapid qualitative information on the development of a TEXTOR tokamak plasma. The profiles are described by form parameters which relate to the signals of a 9-channel FIR-polari/interferometer in simple mathematical formulae. These profile parameters are obtained by real-time conversion of measured quantities for display on a storage oscilloscope or on a chart recorder. The application of the parameters is demonstrated in some examples. (orig.)

Full area covered 3D profile measurement of special-shaped optics based on a new prototype non-contact profiler.

Science.gov (United States)

Du, Hui-Lin; Zhou, Zhao-Zhong; Sun, Ze-Qing; Ju, Bing-Feng; Xu, Shaoning; Sun, Anyu

2017-06-01

A new prototype non-contact profiler based on surface tracking has been specially developed. Surface tracking is carried out by a specially designed dual stage probe system with the aid of a four-Degree Of Freedom high-precision motion platform. The dual stage probe system keeps a short-range optical probe constantly tracking the surface by a self-developed voice coil motor servo, by which a wide measuring range of up to 10 mm is realized. The system performance evaluation including resolution, repeatability, and scanning speed proved the good capability of the new prototype non-contact profiler. To realize a full area covered 3D profile measurement of special-shaped optics within one scanning procedure, a signal intensity monitor integrated in the surface tracking controller is specially developed. In the experiment, a snip-single-corner-rectangular-shaped freeform surface was successfully measured over full area by the new non-contact profiler. This work provides an effective solution for 3D profile measurement of special-shaped optical surfaces over full reflecting area. Experimental results demonstrate that the proposed measuring system is of great significance in quality evaluation of optical surfaces.

Microarray analysis of the gene expression profile in triethylene ...

African Journals Online (AJOL)

Microarray analysis of the gene expression profile in triethylene glycol dimethacrylate-treated human dental pulp cells. ... Conclusions: Our results suggest that TEGDMA can change the many functions of hDPCs through large changes in gene expression levels and complex interactions with different signaling pathways.

Edge density profile measurements by X-mode reflectometry on Tore Supra

International Nuclear Information System (INIS)

Clairet, F.; Bottereau, C.; Chareau, J.M.; Paume, M.; Sabot, R.

2000-10-01

A broadband reflectometer operating in the frequency range 50-75 GHz has been developed on Tore Supra to measure electron density profiles at the edge. The system uses extraordinary mode polarization and performs routine measurements in 20 μs with a heterodyne detection to ensure a high dynamic range sensitivity. It allows separate phase and amplitude information of the signal. The density profiles are fully automatically calculated from the raw phase. The initialization is done with an automatic detection of the first cut-off from the amplitude of the reflected signal with accuracy up to ±0.5 cm. The profiles are now part of the public database of Tore Supra (TS) and can provide details of density structures better than the centimeter range. High reliability of the measurements for various plasma conditions make this diagnostic an ideal tool to study specific edge plasma physics with given examples on detached plasma behaviour and RF antenna-plasma coupling processes. It also is shown how the presence of suprathermal electrons may perturb the measurements. (authors)

Radioactive cDNA microarrys for gene expression profiles in antidepressant therapy

International Nuclear Information System (INIS)

Lee, M. S.; Han, B. J.; Cha, J. H.; Ryu, Y. M.; Shin, E. K.; Park, J. H.; Park, Y. H.; Kim, M. K.

2002-01-01

Using radioactive cDNA microarray, we investigated a pattern of gene regulation under treatment of antidepressant on patients of depressive disoder. Basic microarray technology was performed as previously described in our research. The bioinformatic selection of human cDNAs, which is specifically designed for psychiatry, neurology, and signal transduction, were arrayed on nylon membranes. Using with 33P-labeled probes, this method provided highly sensitive gene expression profiles of our interest including brain receptors, drug metabolism, and cellular signalings. Gene expression profiles were also classified into several categories in accordance with the gene-regulation of antidepressant. The gene profiles of our interest were significantly up- (16 genes, >2.0 of Z-ratio) or down- (24 genes, <-2.0 of Z ratio) regulated when compared the good responsed group with the bad-responsed one. Consequently, we demonstrated that radioactive human cDNA microarray is highly likely to be an efficient technology for evaluating the gene regulation of antidepressants, such as selective serotonin-reuptake inhibitors (SSRIs), by using high-throughput biotechnology

Signaling pathways activation profiles make better markers of cancer than expression of individual genes

OpenAIRE

Borisov, Nikolay M.; Terekhanova, Nadezhda V.; Aliper, Alexander M.; Venkova, Larisa S.; Smirnov, Philip Yu; Roumiantsev, Sergey; Korzinkin, Mikhail B.; Zhavoronkov, Alex A.; Buzdin, Anton A.

2014-01-01

Identification of reliable and accurate molecular markers remains one of the major challenges of contemporary biomedicine. We developed a new bioinformatic technique termed OncoFinder that for the first time enables to quantatively measure activation of intracellular signaling pathways basing on transcriptomic data. Signaling pathways regulate all major cellular events in health and disease. Here, we showed that the Pathway Activation Strength (PAS) value itself may serve as the biomarker for...

Determination of the ion thermal diffusivity from neutron emission profiles in decay

International Nuclear Information System (INIS)

Sasao, M.; Adams, J.M.; Conroy, S.; Jarvis, O.N.; Marcus, F.B.; Sadler, G.; Belle, P. van

1994-01-01

Spatial profiles of the neutron emission from deuterium plasmas are routinely obtained at the Joint European Torus (JET) using the line-integrated signals measured with a multichannel instrument. It is shown that the manner in which these profiles relax following the termination of strong heating with neutral beam injection (NBI) permits the local thermal diffusivity (χ i ) to be obtained with an accuracy of about 20%. (author)

Physical signals for protein–DNA recognition

International Nuclear Information System (INIS)

Cao, Xiao-Qin; Zeng, Jia; Yan, Hong

2009-01-01

This paper discovers consensus physical signals around eukaryotic splice sites, transcription start sites, and replication origin start and end sites on a genome-wide scale based on their DNA flexibility profiles calculated by three different flexibility models. These salient physical signals are localized highly rigid and flexible DNAs, which may play important roles in protein–DNA recognition by the sliding search mechanism. The found physical signals lead us to a detailed hypothetical view of the search process in which a DNA-binding protein first finds a genomic region close to the target site from an arbitrary starting location by three-dimensional (3D) hopping and intersegment transfer mechanisms for long distances, and subsequently uses the one-dimensional (1D) sliding mechanism facilitated by the localized highly rigid DNAs to accurately locate the target flexible binding site within 30 bp (base pair) short distances. Guided by these physical signals, DNA-binding proteins rapidly search the entire genome to recognize a specific target site from the 3D to 1D pathway. Our findings also show that current promoter prediction programs (PPPs) based on DNA physical properties may suffer from lots of false positives because other functional sites such as splice sites and replication origins have similar physical signals as promoters do

All-Fiber Airborne Coherent Doppler Lidar to Measure Wind Profiles

Directory of Open Access Journals (Sweden)

Liu Jiqiao

2016-01-01

Full Text Available An all-fiber airborne pulsed coherent Doppler lidar (CDL prototype at 1.54μm is developed to measure wind profiles in the lower troposphere layer. The all-fiber single frequency pulsed laser is operated with pulse energy of 300μJ, pulse width of 400ns and pulse repetition rate of 10kHz. To the best of our knowledge, it is the highest pulse energy of all-fiber eye-safe single frequency laser that is used in airborne coherent wind lidar. The telescope optical diameter of monostatic lidar is 100 mm. Velocity-Azimuth-Display (VAD scanning is implemented with 20 degrees elevation angle in 8 different azimuths. Real-time signal processing board is developed to acquire and process the heterodyne mixing signal with 10000 pulses spectra accumulated every second. Wind profiles are obtained every 20 seconds. Several experiments are implemented to evaluate the performance of the lidar. We have carried out airborne wind lidar experiments successfully, and the wind profiles are compared with aerological theodolite and ground based wind lidar. Wind speed standard error of less than 0.4m/s is shown between airborne wind lidar and balloon aerological theodolite.

Depth Profiles in Maize ( Zea mays L.) Seeds Studied by Photoacoustic Spectroscopy

Science.gov (United States)

Hernández-Aguilar, C.; Domínguez-Pacheco, A.; Cruz-Orea, A.; Zepeda-Bautista, R.

2015-06-01

Photoacoustic spectroscopy (PAS) has been used to analyze agricultural seeds and can be applied to the study of seed depth profiles of these complex samples composed of different structures. The sample depth profile can be obtained through the photoacoustic (PA) signal, amplitude, and phase at different light modulation frequencies. The PA signal phase is more sensitive to changes of thermal properties in layered samples than the PA signal amplitude. Hence, the PA signal phase can also be used to characterize layers at different depths. Thus, the objective of the present study was to obtain the optical absorption spectra of maize seeds ( Zea mays L.) by means of PAS at different light modulation frequencies (17 Hz, 30 Hz, and 50 Hz) and comparing these spectra with the ones obtained from the phase-resolved method in order to separate the optical absorption spectra of seed pericarp and endosperm. The results suggest the possibility of using the phase-resolved method to obtain optical absorption spectra of different seed structures, at different depths, without damaging the seed. Thus, PAS could be a nondestructive method for characterization of agricultural seeds and thus improve quality control in the food industry.

Numerical Evaluation of Parameter Correlation in the Hartmann-Tran Line Profile

Science.gov (United States)

Adkins, Erin M.; Reed, Zachary; Hodges, Joseph T.

2017-06-01

The partially correlated quadratic, speed-dependent hard-collision profile (pCqSDHCP), for simplicity referred to as the Hartmann-Tran profile (HTP), has been recommended as a generalized lineshape for high resolution spectroscopy. The HTP parameterizes complex collisional effects such as Dicke narrowing, speed dependent narrowing, and correlations between velocity-changing and dephasing collisions, while also simplifying to simpler profiles that are widely used, such as the Voigt profile. As advanced lineshape profiles are adopted by more researchers, it is important to understand the limitations that data quality has on the ability to retrieve physically meaningful parameters using sophisticated lineshapes that are fit to spectra of finite signal-to-noise ratio. In this work, spectra were simulated using the HITRAN Application Programming Interface (HAPI) across a full range of line parameters. Simulated spectra were evaluated to quantify the precision with which fitted lineshape parameters can be determined at a given signal-to-noise ratio, focusing on the numerical correlation between the retrieved Dicke narrowing frequency and the velocity-changing and dephasing collisions correlation parameter. Tran, H., N. Ngo, and J.-M. Hartmann, Journal of Quantitative Spectroscopy and Radiative Transfer 2013. 129: p. 89-100. Tennyson, et al., Pure Appl. Chem. 2014, 86: p. 1931-1943. Kochanov, R.V., et al., Journal of Quantitative Spectroscopy and Radiative Transfer 2016. 177: p. 15-30. Tran, H., N. Ngo, and J.-M. Hartmann, Journal of Quantitative Spectroscopy and Radiative Transfer 2013. 129: p. 199-203.

Soy Components Genistein and Lunasin Regulate E-Cadherin and Wnt Signaling in Mammary Epithelial Cells

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Enhanced Wnt/beta-catenin signaling and loss of E-cadherin expression are considered hallmarks of tumorigenesis. We previously showed by microarray gene profiling that dietary intake of soy-based AIN-93G diets altered components of Wnt/beta-catenin signaling in rat mammary epithelial cells. To furth...

Cigarette smoking substantially alters plasma microRNA profiles in healthy subjects

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Takahashi, Kei; Yokota, Shin-ichi; Tatsumi, Naoyuki; Fukami, Tatsuki; Yokoi, Tsuyoshi; Nakajima, Miki, E-mail: nmiki@p.kanazawa-u.ac.jp

2013-10-01

Circulating microRNAs (miRNAs) are receiving attention as potential biomarkers of various diseases, including cancers, chronic obstructive pulmonary disease, and cardiovascular disease. However, it is unknown whether the levels of circulating miRNAs in a healthy subject might vary with external factors in daily life. In this study, we investigated whether cigarette smoking, a habit that has spread throughout the world and is a risk factor for various diseases, affects plasma miRNA profiles. We determined the profiles of 11 smokers and 7 non-smokers by TaqMan MicroRNA array analysis. A larger number of miRNAs were detected in smokers than in non-smokers, and the plasma levels of two-thirds of the detected miRNAs (43 miRNAs) were significantly higher in smokers than in non-smokers. A principal component analysis of the plasma miRNA profiles clearly separated smokers and non-smokers. Twenty-four of the miRNAs were previously reported to be potential biomarkers of disease, suggesting the possibility that smoking status might interfere with the diagnosis of disease. Interestingly, we found that quitting smoking altered the plasma miRNA profiles to resemble those of non-smokers. These results suggested that the differences in the plasma miRNA profiles between smokers and non-smokers could be attributed to cigarette smoking. In addition, we found that an acute exposure of ex-smokers to cigarette smoke (smoking one cigarette) did not cause a dramatic change in the plasma miRNA profile. In conclusion, we found that repeated cigarette smoking substantially alters the plasma miRNA profile, interfering with the diagnosis of disease or signaling potential smoking-related diseases. - Highlights: • Plasma miRNA profiles were unambiguously different between smokers and non-smokers. • Smoking status might interfere with the diagnosis of disease using plasma miRNAs. • Changes of plasma miRNA profiles may be a signal of smoking-related diseases.

Cigarette smoking substantially alters plasma microRNA profiles in healthy subjects

International Nuclear Information System (INIS)

Takahashi, Kei; Yokota, Shin-ichi; Tatsumi, Naoyuki; Fukami, Tatsuki; Yokoi, Tsuyoshi; Nakajima, Miki

2013-01-01

Circulating microRNAs (miRNAs) are receiving attention as potential biomarkers of various diseases, including cancers, chronic obstructive pulmonary disease, and cardiovascular disease. However, it is unknown whether the levels of circulating miRNAs in a healthy subject might vary with external factors in daily life. In this study, we investigated whether cigarette smoking, a habit that has spread throughout the world and is a risk factor for various diseases, affects plasma miRNA profiles. We determined the profiles of 11 smokers and 7 non-smokers by TaqMan MicroRNA array analysis. A larger number of miRNAs were detected in smokers than in non-smokers, and the plasma levels of two-thirds of the detected miRNAs (43 miRNAs) were significantly higher in smokers than in non-smokers. A principal component analysis of the plasma miRNA profiles clearly separated smokers and non-smokers. Twenty-four of the miRNAs were previously reported to be potential biomarkers of disease, suggesting the possibility that smoking status might interfere with the diagnosis of disease. Interestingly, we found that quitting smoking altered the plasma miRNA profiles to resemble those of non-smokers. These results suggested that the differences in the plasma miRNA profiles between smokers and non-smokers could be attributed to cigarette smoking. In addition, we found that an acute exposure of ex-smokers to cigarette smoke (smoking one cigarette) did not cause a dramatic change in the plasma miRNA profile. In conclusion, we found that repeated cigarette smoking substantially alters the plasma miRNA profile, interfering with the diagnosis of disease or signaling potential smoking-related diseases. - Highlights: • Plasma miRNA profiles were unambiguously different between smokers and non-smokers. • Smoking status might interfere with the diagnosis of disease using plasma miRNAs. • Changes of plasma miRNA profiles may be a signal of smoking-related diseases

Processing oscillatory signals by incoherent feedforward loops

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Zhang, Carolyn; Wu, Feilun; Tsoi, Ryan; Shats, Igor; You, Lingchong

From the timing of amoeba development to the maintenance of stem cell pluripotency,many biological signaling pathways exhibit the ability to differentiate between pulsatile and sustained signals in the regulation of downstream gene expression.While networks underlying this signal decoding are diverse,many are built around a common motif, the incoherent feedforward loop (IFFL),where an input simultaneously activates an output and an inhibitor of the output.With appropriate parameters,this motif can generate temporal adaptation,where the system is desensitized to a sustained input.This property serves as the foundation for distinguishing signals with varying temporal profiles.Here,we use quantitative modeling to examine another property of IFFLs,the ability to process oscillatory signals.Our results indicate that the system's ability to translate pulsatile dynamics is limited by two constraints.The kinetics of IFFL components dictate the input range for which the network can decode pulsatile dynamics.In addition,a match between the network parameters and signal characteristics is required for optimal ``counting''.We elucidate one potential mechanism by which information processing occurs in natural networks with implications in the design of synthetic gene circuits for this purpose. This work was partially supported by the National Science Foundation Graduate Research Fellowship (CZ).

Monitoring vegetation recovery in fire-affected areas using temporal profiles of spectral signal from time series MODIS and LANDSAT satellite images

Science.gov (United States)

Georgopoulou, Danai; Koutsias, Nikos

2015-04-01

Vegetation phenology is an important element of vegetation characteristics that can be useful in vegetation monitoring especially when satellite remote sensing observations are used. In that sense temporal profiles extracted from spectral signal of time series MODIS and LANDSAT satellite images can be used to characterize vegetation phenology and thus to be helpful for monitoring vegetation recovery in fire-affected areas. The aim of this study is to explore the vegetation recovery pattern of the catastrophic wildfires that occurred in Peloponnisos, southern Greece, in 2007. These fires caused the loss of 67 lives and were recognized as the most extreme natural disaster in the country's recent history. Satellite remote sensing data from MODIS and LANDSAT satellites in the period from 2000 to 2014 were acquired and processed to extract the temporal profiles of the spectral signal for selected areas within the fire-affected areas. This dataset and time period analyzed together with the time that these fires occurred gave the opportunity to create temporal profiles seven years before and seven years after the fire. The different scale of the data used gave us the chance to understand how vegetation phenology and therefore the recovery patterns are influenced by the spatial resolution of the satellite data used. Different metrics linked to key phenological events have been created and used to assess vegetation recovery in the fire-affected areas. Our analysis was focused in the main land cover types that were mostly affected by the 2007 wildland fires. Based on CORINE land-cover maps these were agricultural lands highly interspersed with large areas of natural vegetation followed by sclerophyllous vegetation, transitional woodland shrubs, complex cultivation patterns and olive groves. Apart of the use of the original spectral data we estimated and used vegetation indices commonly found in vegetation studies as well as in burned area mapping studies. In this study we

Temperature-controlled depth profiling in polymeric materials using cluster secondary ion mass spectrometry (SIMS)

Energy Technology Data Exchange (ETDEWEB)

Mahoney, Christine M. [National Institute of Standards and Technology, 100 Bureau Drive, Mail Stop 8371, Gaithersburg, MD, 20899 (United States)]. E-mail: christine.mahoney@nist.gov; Fahey, Albert J. [National Institute of Standards and Technology, 100 Bureau Drive, Mail Stop 8371, Gaithersburg, MD, 20899 (United States); Gillen, Greg [National Institute of Standards and Technology, 100 Bureau Drive, Mail Stop 8371, Gaithersburg, MD, 20899 (United States); Xu Chang [National Institute of Standards and Technology, 100 Bureau Drive, Mail Stop 8371, Gaithersburg, MD, 20899 (United States); Batteas, James D. [National Institute of Standards and Technology, 100 Bureau Drive, Mail Stop 8371, Gaithersburg, MD, 20899 (United States)

2006-07-30

Secondary ion mass spectrometry (SIMS) employing an SF{sub 5} {sup +} polyatomic primary ion source was used to depth profile through poly(methylmethacrylate) (PMMA), poly(lactic acid) (PLA) and polystyrene (PS) thin films at a series of temperatures from -125 deg. C to 150 deg. C. It was found that for PMMA, reduced temperature analysis produced depth profiles with increased secondary ion stability and reduced interfacial widths as compared to analysis at ambient temperature. Atomic force microscopy (AFM) images indicated that this improvement in interfacial width may be related to a decrease in sputter-induced topography. Depth profiling at higher temperatures was typically correlated with increased sputter rates. However, the improvements in interfacial widths and overall secondary ion stability were not as prevalent as was observed at low temperature. For PLA, improvements in signal intensities were observed at low temperatures, yet there was no significant change in secondary ion stability, interface widths or sputter rates. High temperatures yielded a significant decrease in secondary ion stability of the resulting profiles. PS films showed rapid degradation of characteristic secondary ion signals under all temperatures examined.

Protein Profiles Reveal Diverse Responsive Signaling Pathways in Kernels of Two Maize Inbred Lines with Contrasting Drought Sensitivity

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Liming Yang

2014-10-01

Full Text Available Drought stress is a major factor that contributes to disease susceptibility and yield loss in agricultural crops. To identify drought responsive proteins and explore metabolic pathways involved in maize tolerance to drought stress, two maize lines (B73 and Lo964 with contrasting drought sensitivity were examined. The treatments of drought and well water were applied at 14 days after pollination (DAP, and protein profiles were investigated in developing kernels (35 DAP using iTRAQ (isobaric tags for relative and absolute quantitation. Proteomic analysis showed that 70 and 36 proteins were significantly altered in their expression under drought treatments in B73 and Lo964, respectively. The numbers and levels of differentially expressed proteins were generally higher in the sensitive genotype, B73, implying an increased sensitivity to drought given the function of the observed differentially expressed proteins, such as redox homeostasis, cell rescue/defense, hormone regulation and protein biosynthesis and degradation. Lo964 possessed a more stable status with fewer differentially expressed proteins. However, B73 seems to rapidly initiate signaling pathways in response to drought through adjusting diverse defense pathways. These changes in protein expression allow for the production of a drought stress-responsive network in maize kernels.

Differential and directional estrogenic signaling pathways induced by enterolignans and their precursors.

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Yun Zhu

Full Text Available Mammalian lignans or enterolignans are metabolites of plant lignans, an important category of phytochemicals. Although they are known to be associated with estrogenic activity, cell signaling pathways leading to specific cell functions, and especially the differences among lignans, have not been explored. We examined the estrogenic activity of enterolignans and their precursor plant lignans and cell signaling pathways for some cell functions, cell cycle and chemokine secretion. We used DNA microarray-based gene expression profiling in human breast cancer MCF-7 cells to examine the similarities, as well as the differences, among enterolignans, enterolactone and enterodiol, and their precursors, matairesinol, pinoresinol and sesamin. The profiles showed moderate to high levels of correlation (R values: 0.44 to 0.81 with that of estrogen (17β-estradiol or E2. Significant correlations were observed among lignans (R values: 0.77 to 0.97, and the correlations were higher for cell functions related to enzymes, signaling, proliferation and transport. All the enterolignans/precursors examined showed activation of the Erk1/2 and PI3K/Akt pathways, indicating the involvement of rapid signaling through the non-genomic estrogen signaling pathway. However, when their effects on specific cell functions, cell cycle progression and chemokine (MCP-1 secretion were examined, positive effects were observed only for enterolactone, suggesting that signals are given in certain directions at a position closer to cell functions. We hypothesized that, while estrogen signaling is initiated by the enterolignans/precursors examined, their signals are differentially and directionally modulated later in the pathways, resulting in the differences at the cell function level.

Intra-Tumour Signalling Entropy Determines Clinical Outcome in Breast and Lung Cancer

Science.gov (United States)

Banerji, Christopher R. S.; Severini, Simone; Caldas, Carlos; Teschendorff, Andrew E.

2015-01-01

The cancer stem cell hypothesis, that a small population of tumour cells are responsible for tumorigenesis and cancer progression, is becoming widely accepted and recent evidence has suggested a prognostic and predictive role for such cells. Intra-tumour heterogeneity, the diversity of the cancer cell population within the tumour of an individual patient, is related to cancer stem cells and is also considered a potential prognostic indicator in oncology. The measurement of cancer stem cell abundance and intra-tumour heterogeneity in a clinically relevant manner however, currently presents a challenge. Here we propose signalling entropy, a measure of signalling pathway promiscuity derived from a sample’s genome-wide gene expression profile, as an estimate of the stemness of a tumour sample. By considering over 500 mixtures of diverse cellular expression profiles, we reveal that signalling entropy also associates with intra-tumour heterogeneity. By analysing 3668 breast cancer and 1692 lung adenocarcinoma samples, we further demonstrate that signalling entropy correlates negatively with survival, outperforming leading clinical gene expression based prognostic tools. Signalling entropy is found to be a general prognostic measure, valid in different breast cancer clinical subgroups, as well as within stage I lung adenocarcinoma. We find that its prognostic power is driven by genes involved in cancer stem cells and treatment resistance. In summary, by approximating both stemness and intra-tumour heterogeneity, signalling entropy provides a powerful prognostic measure across different epithelial cancers. PMID:25793737

Intra-tumour signalling entropy determines clinical outcome in breast and lung cancer.

Directory of Open Access Journals (Sweden)

Christopher R S Banerji

2015-03-01

Full Text Available The cancer stem cell hypothesis, that a small population of tumour cells are responsible for tumorigenesis and cancer progression, is becoming widely accepted and recent evidence has suggested a prognostic and predictive role for such cells. Intra-tumour heterogeneity, the diversity of the cancer cell population within the tumour of an individual patient, is related to cancer stem cells and is also considered a potential prognostic indicator in oncology. The measurement of cancer stem cell abundance and intra-tumour heterogeneity in a clinically relevant manner however, currently presents a challenge. Here we propose signalling entropy, a measure of signalling pathway promiscuity derived from a sample's genome-wide gene expression profile, as an estimate of the stemness of a tumour sample. By considering over 500 mixtures of diverse cellular expression profiles, we reveal that signalling entropy also associates with intra-tumour heterogeneity. By analysing 3668 breast cancer and 1692 lung adenocarcinoma samples, we further demonstrate that signalling entropy correlates negatively with survival, outperforming leading clinical gene expression based prognostic tools. Signalling entropy is found to be a general prognostic measure, valid in different breast cancer clinical subgroups, as well as within stage I lung adenocarcinoma. We find that its prognostic power is driven by genes involved in cancer stem cells and treatment resistance. In summary, by approximating both stemness and intra-tumour heterogeneity, signalling entropy provides a powerful prognostic measure across different epithelial cancers.

Activation of the Extracellular Signal-Regulated Kinase Signaling Is Critical for Human Umbilical Cord Mesenchymal Stem Cell Osteogenic Differentiation

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Chen-Shuang Li

2016-01-01

Full Text Available Human umbilical cord mesenchymal stem cells (hUCMSCs are recognized as candidate progenitor cells for bone regeneration. However, the mechanism of hUCMSC osteogenesis remains unclear. In this study, we revealed that mitogen-activated protein kinases (MAPKs signaling is involved in hUCMSC osteogenic differentiation in vitro. Particularly, the activation of c-Jun N-terminal kinases (JNK and p38 signaling pathways maintained a consistent level in hUCMSCs through the entire 21-day osteogenic differentiation period. At the same time, the activation of extracellular signal-regulated kinases (ERK signaling significantly increased from day 5, peaked at day 9, and declined thereafter. Moreover, gene profiling of osteogenic markers, alkaline phosphatase (ALP activity measurement, and alizarin red staining demonstrated that the application of U0126, a specific inhibitor for ERK activation, completely prohibited hUCMSC osteogenic differentiation. However, when U0126 was removed from the culture at day 9, ERK activation and osteogenic differentiation of hUCMSCs were partially recovered. Together, these findings demonstrate that the activation of ERK signaling is essential for hUCMSC osteogenic differentiation, which points out the significance of ERK signaling pathway to regulate the osteogenic differentiation of hUCMSCs as an alternative cell source for bone tissue engineering.

Global microRNA profiles and signaling pathways in the development of cardiac hypertrophy

Energy Technology Data Exchange (ETDEWEB)

Feng, H.J.; Ouyang, W.; Liu, J.H.; Sun, Y.G.; Hu, R.; Huang, L.H.; Xian, J.L. [Southern Medical University, Department of Nuclear Medicine, Zhujiang Hospital, Guangzhou, China, Department of Nuclear Medicine, Zhujiang Hospital, Southern Medical University, Guangzhou (China); Jing, C.F.; Zhou, M.J. [Sun Yat-Sen University, South China Sea Marine Biotechnology, National Engineering Research Center, Guangzhou, China, National Engineering Research Center, South China Sea Marine Biotechnology, Sun Yat-Sen University, Guangzhou (China)

2014-04-11

Hypertrophy is a major predictor of progressive heart disease and has an adverse prognosis. MicroRNAs (miRNAs) that accumulate during the course of cardiac hypertrophy may participate in the process. However, the nature of any interaction between a hypertrophy-specific signaling pathway and aberrant expression of miRNAs remains unclear. In this study, Spague Dawley male rats were treated with transverse aortic constriction (TAC) surgery to mimic pathological hypertrophy. Hearts were isolated from TAC and sham operated rats (n=5 for each group at 5, 10, 15, and 20 days after surgery) for miRNA microarray assay. The miRNAs dysexpressed during hypertrophy were further analyzed using a combination of bioinformatics algorithms in order to predict possible targets. Increased expression of the target genes identified in diverse signaling pathways was also analyzed. Two sets of miRNAs were identified, showing different expression patterns during hypertrophy. Bioinformatics analysis suggested the miRNAs may regulate multiple hypertrophy-specific signaling pathways by targeting the member genes and the interaction of miRNA and mRNA might form a network that leads to cardiac hypertrophy. In addition, the multifold changes in several miRNAs suggested that upregulation of rno-miR-331*, rno-miR-3596b, rno-miR-3557-5p and downregulation of rno-miR-10a, miR-221, miR-190, miR-451 could be seen as biomarkers of prognosis in clinical therapy of heart failure. This study described, for the first time, a potential mechanism of cardiac hypertrophy involving multiple signaling pathways that control up- and downregulation of miRNAs. It represents a first step in the systematic discovery of miRNA function in cardiovascular hypertrophy.

Determination of the ion thermal diffusivity from neutron emission profiles in decay

Energy Technology Data Exchange (ETDEWEB)

Sasao, M. (National Inst. for Fusion Science, Nagoya (Japan)); Adams, J.M. (AEA Industrial Technology, Harwell (United Kingdom)); Conroy, S.; Jarvis, O.N.; Marcus, F.B.; Sadler, G.; Belle, P. van (Commission of the European Communities, Abingdon (United Kingdom). JET Joint Undertaking)

1994-01-01

Spatial profiles of the neutron emission from deuterium plasmas are routinely obtained at the Joint European Torus (JET) using the line-integrated signals measured with a multichannel instrument. It is shown that the manner in which these profiles relax following the termination of strong heating with neutral beam injection (NBI) permits the local thermal diffusivity ([chi][sub i]) to be obtained with an accuracy of about 20%. (author).

Signaling of noncomprehension in communication breakdowns in fragile X syndrome, Down syndrome, and autism spectrum disorder.

Science.gov (United States)

Martin, Gary E; Barstein, Jamie; Hornickel, Jane; Matherly, Sara; Durante, Genna; Losh, Molly

The ability to indicate a failure to understand a message is a critical pragmatic (social) language skill for managing communication breakdowns and supporting successful communicative exchanges. The current study examined the ability to signal noncomprehension across different types of confusing message conditions in children and adolescents with fragile X syndrome (FXS), Down syndrome (DS), autism spectrum disorder (ASD), and typical development (TD). Controlling for nonverbal mental age and receptive vocabulary skills, youth with comorbid FXS and ASD and those with DS were less likely than TD controls to signal noncomprehension of confusing messages. Youth with FXS without ASD and those with idiopathic ASD did not differ from controls. No sex differences were detected in any group. Findings contribute to current knowledge of pragmatic profiles in different forms of genetically-based neurodevelopmental disorders associated with intellectual disability, and the role of sex in the expression of such profiles. Upon completion of this article, readers will have learned about: (1) the social-communicative profiles of youth with FXS, DS, and ASD, (2) the importance of signaling noncomprehension in response to a confusing message, and (3) the similarities and differences in noncomprehension signaling in youth with FXS (with and without ASD), DS, idiopathic ASD, and TD. Copyright © 2017 Elsevier Inc. All rights reserved.

Dact gene expression profiles suggest a role for this gene family in integrating Wnt and TGF-β signaling pathways during chicken limb development.

Science.gov (United States)

Sensiate, Lucimara Aparecida; Sobreira, Débora R; Da Veiga, Fernanda Cristina; Peterlini, Denner Jefferson; Pedrosa, Angelica Vasconcelos; Rirsch, Thaís; Joazeiro, Paulo Pinto; Schubert, Frank R; Collares-Buzato, Carla Beatriz; Xavier-Neto, José; Dietrich, Susanne; Alvares, Lúcia Elvira

2014-03-01

Dact gene family encodes multifunctional proteins that are important modulators of Wnt and TGF-β signaling pathways. Given that these pathways coordinate multiple steps of limb development, we investigated the expression pattern of the two chicken Dact genes (Dact1 and Dact2) from early limb bud up to stages when several tissues are differentiating. During early limb development (HH24-HH30) Dact1 and Dact2 were mainly expressed in the cartilaginous rudiments of the appendicular skeleton and perichondrium, presenting expression profiles related, but distinct. At later stages of development (HH31-HH35), the main sites of Dact1 and Dact2 expression were the developing synovial joints. In this context, Dact1 expression was shown to co-localize with regions enriched in the nuclear β-catenin protein, such as developing joint capsule and interzone. In contrast, Dact2 expression was restricted to the interzone surrounding the domains of bmpR-1b expression, a TGF-β receptor with crucial roles during digit morphogenesis. Additional sites of Dact expression were the developing tendons and digit blastemas. Our data indicate that Dact genes are good candidates to modulate and, possibly, integrate Wnt and TGF-β signaling during limb development, bringing new and interesting perspectives about the roles of Dact molecules in limb birth defects and human diseases. Copyright © 2013 Wiley Periodicals, Inc.

Dysregulation of hepatic microRNA expression profiles with Clonorchis sinensis infection.

Science.gov (United States)

Han, Su; Tang, Qiaoran; Lu, Xi; Chen, Rui; Li, Yihong; Shu, Jing; Zhang, Xiaoli; Cao, Jianping

2016-11-30

Clonorchiasis remains an important zoonotic parasitic disease worldwide. The molecular mechanisms of host-parasite interaction are not fully understood. Non-coding microRNAs (miRNAs) are considered to be key regulators in parasitic diseases. The regulation of miRNAs and host micro-environment may be involved in clonorchiasis, and require further investigation. MiRNA microarray technology and bioinformatic analysis were used to investigate the regulatory mechanisms of host miRNA and to compare miRNA expression profiles in the liver tissues of control and Clonorchis sinensis (C. sinensis)-infected rats. A total of eight miRNAs were downregulated and two were upregulated, which showed differentially altered expression profiles in the liver tissue of C. sinensis-infected rats. Further analysis of the differentially expressed miRNAs revealed that many important signal pathways were triggered after infection with C. sinensis, which were related to clonorchiasis pathogenesis, such as cell apoptosis and inflammation, as well as genes involved in signal transduction mechanisms, such as pathways in cancer and the Wnt and Mitogen-activated protein kinases (MAPK) signaling pathways. The present study revealed that the miRNA expression profiles of the host were changed by C. sinensis infection. This dysregulation in miRNA expression may contribute to the etiology and pathophysiology of clonorchiasis. These results also provide new insights into the regulatory mechanisms of miRNAs in clonorchiasis, which may present potential targets for future C. sinensis control strategies.

Is the macromolecule signal tissue-specific in healthy human brain? A (1)H MRS study at 7 Tesla in the occipital lobe.

Science.gov (United States)

Schaller, Benoît; Xin, Lijing; Gruetter, Rolf

2014-10-01

The macromolecule signal plays a key role in the precision and the accuracy of the metabolite quantification in short-TE (1) H MR spectroscopy. Macromolecules have been reported at 1.5 Tesla (T) to depend on the cerebral studied region and to be age specific. As metabolite concentrations vary locally, information about the profile of the macromolecule signal in different tissues may be of crucial importance. The aim of this study was to investigate, at 7T for healthy subjects, the neurochemical profile differences provided by macromolecule signal measured in two different tissues in the occipital lobe, predominantly composed of white matter tissue or of grey matter tissue. White matter-rich macromolecule signal was relatively lower than the gray matter-rich macromolecule signal from 1.5 to 1.8 ppm and from 2.3 to 2.5 ppm with mean difference over these regions of 7% and 12% (relative to the reference peak at 0.9 ppm), respectively. The neurochemical profiles, when using either of the two macromolecule signals, were similar for 11 reliably quantified metabolites (CRLB occipital lobe at 7T in healthy human brain. Copyright © 2013 Wiley Periodicals, Inc.

Age-related changes of healthy bone marrow cell signaling in response to growth factors provide insight into low risk MDS.

Science.gov (United States)

Kornblau, Steven M; Cohen, Aileen C; Soper, David; Huang, Ying-Wen; Cesano, Alessandra

2014-11-01

Single Cell Network Profiling (SCNP) is a multiparametric flow cytometry-based assay that quantifiably and simultaneously measures changes in intracellular signaling proteins in response to in vitro extracellular modulators at the single cell level. Myelodysplastic syndrome (MDS) is a heterogeneous clonal disorder of hematopoietic stem cells that occurs in elderly subjects and is characterized by dysplasia and ineffective hematopoiesis. The functional responsiveness of MDS bone marrow (BM) hematopoietic cells, including functionally distinct myeloid and erythroid precursor subsets, to hematopoietic growth factors (HGF) and the relationship of modulated signaling to disease characteristics is poorly understood. SCNP was used first to examine the effects of age on erythropoietin (EPO) and granulocyte colony stimulating factor (GCSF)-induced signaling in myeloid, nucleated red blood cells (nRBC), and CD34 expressing cell subsets in healthy BM (n = 15). SCNP was then used to map functional signaling profiles in low risk (LR) MDS (n = 7) for comparison to signaling in samples from healthy donors and to probe signaling associations within clinically defined subgroups. In healthy BM samples, signaling responses to HGF were quite homogeneous (i.e., tightly regulated) with age-dependent effects observed in response to EPO but not to GCSF. Despite the relatively small number of samples assayed in the study, LR MDS could be classified into distinct subgroups based on both cell subset frequency and signaling profiles. As a correlate of underlying genetic abnormalities, signal transduction analyses may provide a functional and potentially clinically relevant classification of MDS. Further evaluation in a larger cohort is warranted. © 2013 Clinical Cytometry Society.

AP2/EREBP transcription factors are part of gene regulatory networks and integrate metabolic, hormonal and environmental signals in stress acclimation and retrograde signalling.

Science.gov (United States)

Dietz, Karl-Josef; Vogel, Marc Oliver; Viehhauser, Andrea

2010-09-01

To optimize acclimation responses to environmental growth conditions, plants integrate and weigh a diversity of input signals. Signal integration within the signalling networks occurs at different sites including the level of transcription factor activation. Accumulating evidence assigns a major and diversified role in environmental signal integration to the family of APETALA 2/ethylene response element binding protein (AP2/EREBP) transcription factors. Presently, the Plant Transcription Factor Database 3.0 assigns 147 gene loci to this family in Arabidopsis thaliana, 200 in Populus trichocarpa and 163 in Oryza sativa subsp. japonica as compared to 13 to 14 in unicellular algae ( http://plntfdb.bio.uni-potsdam.de/v3.0/ ). AP2/EREBP transcription factors have been implicated in hormone, sugar and redox signalling in context of abiotic stresses such as cold and drought. This review exemplarily addresses present-day knowledge of selected AP2/EREBP with focus on a function in stress signal integration and retrograde signalling and defines AP2/EREBP-linked gene networks from transcriptional profiling-based graphical Gaussian models. The latter approach suggests highly interlinked functions of AP2/EREBPs in retrograde and stress signalling.

Design of a D-alpha beam-ion profile diagnostic

International Nuclear Information System (INIS)

Luo, Y.; Heidbrink, W.W.; Burrell, K.H.

2004-01-01

Injected neutral beams ionize to create a population of beam ions. As they orbit around the tokamak and pass through the heating beams, some beam ions re-neutralize and emit D-alpha light. The intensity of this emission is weak compared to the signals from the injected neutrals, the warm (halo) neutrals, and the edge recombination neutrals but, for a favorable viewing geometry, the emission is Doppler shifted away from these bright interfering signals. Preliminary data from the DIII-D tokamak show that signals from re-neutralized beam ions have already been detected. A three-channel prototype instrument consisting of a spectrometer, mask, camera lenses, and frame-transfer charge coupled device is under development for measurements of the spatial profile of the beam ions

Kinome profiling of Arabidopsis using arrays of kinase consensus substrates

Directory of Open Access Journals (Sweden)

Pieterse Corné MJ

2007-02-01

Full Text Available Abstract Background Kinome profiling aims at the parallel analysis of kinase activities in a cell. Novel developed arrays containing consensus substrates for kinases are used to assess those kinase activities. The arrays described in this paper were already used to determine kinase activities in mammalian systems, but since substrates from many organisms are present we decided to test these arrays for the determination of kinase activities in the model plant species Arabidopsis thaliana. Results Kinome profiling using Arabidopsis cell extracts resulted in the labelling of many consensus peptides by kinases from the plant, indicating the usefulness of this kinome profiling tool for plants. Method development showed that fresh and frozen plant material could be used to make cell lysates containing active kinases. Dilution of the plant extract increased the signal to noise ratio and non-radioactive ATP enhances full development of spot intensities. Upon infection of Arabidopsis with an avirulent strain of the bacterial pathogen Pseudomonas syringae pv. tomato, we could detect differential kinase activities by measuring phosphorylation of consensus peptides. Conclusion We show that kinome profiling on arrays with consensus substrates can be used to monitor kinase activities in plants. In a case study we show that upon infection with avirulent P. syringae differential kinase activities can be found. The PepChip can for example be used to purify (unknown kinases that play a role in P. syringae infection. This paper shows that kinome profiling using arrays of consensus peptides is a valuable new tool to study signal-transduction in plants. It complements the available methods for genomics and proteomics research.

Binary similarity measures for fingerprint analysis of qualitative metabolomic profiles.

Science.gov (United States)

Rácz, Anita; Andrić, Filip; Bajusz, Dávid; Héberger, Károly

2018-01-01

Contemporary metabolomic fingerprinting is based on multiple spectrometric and chromatographic signals, used either alone or combined with structural and chemical information of metabolic markers at the qualitative and semiquantitative level. However, signal shifting, convolution, and matrix effects may compromise metabolomic patterns. Recent increase in the use of qualitative metabolomic data, described by the presence (1) or absence (0) of particular metabolites, demonstrates great potential in the field of metabolomic profiling and fingerprint analysis. The aim of this study is a comprehensive evaluation of binary similarity measures for the elucidation of patterns among samples of different botanical origin and various metabolomic profiles. Nine qualitative metabolomic data sets covering a wide range of natural products and metabolomic profiles were applied to assess 44 binary similarity measures for the fingerprinting of plant extracts and natural products. The measures were analyzed by the novel sum of ranking differences method (SRD), searching for the most promising candidates. Baroni-Urbani-Buser (BUB) and Hawkins-Dotson (HD) similarity coefficients were selected as the best measures by SRD and analysis of variance (ANOVA), while Dice (Di1), Yule, Russel-Rao, and Consonni-Todeschini 3 ranked the worst. ANOVA revealed that concordantly and intermediately symmetric similarity coefficients are better candidates for metabolomic fingerprinting than the asymmetric and correlation based ones. The fingerprint analysis based on the BUB and HD coefficients and qualitative metabolomic data performed equally well as the quantitative metabolomic profile analysis. Fingerprint analysis based on the qualitative metabolomic profiles and binary similarity measures proved to be a reliable way in finding the same/similar patterns in metabolomic data as that extracted from quantitative data.

Sparse Representation Denoising for Radar High Resolution Range Profiling

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Min Li

2014-01-01

Full Text Available Radar high resolution range profile has attracted considerable attention in radar automatic target recognition. In practice, radar return is usually contaminated by noise, which results in profile distortion and recognition performance degradation. To deal with this problem, in this paper, a novel denoising method based on sparse representation is proposed to remove the Gaussian white additive noise. The return is sparsely described in the Fourier redundant dictionary and the denoising problem is described as a sparse representation model. Noise level of the return, which is crucial to the denoising performance but often unknown, is estimated by performing subspace method on the sliding subsequence correlation matrix. Sliding window process enables noise level estimation using only one observation sequence, not only guaranteeing estimation efficiency but also avoiding the influence of profile time-shift sensitivity. Experimental results show that the proposed method can effectively improve the signal-to-noise ratio of the return, leading to a high-quality profile.

Efficient reconstruction of dispersive dielectric profiles using time domain reflectometry (TDR

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P. Leidenberger

2006-01-01

Full Text Available We present a numerical model for time domain reflectometry (TDR signal propagation in dispersive dielectric materials. The numerical probe model is terminated with a parallel circuit, consisting of an ohmic resistor and an ideal capacitance. We derive analytical approximations for the capacitance, the inductance and the conductance of three-wire probes. We couple the time domain model with global optimization in order to reconstruct water content profiles from TDR traces. For efficiently solving the inverse problem we use genetic algorithms combined with a hierarchical parameterization. We investigate the performance of the method by reconstructing synthetically generated profiles. The algorithm is then applied to retrieve dielectric profiles from TDR traces measured in the field. We succeed in reconstructing dielectric and ohmic profiles where conventional methods, based on travel time extraction, fail.

Transcriptional Profiling of the Oral Pathogen Streptococcus mutans in Response to Competence Signaling Peptide XIP.

Science.gov (United States)

Wenderska, Iwona B; Latos, Andrew; Pruitt, Benjamin; Palmer, Sara; Spatafora, Grace; Senadheera, Dilani B; Cvitkovitch, Dennis G

2017-01-01

In the cariogenic Streptococcus mutans , competence development is regulated by the ComRS signaling system comprised of the ComR regulator and the ComS prepeptide to the competence signaling peptide XIP (ComX-inducing peptide). Aside from competence development, XIP signaling has been demonstrated to regulate cell lysis, and recently, the expression of bacteriocins, small antimicrobial peptides used by bacteria to inhibit closely related species. Our study further explores the effect of XIP signaling on the S. mutans transcriptome. RNA sequencing revealed that XIP induction resulted in a global change in gene expression that was consistent with a stress response. An increase in several membrane-bound regulators, including HdrRM and BrsRM, involved in bacteriocin production, and the VicRKX system, involved in acid tolerance and biofilm formation, was observed. Furthermore, global changes in gene expression corresponded to changes observed during the stringent response to amino acid starvation. Effects were also observed on genes involved in sugar transport and carbon catabolite repression and included the levQRST and levDEFG operons. Finally, our work identified a novel heat shock-responsive intergenic region, encoding a small RNA, with a potential role in competence shutoff. IMPORTANCE Genetic competence provides bacteria with an opportunity to increase genetic diversity or acquire novel traits conferring a survival advantage. In the cariogenic pathogen Streptococcus mutans , DNA transformation is regulated by the competence stimulating peptide XIP (ComX-inducing peptide). The present study utilizes high-throughput RNA sequencing (RNAseq) to provide a greater understanding of how global gene expression patterns change in response to XIP. Overall, our work demonstrates that in S. mutans , XIP signaling induces a response that resembles the stringent response to amino acid starvation. We further identify a novel heat shock-responsive intergenic region with a

Fast subcellular localization by cascaded fusion of signal-based and homology-based methods

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Wang Wei

2011-10-01

Full Text Available Abstract Background The functions of proteins are closely related to their subcellular locations. In the post-genomics era, the amount of gene and protein data grows exponentially, which necessitates the prediction of subcellular localization by computational means. Results This paper proposes mitigating the computation burden of alignment-based approaches to subcellular localization prediction by a cascaded fusion of cleavage site prediction and profile alignment. Specifically, the informative segments of protein sequences are identified by a cleavage site predictor using the information in their N-terminal shorting signals. Then, the sequences are truncated at the cleavage site positions, and the shortened sequences are passed to PSI-BLAST for computing their profiles. Subcellular localization are subsequently predicted by a profile-to-profile alignment support-vector-machine (SVM classifier. To further reduce the training and recognition time of the classifier, the SVM classifier is replaced by a new kernel method based on the perturbational discriminant analysis (PDA. Conclusions Experimental results on a new dataset based on Swiss-Prot Release 57.5 show that the method can make use of the best property of signal- and homology-based approaches and can attain an accuracy comparable to that achieved by using full-length sequences. Analysis of profile-alignment score matrices suggest that both profile creation time and profile alignment time can be reduced without significant reduction in subcellular localization accuracy. It was found that PDA enjoys a short training time as compared to the conventional SVM. We advocate that the method will be important for biologists to conduct large-scale protein annotation or for bioinformaticians to perform preliminary investigations on new algorithms that involve pairwise alignments.

Amplitude calibration of an acoustic backscattered signal from a bottom-moored ADCP based on long-term measurement series

Science.gov (United States)

Piotukh, V. B.; Zatsepin, A. G.; Kuklev, S. B.

2017-05-01

A possible approach to, and preliminary results of, amplitude calibration of acoustic signals backscattered from an ADCP moored at the bottom of the near-shelf zone of the Black Sea is considered. The aim of this work is to obtain vertical profiles of acoustic scattering signal levels, showing the real characteristics of the volume content of suspended sediments in sea water in units of conventional acoustic turbidity for a given signal frequency. In this case, the assumption about the intervals of maximum acoustic transparency and vertical homogeneity of the marine environment in long-term series of ADCP measurements is used. According to this hypothesis, the intervals of the least values of acoustic backscattered signals are detected, an empirical transfer function of the ADCP reception path is constructed, and it is calibrated. Normalized sets of acoustic backscattered signals relative to a signal from a level of conventionally clear water are obtained. New features in the behavior of vertical profiles of an acoustic echo-signal are revealed due to the calibration. The results of this work will be used in subsequent analysis of the vertical and time variations in suspended sediment content in the near-shelf zone of the Black Sea.

High-resolution moisture profiles from full-waveform probabilistic inversion of TDR signals

Science.gov (United States)

Laloy, Eric; Huisman, Johan Alexander; Jacques, Diederik

2014-11-01

This study presents an novel Bayesian inversion scheme for high-dimensional undetermined TDR waveform inversion. The methodology quantifies uncertainty in the moisture content distribution, using a Gaussian Markov random field (GMRF) prior as regularization operator. A spatial resolution of 1 cm along a 70-cm long TDR probe is considered for the inferred moisture content. Numerical testing shows that the proposed inversion approach works very well in case of a perfect model and Gaussian measurement errors. Real-world application results are generally satisfying. For a series of TDR measurements made during imbibition and evaporation from a laboratory soil column, the average root-mean-square error (RMSE) between maximum a posteriori (MAP) moisture distribution and reference TDR measurements is 0.04 cm3 cm-3. This RMSE value reduces to less than 0.02 cm3 cm-3 for a field application in a podzol soil. The observed model-data discrepancies are primarily due to model inadequacy, such as our simplified modeling of the bulk soil electrical conductivity profile. Among the important issues that should be addressed in future work are the explicit inference of the soil electrical conductivity profile along with the other sampled variables, the modeling of the temperature-dependence of the coaxial cable properties and the definition of an appropriate statistical model of the residual errors.

Transfer characteristics of optical profilers with respect to rectangular edge and step height measurement

Science.gov (United States)

Xie, Weichang; Hagemeier, Sebastian; Bischoff, Jörg; Mastylo, Rostyslav; Manske, Eberhard; Lehmann, Peter

2017-06-01

Optical profilers are mature instruments used in research and industry to study surface topography features. Although the corresponding standards are based on simple step height measurements, in practical applications these instruments are often used to study the fidelity of surface topography. In this context it is well-known that in certain situations a surface profile obtained by an optical profiler will differ from the real profile. With respect to practical applications such deviations often occur in the vicinity of steep walls and in cases of high aspect ratio. In this contribution we compare the transfer characteristics of different 3D optical profiler principles, namely white-light interferometry, focus sensing, and confocal microscopy. Experimental results demonstrate that the transfer characteristics do not only depend on the parameters of the optical measurement system (e. g. wavelength and coherence of light, numerical aperture, evaluated signal feature, polarization) but also on the properties of the measuring object such as step height, aspect ratio, material properties and homogeneity, rounding and steepness of the edges, surface roughness. As a result, typical artefacts such as batwings occur for certain parameter combinations, particularly at certain height-to-wavelength ratio (HWR) values. Understanding of the mechanisms behind these phenomena enables to reduce them by an appropriate parameter adaption. However, it is not only the edge artefacts, but also the position of an edge that may be changed due to the properties of the measuring object. In order to investigate the relevant effects theoretically, several models are introduced. These are based on either an extension of Richards-Wolf modeling or rigorous coupled wave analysis (RCWA). Although these models explain the experimental effects quite well they suffer from different limitations, so that a quantitative correspondence of theoretical modeling and experimental results is hard to achieve

Pulsed photothermal profiling of water-based samples using a spectrally composite reconstruction approach

International Nuclear Information System (INIS)

Majaron, B; Milanic, M

2010-01-01

Pulsed photothermal profiling involves reconstruction of temperature depth profile induced in a layered sample by single-pulse laser exposure, based on transient change in mid-infrared (IR) emission from its surface. Earlier studies have indicated that in watery tissues, featuring a pronounced spectral variation of mid-IR absorption coefficient, analysis of broadband radiometric signals within the customary monochromatic approximation adversely affects profiling accuracy. We present here an experimental comparison of pulsed photothermal profiling in layered agar gel samples utilizing a spectrally composite kernel matrix vs. the customary approach. By utilizing a custom reconstruction code, the augmented approach reduces broadening of individual temperature peaks to 14% of the absorber depth, in contrast to 21% obtained with the customary approach.

Interpopulational Variations in Sexual Chemical Signals of Iberian Wall Lizards May Allow Maximizing Signal Efficiency under Different Climatic Conditions.

Science.gov (United States)

Martín, José; Ortega, Jesús; López, Pilar

2015-01-01

Sexual signals used in intraspecific communication are expected to evolve to maximize efficacy under a given climatic condition. Thus, chemical secretions of lizards might evolve in the evolutionary time to ensure that signals are perfectly tuned to local humidity and temperature conditions affecting their volatility and therefore their persistence and transmission through the environment. We tested experimentally whether interpopulational altitudinal differences in chemical composition of femoral gland secretions of male Iberian wall lizards (Podarcis hispanicus) have evolved to maximize efficacy of chemical signals in different environmental conditions. Chemical analyses first showed that the characteristics of chemical signals of male lizards differed between two populations inhabiting environments with different climatic conditions in spite of the fact that these two populations are closely related genetically. We also examined experimentally whether the temporal attenuation of the chemical stimuli depended on simulated climatic conditions. Thus, we used tongue-flick essays to test whether female lizards were able to detect male scent marks maintained under different conditions of temperature and humidity by chemosensory cues alone. Chemosensory tests showed that chemical signals of males had a lower efficacy (i.e. detectability and persistence) when temperature and dryness increase, but that these effects were more detrimental for signals of the highest elevation population, which occupies naturally colder and more humid environments. We suggest that the abiotic environment may cause a selective pressure on the form and expression of sexual chemical signals. Therefore, interpopulational differences in chemical profiles of femoral secretions of male P. hispanicus lizards may reflect adaptation to maximize the efficacy of the chemical signal in different climates.

UV laser beam profile measurement by means of the photoelectric effect on the wires of a proportional chamber

International Nuclear Information System (INIS)

Prokoviev, O.; Seiler, P.G.

1989-01-01

A simple technique to measure the profiles of pulsed UV laser beams is described. Irradiating a cathode wire of a proportional chamber with UV laser shots results in signals from the anode wire whose amplitudes are proportional to the UV light intensity. Profile scanning is performed by shifting the chamber across the beam. The chamber can also be used with reversed polarities. This leads to avalanches developing outwardly from the signal wire. In this case we observe a quadratic dependence of the pulse height on the UV light intensity. (orig.)

Insulin signaling mediates sexual attractiveness in Drosophila.

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Tsung-Han Kuo

Full Text Available Sexually attractive characteristics are often thought to reflect an individual's condition or reproductive potential, but the underlying molecular mechanisms through which they do so are generally unknown. Insulin/insulin-like growth factor signaling (IIS is known to modulate aging, reproduction, and stress resistance in several species and to contribute to variability of these traits in natural populations. Here we show that IIS determines sexual attractiveness in Drosophila through transcriptional regulation of genes involved in the production of cuticular hydrocarbons (CHC, many of which function as pheromones. Using traditional gas chromatography/mass spectrometry (GC/MS together with newly introduced laser desorption/ionization orthogonal time-of-flight mass spectrometry (LDI-MS we establish that CHC profiles are significantly affected by genetic manipulations that target IIS. Manipulations that reduce IIS also reduce attractiveness, while females with increased IIS are significantly more attractive than wild-type animals. IIS effects on attractiveness are mediated by changes in CHC profiles. Insulin signaling influences CHC through pathways that are likely independent of dFOXO and that may involve the nutrient-sensing Target of Rapamycin (TOR pathway. These results suggest that the activity of conserved molecular regulators of longevity and reproductive output may manifest in different species as external characteristics that are perceived as honest indicators of fitness potential.

Dressed for Sex: Red as a Female Sexual Signal in Humans

Science.gov (United States)

Elliot, Andrew J.; Pazda, Adam D.

2012-01-01

Background In many non-human primate species, a display of red by a female serves as a sexual signal to attract male conspecifics. Red is associated with sex and romance in humans, and women convey their sexual interest to men through a variety of verbal, postural, and behavioral means. In the present research, we investigate whether female red ornamentation in non-human primates has a human analog, whereby women use a behavioral display of red to signal their sexual interest to men. Methodology/Principal Findings Three studies tested the hypothesis that women use red clothing to communicate sexual interest to men in profile pictures on dating websites. In Study 1, women who imagined being interested in casual sex were more likely to display red (but not other colors) on their anticipated web profile picture. In Study 2, women who indicated interest in casual sex were more likely to prominently display red (but not other colors) on their actual web profile picture. In Study 3, women on a website dedicated to facilitating casual sexual relationships were more likely to prominently exhibit red (but not other colors) than women on a website dedicated to facilitating marital relationships. Conclusions/Significance These results establish a provocative parallel between women and non-human female primates in red signal coloration in the mating game. This research shows, for the first time, a functional use of color in women's sexual self-presentation, and highlights the need to extend research on color beyond physics, physiology, and preference to psychological functioning. PMID:22514643

Dressed for sex: red as a female sexual signal in humans.

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Andrew J Elliot

Full Text Available BACKGROUND: In many non-human primate species, a display of red by a female serves as a sexual signal to attract male conspecifics. Red is associated with sex and romance in humans, and women convey their sexual interest to men through a variety of verbal, postural, and behavioral means. In the present research, we investigate whether female red ornamentation in non-human primates has a human analog, whereby women use a behavioral display of red to signal their sexual interest to men. METHODOLOGY/PRINCIPAL FINDINGS: Three studies tested the hypothesis that women use red clothing to communicate sexual interest to men in profile pictures on dating websites. In Study 1, women who imagined being interested in casual sex were more likely to display red (but not other colors on their anticipated web profile picture. In Study 2, women who indicated interest in casual sex were more likely to prominently display red (but not other colors on their actual web profile picture. In Study 3, women on a website dedicated to facilitating casual sexual relationships were more likely to prominently exhibit red (but not other colors than women on a website dedicated to facilitating marital relationships. CONCLUSIONS/SIGNIFICANCE: These results establish a provocative parallel between women and non-human female primates in red signal coloration in the mating game. This research shows, for the first time, a functional use of color in women's sexual self-presentation, and highlights the need to extend research on color beyond physics, physiology, and preference to psychological functioning.

Atmospheric influences on infrared-laser signals used for occultation measurements between Low Earth Orbit satellites

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S. Schweitzer

2011-10-01

Full Text Available LEO-LEO infrared-laser occultation (LIO is a new occultation technique between Low Earth Orbit (LEO satellites, which applies signals in the short wave infrared spectral range (SWIR within 2 μm to 2.5 μm. It is part of the LEO-LEO microwave and infrared-laser occultation (LMIO method that enables to retrieve thermodynamic profiles (pressure, temperature, humidity and altitude levels from microwave signals and profiles of greenhouse gases and further variables such as line-of-sight wind speed from simultaneously measured LIO signals. Due to the novelty of the LMIO method, detailed knowledge of atmospheric influences on LIO signals and of their suitability for accurate trace species retrieval did not yet exist. Here we discuss these influences, assessing effects from refraction, trace species absorption, aerosol extinction and Rayleigh scattering in detail, and addressing clouds, turbulence, wind, scattered solar radiation and terrestrial thermal radiation as well. We show that the influence of refractive defocusing, foreign species absorption, aerosols and turbulence is observable, but can be rendered small to negligible by use of the differential transmission principle with a close frequency spacing of LIO absorption and reference signals within 0.5%. The influences of Rayleigh scattering and terrestrial thermal radiation are found negligible. Cloud-scattered solar radiation can be observable under bright-day conditions, but this influence can be made negligible by a close time spacing (within 5 ms of interleaved laser-pulse and background signals. Cloud extinction loss generally blocks SWIR signals, except very thin or sub-visible cirrus clouds, which can be addressed by retrieving a cloud layering profile and exploiting it in the trace species retrieval. Wind can have a small influence on the trace species absorption, which can be made negligible by using a simultaneously retrieved or a moderately accurate background wind speed profile. We

Resolving Early Signaling Events in T-Cell Activation Leading to IL-2 and FOXP3 Transcription

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Jeffrey P. Perley

2014-11-01

Full Text Available Signal intensity and feedback regulation are known to be major factors in the signaling events stemming from the T-cell receptor (TCR and its various coreceptors, but the exact nature of these relationships remains in question. We present a mathematical model of the complex signaling network involved in T-cell activation with cross-talk between the Erk, calcium, PKC and mTOR signaling pathways. The model parameters are adjusted to fit new and published data on TCR trafficking, Zap70, calcium, Erk and Isignaling. The regulation of the early signaling events by phosphatases, CD45 and SHP1, and the TCR dynamics are critical to determining the behavior of the model. Additional model corroboration is provided through quantitative and qualitative agreement with experimental data collected under different stimulating and knockout conditions. The resulting model is analyzed to investigate how signal intensity and feedback regulation affect TCR- and coreceptor-mediated signal transduction and their downstream transcriptional profiles to predict the outcome for a variety of stimulatory and knockdown experiments. Analysis of the model shows that: (1 SHP1 negative feedback is necessary for preventing hyperactivity in TCR signaling; (2 CD45 is required for TCR signaling, but also partially suppresses it at high expression levels; and (3 elevated FOXP3 and reduced IL-2 signaling, an expression profile often associated with T regulatory cells (Tregs, is observed when the system is subjected to weak TCR and CD28 costimulation or a severe reduction in CD45 activity.

Tritium depth profiling in carbon by accelerator mass spectrometry

International Nuclear Information System (INIS)

Friedrich, M.; Pilz, W.; Sun, G.; Behrisch, R.; Garcia-Rosales, C.; Bekris, N.; Penzhorn, R.-D.

2000-01-01

Tritium depth profiling measurements by accelerator mass spectrometry have been performed at the facility installed at the Rossendorf 3 MV Tandetron. In order to achieve a uniform erosion at the target surface inside a commercial Cs ion sputtering source and to avoid edge effects, the samples were mechanically scanned and the signals were recorded only during sputtering at the centre of the sputtered area. The sputtered negative ions were mass analysed by the injection magnet of the Tandetron. Hydrogen and deuterium profiles were measured with the Faraday cup between the injection magnet and the accelerator, while the tritium was counted after the accelerator with semiconductor detectors. Depth profiles have been measured for carbon samples which had been exposed to the plasma at the first wall of the Garching fusion experiment ASDEX-Upgrade and from the European fusion experiment JET, Culham, UK

Distinct patterns of DNA damage response and apoptosis correlate with Jak/Stat and PI3kinase response profiles in human acute myelogenous leukemia.

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David B Rosen

Full Text Available BACKGROUND: Single cell network profiling (SCNP utilizing flow cytometry measures alterations in intracellular signaling responses. Here SCNP was used to characterize Acute Myeloid Leukemia (AML disease subtypes based on survival, DNA damage response and apoptosis pathways. METHODOLOGY AND PRINCIPAL FINDINGS: Thirty four diagnostic non-M3 AML samples from patients with known clinical outcome were treated with a panel of myeloid growth factors and cytokines, as well as with apoptosis-inducing agents. Analysis of induced Jak/Stat and PI3K pathway responses in blasts from individual patient samples identified subgroups with distinct signaling profiles that were not seen in the absence of a modulator. In vitro exposure of patient samples to etoposide, a DNA damaging agent, revealed three distinct "DNA damage response (DDR/apoptosis" profiles: 1 AML blasts with a defective DDR and failure to undergo apoptosis; 2 AML blasts with proficient DDR and failure to undergo apoptosis; 3 AML blasts with proficiency in both DDR and apoptosis pathways. Notably, AML samples from clinical responders fell within the "DDR/apoptosis" proficient profile and, as well, had low PI3K and Jak/Stat signaling responses. In contrast, samples from clinical non responders had variable signaling profiles often with in vitro apoptotic failure and elevated PI3K pathway activity. Individual patient samples often harbored multiple, distinct, leukemia-associated cell populations identifiable by their surface marker expression, functional performance of signaling pathway in the face of cytokine or growth factor stimulation, as well as their response to apoptosis-inducing agents. CONCLUSIONS AND SIGNIFICANCE: Characterizing and tracking changes in intracellular pathway profiles in cell subpopulations both at baseline and under therapeutic pressure will likely have important clinical applications, potentially informing the selection of beneficial targeted agents, used either alone or in

Using elastic peak electron spectroscopy for enhanced depth resolution in sputter profiling

International Nuclear Information System (INIS)

Hofmann, S.; Kesler, V.

2002-01-01

Elastic peak electron spectroscopy (EPES) is an alternative to AES in sputter depth profiling of thin film structures. In contrast to AES, EPES depth profiling is not influenced by chemical effects. The high count rate ensures a good signal to noise ratio, that is lower measurement times and/or higher precision. In addition, because of the elastically scattered electrons travel twice through the sample, the effective escape depth is reduced, an important factor for the depth resolution function. Thus, the depth resolution is increased. EPES depth profiling was successfully applied to a Ge/Si multilayer structure. For an elastic peak energy of 1.0 keV the information depth is considerably lower (0.8 nm) as compared to the Ge (LMM, 1147 eV) peak (1.6 nm) used in AES depth profiling, resulting in a respectively improved depth resolution for EPES profiling under otherwise similar profiling conditions. EPES depth profiling is successfully applied to measure small diffusion lengths at Ge/Si interfaces of the order of 1 nm. (Authors)

Preliminary evidence that negative symptom severity relates to multilocus genetic profile for dopamine signaling capacity and D2 receptor binding in healthy controls and in schizophrenia.

Science.gov (United States)

Eisenstein, Sarah A; Bogdan, Ryan; Chen, Ling; Moerlein, Stephen M; Black, Kevin J; Perlmutter, Joel S; Hershey, Tamara; Barch, Deanna M

2017-03-01

Deficits in central, subcortical dopamine (DA) signaling may underlie negative symptom severity, particularly anhedonia, in healthy individuals and in schizophrenia. To investigate these relationships, we assessed negative symptoms with the Schedule for the Assessment of Negative Symptoms and the Brief Negative Symptom Scale (BNSS) and self-reported anhedonia with the Scales for Physical and Social Anhedonia (SPSA), Temporal Experience of Pleasure Scale, and Snaith-Hamilton Pleasure Scale in 36 healthy controls (HC), 27 siblings (SIB) of individuals with schizophrenia, and 66 individuals with schizophrenia or schizoaffective disorder (SCZ). A subset of participants (N = 124) were genotyped for DA-related polymorphisms in genes for DRD4, DRD2/ANKK1, DAT1, and COMT, which were used to construct biologically-informed multi-locus genetic profile (MGP) scores reflective of subcortical dopaminergic signaling. DA receptor type 2 (D2R) binding was assessed among a second subset of participants (N = 23) using PET scans with the D2R-selective, non-displaceable radioligand (N-[ 11 C]methyl)benperidol. Higher MGP scores, reflecting elevated subcortical dopaminergic signaling capacity, were associated with less negative symptom severity, as measured by the BNSS, across all participants. In addition, higher striatal D2R binding was associated with less physical and social anhedonia, as measured by the SPSA, across HC, SIB, and SCZ. The current preliminary findings support the hypothesis that subcortical DA function may contribute to negative symptom severity and self-reported anhedonia, independent of diagnostic status. Copyright © 2016 Elsevier Ltd. All rights reserved.

Temperature Profiles During Quenches in LHC Superconducting Dipole Magnets Protected by Quench Heaters

OpenAIRE

Maroussov, V; Sanfilippo, S; Siemko, A

1999-01-01

The efficiency of the magnet protection by quench heaters was studied using a novel method which derives the temperature profile in a superconducting magnet during a quench from measured voltage signals. In several Large Hadron Collider single aperture dipole models, temperature profiles and temperature gradients in the magnet coil have been evaluated in the case of protection by different sets of quench heaters and different powering and protection parameters. The influence of the insulation...

Estimation of inhalation flow profile using audio-based methods to assess inhaler medication adherence

Science.gov (United States)

Lacalle Muls, Helena; Costello, Richard W.; Reilly, Richard B.

2018-01-01

Asthma and chronic obstructive pulmonary disease (COPD) patients are required to inhale forcefully and deeply to receive medication when using a dry powder inhaler (DPI). There is a clinical need to objectively monitor the inhalation flow profile of DPIs in order to remotely monitor patient inhalation technique. Audio-based methods have been previously employed to accurately estimate flow parameters such as the peak inspiratory flow rate of inhalations, however, these methods required multiple calibration inhalation audio recordings. In this study, an audio-based method is presented that accurately estimates inhalation flow profile using only one calibration inhalation audio recording. Twenty healthy participants were asked to perform 15 inhalations through a placebo Ellipta™ DPI at a range of inspiratory flow rates. Inhalation flow signals were recorded using a pneumotachograph spirometer while inhalation audio signals were recorded simultaneously using the Inhaler Compliance Assessment device attached to the inhaler. The acoustic (amplitude) envelope was estimated from each inhalation audio signal. Using only one recording, linear and power law regression models were employed to determine which model best described the relationship between the inhalation acoustic envelope and flow signal. Each model was then employed to estimate the flow signals of the remaining 14 inhalation audio recordings. This process repeated until each of the 15 recordings were employed to calibrate single models while testing on the remaining 14 recordings. It was observed that power law models generated the highest average flow estimation accuracy across all participants (90.89±0.9% for power law models and 76.63±2.38% for linear models). The method also generated sufficient accuracy in estimating inhalation parameters such as peak inspiratory flow rate and inspiratory capacity within the presence of noise. Estimating inhaler inhalation flow profiles using audio based methods may be

Matrix Signaling Subsequent to a Myocardial Infarction

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Derrick Akpalu

2017-10-01

Full Text Available This study investigated the release and proteomic profile of tissue factor microparticles (TFMPs prospectively (up to 6 months following a myocardial infarction (MI in a chronic porcine model to establish their utility in tracking cellular level activities that predict physiologic outcomes. Our animal groups (n = 6 to 8 each consisted of control, noninfarcted (negative control; infarcted only (positive control; and infarcted animals treated with cardiac resynchronization therapy (CRT and a β-blocker (BB (metoprolol succinate. The authors found different protein profiles in TFMPs between the control, infarcted only group, and the CRT + BB treated group with predictive impact on the outward phenotype of pathological remodeling after an MI within and between groups. This novel approach of monitoring cellular level activities by profiling the content of TFMPs has the potential of addressing a shortfall of the current crop of cardiac biomarkers, which is the inability to capture composite molecular changes associated with chronic maladaptive signaling in a spatial and temporal manner.

Genetic Algorithm for Opto-thermal Skin Hydration Depth Profiling Measurements

Science.gov (United States)

Cui, Y.; Xiao, Perry; Imhof, R. E.

2013-09-01

Stratum corneum is the outermost skin layer, and the water content in stratum corneum plays a key role in skin cosmetic properties as well as skin barrier functions. However, to measure the water content, especially the water concentration depth profile, within stratum corneum is very difficult. Opto-thermal emission radiometry, or OTTER, is a promising technique that can be used for such measurements. In this paper, a study on stratum corneum hydration depth profiling by using a genetic algorithm (GA) is presented. The pros and cons of a GA compared against other inverse algorithms such as neural networks, maximum entropy, conjugate gradient, and singular value decomposition will be discussed first. Then, it will be shown how to use existing knowledge to optimize a GA for analyzing the opto-thermal signals. Finally, these latest GA results on hydration depth profiling of stratum corneum under different conditions, as well as on the penetration profiles of externally applied solvents, will be shown.

Boundary Layer Ducting of Low-elevation GNSS Ocean Reflected Signals

DEFF Research Database (Denmark)

Høeg, Per; von Benzon, Hans-Henrik; Durgonics, Tibor

for the data retrievals and the precision and the accuracy, are of interest for assessing the observational data content.Simulations of the low-elevation ocean reflected GNSS signal reveal a ducting of the signalwhen applying a model of the boundary layer. This effect is presented during varying conditions...... of the sea surface roughness, ocean wind and temperature, density and gradient of the water vapor profile in the boundary layer.The model for the sea surface roughness impedance, wind speed, and rms ocean wave-heightshow a stronger signal damping for a smoother ocean surfaces (sea state 0) compared...... to a rough sea (sea state 4). While the real part of the signal shows the reverse effect. At the same time the reflection zone enhances for rough sea states. Simulations, including a standard atmosphere and a boundary layer, give a significant ducting of the received signal, leading to a much larger...

MicroRNAs as Regulator of Signaling Networks in Metastatic Colon Cancer

Science.gov (United States)

Wang, Jian; Du, Yong; Liu, Xiaoming; Cho, William C.; Yang, Yinxue

2015-01-01

MicroRNAs (miRNAs) are a class of small, noncoding RNA molecules capable of regulating gene expression translationally and/or transcriptionally. A large number of evidence have demonstrated that miRNAs have a functional role in both physiological and pathological processes by regulating the expression of their target genes. Recently, the functionalities of miRNAs in the initiation, progression, angiogenesis, metastasis, and chemoresistance of tumors have gained increasing attentions. Particularly, the alteration of miRNA profiles has been correlated with the transformation and metastasis of various cancers, including colon cancer. This paper reports the latest findings on miRNAs involved in different signaling networks leading to colon cancer metastasis, mainly focusing on miRNA profiling and their roles in PTEN/PI3K, EGFR, TGFβ, and p53 signaling pathways of metastatic colon cancer. The potential of miRNAs used as biomarkers in the diagnosis, prognosis, and therapeutic targets in colon cancer is also discussed. PMID:26064956

MicroRNAs as Regulator of Signaling Networks in Metastatic Colon Cancer.

Science.gov (United States)

Wang, Jian; Du, Yong; Liu, Xiaoming; Cho, William C; Yang, Yinxue

2015-01-01

MicroRNAs (miRNAs) are a class of small, noncoding RNA molecules capable of regulating gene expression translationally and/or transcriptionally. A large number of evidence have demonstrated that miRNAs have a functional role in both physiological and pathological processes by regulating the expression of their target genes. Recently, the functionalities of miRNAs in the initiation, progression, angiogenesis, metastasis, and chemoresistance of tumors have gained increasing attentions. Particularly, the alteration of miRNA profiles has been correlated with the transformation and metastasis of various cancers, including colon cancer. This paper reports the latest findings on miRNAs involved in different signaling networks leading to colon cancer metastasis, mainly focusing on miRNA profiling and their roles in PTEN/PI3K, EGFR, TGFβ, and p53 signaling pathways of metastatic colon cancer. The potential of miRNAs used as biomarkers in the diagnosis, prognosis, and therapeutic targets in colon cancer is also discussed.

MicroRNAs as Regulator of Signaling Networks in Metastatic Colon Cancer

Directory of Open Access Journals (Sweden)

Jian Wang

2015-01-01

Full Text Available MicroRNAs (miRNAs are a class of small, noncoding RNA molecules capable of regulating gene expression translationally and/or transcriptionally. A large number of evidence have demonstrated that miRNAs have a functional role in both physiological and pathological processes by regulating the expression of their target genes. Recently, the functionalities of miRNAs in the initiation, progression, angiogenesis, metastasis, and chemoresistance of tumors have gained increasing attentions. Particularly, the alteration of miRNA profiles has been correlated with the transformation and metastasis of various cancers, including colon cancer. This paper reports the latest findings on miRNAs involved in different signaling networks leading to colon cancer metastasis, mainly focusing on miRNA profiling and their roles in PTEN/PI3K, EGFR, TGFβ, and p53 signaling pathways of metastatic colon cancer. The potential of miRNAs used as biomarkers in the diagnosis, prognosis, and therapeutic targets in colon cancer is also discussed.

Control of striatal signaling by G protein regulators

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Keqiang eXie

2011-08-01

Full Text Available Signaling via heterotrimeric G proteins plays a crucial role in modulating the responses of striatal neurons that ultimately shape core behaviors mediated by the basal ganglia circuitry, such as reward valuation, habit formation and movement coordination. Activation of G-protein-coupled receptors (GPCRs by extracellular signals activates heterotrimeric G proteins by promoting the binding of GTP to their α subunits. G proteins exert their effects by influencing the activity of key effector proteins in this region, including ion channels, second messenger enzymes and protein kinases. Striatal neurons express a staggering number of GPCRs whose activation results in the engagement of downstream signaling pathways and cellular responses with unique profiles but common molecular mechanisms. Studies over the last decade have revealed that the extent and duration of GPCR signaling are controlled by a conserved protein family named Regulator of G protein Signaling (RGS. RGS proteins accelerate GTP hydrolysis by the α subunits of G proteins, thus promoting deactivation of GPCR signaling. In this review, we discuss the progress made in understanding the roles of RGS proteins in controlling striatal G protein signaling and providing integration and selectivity of signal transmission. We review evidence on the formation of a macromolecular complex between RGS proteins and other components of striatal signaling pathways, their molecular regulatory mechanisms and impacts on GPCR signaling in the striatum obtained from biochemical studies and experiments involving genetic mouse models. Special emphasis is placed on RGS9-2, a member of the RGS family that is highly enriched in the striatum and plays critical roles in drug addiction and motor control.

Measurements of stratospheric Pinatubo aerosol extinction profiles by a Raman lidar

International Nuclear Information System (INIS)

Abo, Makoto; Nagasawa, Chikao.

1992-01-01

The Raman lidar has been used for remote measurements of water vapor, ozone and atmospheric temperature in the lower troposphere because the Raman cross section is three orders smaller than the Rayleigh cross section. The authors estimated the extinction coefficients of the Pinatubo volcanic aerosol in the stratosphere using a Raman lidar. If the precise aerosol extinction coefficients are derived, the backscatter coefficient of a Mie scattering lidar will be more accurately estimated. The Raman lidar has performed to measure density profiles of some species using Raman scattering. Here the authors used a frequency-doubled Nd:YAG laser for transmitter and received nitrogen vibrational Q-branch Raman scattering signal. Ansmann et al. (1990) derived tropospherical aerosol extinction profiles with a Raman lidar. The authors think that this method can apply to dense stratospheric aerosols such as Pinatubo volcanic aerosols. As dense aerosols are now accumulated in the stratosphere by Pinatubo volcanic eruption, the error of Ramen lidar signal regarding the fluctuation of air density can be ignored

Sample preparation optimization in fecal metabolic profiling.

Science.gov (United States)

Deda, Olga; Chatziioannou, Anastasia Chrysovalantou; Fasoula, Stella; Palachanis, Dimitris; Raikos, Νicolaos; Theodoridis, Georgios A; Gika, Helen G

2017-03-15

Metabolomic analysis of feces can provide useful insight on the metabolic status, the health/disease state of the human/animal and the symbiosis with the gut microbiome. As a result, recently there is increased interest on the application of holistic analysis of feces for biomarker discovery. For metabolomics applications, the sample preparation process used prior to the analysis of fecal samples is of high importance, as it greatly affects the obtained metabolic profile, especially since feces, as matrix are diversifying in their physicochemical characteristics and molecular content. However there is still little information in the literature and lack of a universal approach on sample treatment for fecal metabolic profiling. The scope of the present work was to study the conditions for sample preparation of rat feces with the ultimate goal of the acquisition of comprehensive metabolic profiles either untargeted by NMR spectroscopy and GC-MS or targeted by HILIC-MS/MS. A fecal sample pooled from male and female Wistar rats was extracted under various conditions by modifying the pH value, the nature of the organic solvent and the sample weight to solvent volume ratio. It was found that the 1/2 (w f /v s ) ratio provided the highest number of metabolites under neutral and basic conditions in both untargeted profiling techniques. Concerning LC-MS profiles, neutral acetonitrile and propanol provided higher signals and wide metabolite coverage, though extraction efficiency is metabolite dependent. Copyright © 2016 Elsevier B.V. All rights reserved.

Image-based compound profiling reveals a dual inhibitor of tyrosine kinase and microtubule polymerization

OpenAIRE

Tanabe, Kenji

2016-01-01

Small-molecule compounds are widely used as biological research tools and therapeutic drugs. Therefore, uncovering novel targets of these compounds should provide insights that are valuable in both basic and clinical studies. I developed a method for image-based compound profiling by quantitating the effects of compounds on signal transduction and vesicle trafficking of epidermal growth factor receptor (EGFR). Using six signal transduction molecules and two markers of vesicle trafficking, 570...

Use phase signals to promote lifetime extension for Windows PCs.

Science.gov (United States)

Hickey, Stewart; Fitzpatrick, Colin; O'Connell, Maurice; Johnson, Michael

2009-04-01

This paper proposes a signaling methodology for personal computers. Signaling may be viewed as an ecodesign strategy that can positively influence the consumer to consumer (C2C) market process. A number of parameters are identified that can provide the basis for signal implementation. These include operating time, operating temperature, operating voltage, power cycle counts, hard disk drive (HDD) self-monitoring, and reporting technology (SMART) attributes and operating system (OS) event information. All these parameters are currently attainable or derivable via embedded technologies in modern desktop systems. A case study detailing a technical implementation of how the development of signals can be achieved in personal computers that incorporate Microsoft Windows operating systems is presented. Collation of lifetime temperature data from a system processor is demonstrated as a possible means of characterizing a usage profile for a desktop system. In addition, event log data is utilized for devising signals indicative of OS quality. The provision of lifetime usage data in the form of intuitive signals indicative of both hardware and software quality can in conjunction with consumer education facilitate an optimal remarketing strategy for used systems. This implementation requires no additional hardware.

Metabolic signals in sleep regulation: recent insights

Directory of Open Access Journals (Sweden)

Shukla C

2016-01-01

Full Text Available Charu Shukla, Radhika Basheer Department of Psychiatry, VA Boston Healthcare System, Harvard Medical School, West Roxbury, MA, USA Abstract: Sleep and energy balance are essential for health. The two processes act in concert to regulate central and peripheral homeostasis. During sleep, energy is conserved due to suspended activity, movement, and sensory responses, and is redirected to restore and replenish proteins and their assemblies into cellular structures. During wakefulness, various energy-demanding activities lead to hunger. Thus, hunger promotes arousal, and subsequent feeding, followed by satiety that promotes sleep via changes in neuroendocrine or neuropeptide signals. These signals overlap with circuits of sleep-wakefulness, feeding, and energy expenditure. Here, we will briefly review the literature that describes the interplay between the circadian system, sleep-wake, and feeding-fasting cycles that are needed to maintain energy balance and a healthy metabolic profile. In doing so, we describe the neuroendocrine, hormonal/peptide signals that integrate sleep and feeding behavior with energy metabolism. Keywords: sleep, energy balance, hypothalamus, metabolism, homeostasis

Analysis of Human TAAR8 and Murine Taar8b Mediated Signaling Pathways and Expression Profile

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Jessica Mühlhaus

2014-11-01

Full Text Available The thyroid hormone derivative 3-iodothyronamine (3-T1AM exerts metabolic effects in vivo that contradict known effects of thyroid hormones. 3-T1AM acts as a trace amine-associated receptor 1 (TAAR1 agonist and activates Gs signaling in vitro. Interestingly, 3-T1AM-meditated in vivo effects persist in Taar1 knockout-mice indicating that further targets of 3-T1AM might exist. Here, we investigated another member of the TAAR family, the only scarcely studied mouse and human trace-amine-associated receptor 8 (Taar8b, TAAR8. By RT-qPCR and locked-nucleic-acid (LNA in situ hybridization, Taar8b expression in different mouse tissues was analyzed. Functionally, we characterized TAAR8 and Taar8b with regard to cell surface expression and signaling via different G-protein-mediated pathways. Cell surface expression was verified by ELISA, and cAMP accumulation was quantified by AlphaScreen for detection of Gs and/or Gi/o signaling. Activation of G-proteins Gq/11 and G12/13 was analyzed by reporter gene assays. Expression analyses revealed at most marginal Taar8b expression and no gender differences for almost all analyzed tissues. In heart, LNA-in situ hybridization demonstrated the absence of Taar8b expression. We could not identify 3-T1AM as a ligand for TAAR8 and Taar8b, but both receptors were characterized by a basal Gi/o signaling activity, a so far unknown signaling pathway for TAARs.

Vertical Soil Profiling Using a Galvanic Contact Resistivity Scanning Approach

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Luan Pan

2014-07-01

Full Text Available Proximal sensing of soil electromagnetic properties is widely used to map spatial land heterogeneity. The mapping instruments use galvanic contact, capacitive coupling or electromagnetic induction. Regardless of the type of instrument, the geometrical configuration between signal transmitting and receiving elements typically defines the shape of the depth response function. To assess vertical soil profiles, many modern instruments use multiple transmitter-receiver pairs. Alternatively, vertical electrical sounding can be used to measure changes in apparent soil electrical conductivity with depth at a specific location. This paper examines the possibility for the assessment of soil profiles using a dynamic surface galvanic contact resistivity scanning approach, with transmitting and receiving electrodes configured in an equatorial dipole-dipole array. An automated scanner system was developed and tested in agricultural fields with different soil profiles. While operating in the field, the distance between current injecting and measuring pairs of rolling electrodes was varied continuously from 40 to 190 cm. The preliminary evaluation included a comparison of scan results from 20 locations to shallow (less than 1.2 m deep soil profiles and to a two-layer soil profile model defined using an electromagnetic induction instrument.

Signal signature and transcriptome changes of Arabidopsis during pathogen and insect attack.

Science.gov (United States)

De Vos, Martin; Van Oosten, Vivian R; Van Poecke, Remco M P; Van Pelt, Johan A; Pozo, Maria J; Mueller, Martin J; Buchala, Antony J; Métraux, Jean-Pierre; Van Loon, L C; Dicke, Marcel; Pieterse, Corné M J

2005-09-01

Plant defenses against pathogens and insects are regulated differentially by cross-communicating signaling pathways in which salicylic acid (SA), jasmonic acid (JA), and ethylene (ET) play key roles. To understand how plants integrate pathogen- and insect-induced signals into specific defense responses, we monitored the dynamics of SA, JA, and ET signaling in Arabidopsis after attack by a set of microbial pathogens and herbivorous insects with different modes of attack. Arabidopsis plants were exposed to a pathogenic leaf bacterium (Pseudomonas syringae pv. tomato), a pathogenic leaf fungus (Alternaria brassicicola), tissue-chewing caterpillars (Pieris rapae), cell-content-feeding thrips (Frankliniella occidentalis), or phloem-feeding aphids (Myzus persicae). Monitoring the signal signature in each plant-attacker combination showed that the kinetics of SA, JA, and ET production varies greatly in both quantity and timing. Analysis of global gene expression profiles demonstrated that the signal signature characteristic of each Arabidopsis-attacker combination is orchestrated into a surprisingly complex set of transcriptional alterations in which, in all cases, stress-related genes are overrepresented. Comparison of the transcript profiles revealed that consistent changes induced by pathogens and insects with very different modes of attack can show considerable overlap. Of all consistent changes induced by A. brassicicola, Pieris rapae, and E occidentalis, more than 50% also were induced consistently by P. syringae. Notably, although these four attackers all stimulated JA biosynthesis, the majority of the changes in JA-responsive gene expression were attacker specific. All together, our study shows that SA, JA, and ET play a primary role in the orchestration of the plant's defense response, but other regulatory mechanisms, such as pathway cross-talk or additional attacker-induced signals, eventually shape the highly complex attacker-specific defense response.

Selfish strategies and honest signalling: reproductive conflicts in ant queen associations

DEFF Research Database (Denmark)

Holman, Luke; Dreier, Stephanie; d'Ettorre, Patrizia

2010-01-01

Social insects offer unique opportunities to test predictions regarding the evolution of cooperation, life histories and communication. Colony founding by groups of unrelated queens, some of which are later killed, may select for selfish reproductive strategies, honest signalling and punishment....... Here, we use a brood transfer experiment to test whether cofounding queens of the ant Lasius niger 'selfishly' adjust their productivity when sharing the nest with future competitors. We simultaneously analysed queen cuticular hydrocarbon (CHC) profiles to investigate whether queens honestly signal...... correlated with reproductive maturation, and to a lesser extent with productivity; the same hydrocarbons were more abundant on queens that were not killed, suggesting that workers select productive queens using these chemical cues. Our results highlight the role of honest signalling in the evolution...

MMTV-Wnt1 and -DeltaN89beta-catenin induce canonical signaling in distinct progenitors and differentially activate Hedgehog signaling within mammary tumors.

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Brigitte Teissedre

Full Text Available Canonical Wnt/beta-catenin signaling regulates stem/progenitor cells and, when perturbed, induces many human cancers. A significant proportion of human breast cancer is associated with loss of secreted Wnt antagonists and mice expressing MMTV-Wnt1 and MMTV-DeltaN89beta-catenin develop mammary adenocarcinomas. Many studies have assumed these mouse models of breast cancer to be equivalent. Here we show that MMTV-Wnt1 and MMTV-DeltaN89beta-catenin transgenes induce tumors with different phenotypes. Using axin2/conductin reporter genes we show that MMTV-Wnt1 and MMTV-DeltaN89beta-catenin activate canonical Wnt signaling within distinct cell-types. DeltaN89beta-catenin activated signaling within a luminal subpopulation scattered along ducts that exhibited a K18(+ER(-PR(-CD24(highCD49f(low profile and progenitor properties. In contrast, MMTV-Wnt1 induced canonical signaling in K14(+ basal cells with CD24/CD49f profiles characteristic of two distinct stem/progenitor cell-types. MMTV-Wnt1 produced additional profound effects on multiple cell-types that correlated with focal activation of the Hedgehog pathway. We document that large melanocytic nevi are a hitherto unreported hallmark of early hyperplastic Wnt1 glands. These nevi formed along the primary mammary ducts and were associated with Hedgehog pathway activity within a subset of melanocytes and surrounding stroma. Hh pathway activity also occurred within tumor-associated stromal and K14(+/p63(+ subpopulations in a manner correlated with Wnt1 tumor onset. These data show MMTV-Wnt1 and MMTV-DeltaN89beta-catenin induce canonical signaling in distinct progenitors and that Hedgehog pathway activation is linked to melanocytic nevi and mammary tumor onset arising from excess Wnt1 ligand. They further suggest that Hedgehog pathway activation maybe a critical component and useful indicator of breast tumors arising from unopposed Wnt1 ligand.

Structural Parameters of Star Clusters: Signal to Noise Effects

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Narbutis D.

2015-09-01

Full Text Available We study the impact of photometric signal to noise on the accuracy of derived structural parameters of unresolved star clusters using MCMC model fitting techniques. Star cluster images were simulated as a smooth surface brightness distribution following a King profile convolved with a point spread function. The simulation grid was constructed by varying the levels of sky background and adjusting the cluster’s flux to a specified signal to noise. Poisson noise was introduced to a set of cluster images with the same input parameters at each node of the grid. Model fitting was performed using “emcee” algorithm. The presented posterior distributions of the parameters illustrate their uncertainty and degeneracies as a function of signal to noise. By defining the photometric aperture containing 80% of the cluster’s flux, we find that in all realistic sky background level conditions a signal to noise ratio of ~50 is necessary to constrain the cluster’s half-light radius to an accuracy better than ~20%. The presented technique can be applied to synthetic images simulating various observations of extragalactic star clusters.

Time Lens based Optical Fourier Transformation for All-Optical Signal Processing of Spectrally-Efficient Data

DEFF Research Database (Denmark)

Guan, Pengyu; Røge, Kasper Meldgaard; Lillieholm, Mads

2017-01-01

We review recent progress in the use of time lens based optical Fourier transformation for advanced all-optical signal processing. A novel time lens based complete optical Fourier transformation (OFT) technique is introduced. This complete OFT is based on two quadratic phase-modulation stages using...... four-wave mixing (FWM), separated by a dispersive medium, which enables time-to-frequency and frequency-to-time conversions simultaneously, thus performing an exchange between the temporal and spectral profiles of the input signal. Using the proposed complete OFT, several advanced all-optical signal......, such as orthogonal frequency division multiplexing (OFDM), Nyquist wavelength-division multiplexing (Nyquist-WDM) and Nyquist optical time division multiplexing (Nyquist-OTDM) signals....

Ultra-shallow arsenic implant depth profiling using low-energy nitrogen beams

International Nuclear Information System (INIS)

Fearn, Sarah; Chater, Richard; McPhail, David

2004-01-01

Sputtering of silicon by low-energy nitrogen primary ion beams has been studied by a number of authors to characterize the altered layer, ripple formation and the sputtered yields of secondary ions [Surf. Sci. 424 (1999) 299; Appl. Phys. A: Mater. Sci. Process 53 (1991) 179; Appl. Phys. Lett. 73 (1998) 1287]. This study examines the application of low-energy nitrogen primary ion beams for the possible depth profiling of ultra-shallow arsenic implants into silicon. The emphasis of this work is on the matrix silicon signals in the pre-equilibrium surface region that are used for dose calibration. Problems with these aspects of the concentration depth profiling can give significant inconsistencies well outside the error limits of the quoted dose for the arsenic implantation as independently verified by CV profiling. This occurs during depth profiling with either oxygen primary ion beams (with and without oxygen leaks) or cesium primary ion beams

Astrometry and Geostationary Satellites in Venezuela

Science.gov (United States)

Lacruz, E.; Abad, C.

2015-10-01

We present the current status and the first results of the astrometric project CIDA - ABAE for tracking geo-stationary satellites. This project aims to determine a preliminary orbit for the Venezuelan satellite VENESAT-1, using astrometric positions obtained from an optical telescope. The results presented here are based on observations from the Luepa space tracking ground station in Venezuela, which were processed using astrometric procedures.

Chemokine Signaling in Allergic Contact Dermatitis: Toward Targeted Therapies.

Science.gov (United States)

Smith, Jeffrey S; Rajagopal, Sudarshan; Atwater, Amber Reck

2018-06-22

Allergic contact dermatitis (ACD) is a common skin disease that results in significant cost and morbidity. Despite its high prevalence, therapeutic options are limited. Allergic contact dermatitis is regulated primarily by T cells within the adaptive immune system, but also by natural killer and innate lymphoid cells within the innate immune system. The chemokine receptor system, consisting of chemokine peptides and chemokine G protein-coupled receptors, is a critical regulator of inflammatory processes such as ACD. Specific chemokine signaling pathways are selectively up-regulated in ACD, most prominently CXCR3 and its endogenous chemokines CXCL9, CXCL10, and CXCL11. Recent research demonstrates that these 3 chemokines are not redundant and indeed activate distinct intracellular signaling profiles such as those activated by heterotrimeric G proteins and β-arrestin adapter proteins. Such differential signaling provides an attractive therapeutic target for novel ACD therapies and other inflammatory diseases.

Chronic occupational exposure to arsenic induces carcinogenic gene signaling networks and neoplastic transformation in human lung epithelial cells

International Nuclear Information System (INIS)

Stueckle, Todd A.; Lu, Yongju; Davis, Mary E.; Wang, Liying; Jiang, Bing-Hua; Holaskova, Ida; Schafer, Rosana; Barnett, John B.; Rojanasakul, Yon

2012-01-01

Chronic arsenic exposure remains a human health risk; however a clear mode of action to understand gene signaling-driven arsenic carcinogenesis is currently lacking. This study chronically exposed human lung epithelial BEAS-2B cells to low-dose arsenic trioxide to elucidate cancer promoting gene signaling networks associated with arsenic-transformed (B-As) cells. Following a 6 month exposure, exposed cells were assessed for enhanced cell proliferation, colony formation, invasion ability and in vivo tumor formation compared to control cell lines. Collected mRNA was subjected to whole genome expression microarray profiling followed by in silico Ingenuity Pathway Analysis (IPA) to identify lung carcinogenesis modes of action. B-As cells displayed significant increases in proliferation, colony formation and invasion ability compared to BEAS-2B cells. B-As injections into nude mice resulted in development of primary and secondary metastatic tumors. Arsenic exposure resulted in widespread up-regulation of genes associated with mitochondrial metabolism and increased reactive oxygen species protection suggesting mitochondrial dysfunction. Carcinogenic initiation via reactive oxygen species and epigenetic mechanisms was further supported by altered DNA repair, histone, and ROS-sensitive signaling. NF-κB, MAPK and NCOR1 signaling disrupted PPARα/δ-mediated lipid homeostasis. A ‘pro-cancer’ gene signaling network identified increased survival, proliferation, inflammation, metabolism, anti-apoptosis and mobility signaling. IPA-ranked signaling networks identified altered p21, EF1α, Akt, MAPK, and NF-κB signaling networks promoting genetic disorder, altered cell cycle, cancer and changes in nucleic acid and energy metabolism. In conclusion, transformed B-As cells with their whole genome expression profile provide an in vitro arsenic model for future lung cancer signaling research and data for chronic arsenic exposure risk assessment. Highlights: ► Chronic As 2 O 3

Chronic occupational exposure to arsenic induces carcinogenic gene signaling networks and neoplastic transformation in human lung epithelial cells

Energy Technology Data Exchange (ETDEWEB)

Stueckle, Todd A., E-mail: tstueckle@hsc.wvu.edu [Department of Basic Pharmaceutical Sciences, West Virginia University, Morgantown, WV 26506 (United States); Health Effects Laboratory Division, National Institute for Occupational Safety and Health, Morgantown, WV 26505 (United States); Lu, Yongju, E-mail: yongju6@hotmail.com [Department of Basic Pharmaceutical Sciences, West Virginia University, Morgantown, WV 26506 (United States); Davis, Mary E., E-mail: mdavis@wvu.edu [Department of Physiology, West Virginia University, Morgantown, WV 26506 (United States); Wang, Liying, E-mail: lmw6@cdc.gov [Health Effects Laboratory Division, National Institute for Occupational Safety and Health, Morgantown, WV 26505 (United States); Jiang, Bing-Hua, E-mail: bhjiang@jefferson.edu [Department of Pathology, Anatomy and Cell Biology, Thomas Jefferson University, Philadelphia, PA 19107 (United States); Holaskova, Ida, E-mail: iholaskova@hsc.wvu.edu [Department of Microbiology, Immunology and Cell Biology, West Virginia University, Morgantown, WV 26506 (United States); Schafer, Rosana, E-mail: rschafer@hsc.wvu.edu [Department of Microbiology, Immunology and Cell Biology, West Virginia University, Morgantown, WV 26506 (United States); Barnett, John B., E-mail: jbarnett@hsc.wvu.edu [Department of Microbiology, Immunology and Cell Biology, West Virginia University, Morgantown, WV 26506 (United States); Rojanasakul, Yon, E-mail: yrojan@hsc.wvu.edu [Department of Basic Pharmaceutical Sciences, West Virginia University, Morgantown, WV 26506 (United States)

2012-06-01

Chronic arsenic exposure remains a human health risk; however a clear mode of action to understand gene signaling-driven arsenic carcinogenesis is currently lacking. This study chronically exposed human lung epithelial BEAS-2B cells to low-dose arsenic trioxide to elucidate cancer promoting gene signaling networks associated with arsenic-transformed (B-As) cells. Following a 6 month exposure, exposed cells were assessed for enhanced cell proliferation, colony formation, invasion ability and in vivo tumor formation compared to control cell lines. Collected mRNA was subjected to whole genome expression microarray profiling followed by in silico Ingenuity Pathway Analysis (IPA) to identify lung carcinogenesis modes of action. B-As cells displayed significant increases in proliferation, colony formation and invasion ability compared to BEAS-2B cells. B-As injections into nude mice resulted in development of primary and secondary metastatic tumors. Arsenic exposure resulted in widespread up-regulation of genes associated with mitochondrial metabolism and increased reactive oxygen species protection suggesting mitochondrial dysfunction. Carcinogenic initiation via reactive oxygen species and epigenetic mechanisms was further supported by altered DNA repair, histone, and ROS-sensitive signaling. NF-κB, MAPK and NCOR1 signaling disrupted PPARα/δ-mediated lipid homeostasis. A ‘pro-cancer’ gene signaling network identified increased survival, proliferation, inflammation, metabolism, anti-apoptosis and mobility signaling. IPA-ranked signaling networks identified altered p21, EF1α, Akt, MAPK, and NF-κB signaling networks promoting genetic disorder, altered cell cycle, cancer and changes in nucleic acid and energy metabolism. In conclusion, transformed B-As cells with their whole genome expression profile provide an in vitro arsenic model for future lung cancer signaling research and data for chronic arsenic exposure risk assessment. Highlights: ► Chronic As{sub 2}O

The Drosophila Duox maturation factor is a key component of a positive feedback loop that sustains regeneration signaling.

Science.gov (United States)

Khan, Sumbul Jawed; Abidi, Syeda Nayab Fatima; Skinner, Andrea; Tian, Yuan; Smith-Bolton, Rachel K

2017-07-01

Regenerating tissue must initiate the signaling that drives regenerative growth, and sustain that signaling long enough for regeneration to complete. How these key signals are sustained is unclear. To gain a comprehensive view of the changes in gene expression that occur during regeneration, we performed whole-genome mRNAseq of actively regenerating tissue from damaged Drosophila wing imaginal discs. We used genetic tools to ablate the wing primordium to induce regeneration, and carried out transcriptional profiling of the regeneration blastema by fluorescently labeling and sorting the blastema cells, thus identifying differentially expressed genes. Importantly, by using genetic mutants of several of these differentially expressed genes we have confirmed that they have roles in regeneration. Using this approach, we show that high expression of the gene moladietz (mol), which encodes the Duox-maturation factor NIP, is required during regeneration to produce reactive oxygen species (ROS), which in turn sustain JNK signaling during regeneration. We also show that JNK signaling upregulates mol expression, thereby activating a positive feedback signal that ensures the prolonged JNK activation required for regenerative growth. Thus, by whole-genome transcriptional profiling of regenerating tissue we have identified a positive feedback loop that regulates the extent of regenerative growth.

Effects of excitation spectral width on decay profile of weakly confined excitons

International Nuclear Information System (INIS)

Kojima, O.; Isu, T.; Ishi-Hayase, J.; Kanno, A.; Katouf, R.; Sasaki, M.; Tsuchiya, M.

2008-01-01

We report the effect due to a simultaneous excitation of several exciton states on the radiative decay profiles on the basis of the nonlocal response of weakly confined excitons in GaAs thin films. In the case of excitation of single exciton state, the transient grating signal has two decay components. The fast decay component comes from nonlocal response, and the long-lived component is attributed to free exciton decay. With an increase of excitation spectral width, the nonlocal component becomes small in comparison with the long-lived component, and disappears under irradiation of a femtosecond-pulse laser with broader spectral width. The transient grating spectra clearly indicates the contribution of the weakly confined excitons to the signal, and the exciton line width hardly changes by excitation spectral width. From these results, we concluded that the change of decay profile is attributed not to the many-body effect but to the effect of simultaneous excitation of several exciton states

Inverse calculation of strain profiles from ETDR measurements using artificial neural networks

Directory of Open Access Journals (Sweden)

R. Höhne

2017-12-01

Full Text Available A novel carbon fibre sensor is developed for the spatially resolved strain measurement. A unique feature of the sensor is the fibre-break resistive measurement principle and the two-core transmission line design. The electrical time domain reflectometry (ETDR is used in order to realize a spatially resolved measurement of the electrical parameters of the sensor. In this contribution, the process of mapping between the ETDR signals to the existing strain profile is described. Artificial neural networks (ANNs are used to solve the inverse electromagnetic problem. The investigations were carried out with a sensor patch in a cantilever arm configuration. Overall, 136 experiments with varying strain distribution over the sensor length were performed to generate the necessary training data to learn the ANN model. The validation of the ANN highlights the feasibility as well as the current limits concerning the quantitative accuracy of mapping ETDR signals to strain profiles.

Optimization of the doping profile of a MESFET, realized by ion implantation

International Nuclear Information System (INIS)

Cazaux, J.L.; Graffeuil, J.; Pavlidis, D.

1986-01-01

A method is proposed to investigate the influence of doping profiles on the performance of GaAs Field Effect Transistors. We consider in particular the effect of different ion implantation energies and doses, as well as, the influence of gate recess. The static and dynamic small signal characteristics of GaAs MESFETs with non-uniform doping profiles are studied by combining analytical and numerical techniques to reduce calculation time. Details of the FET analysis and computer simulation are presented. Results are compared with experimental data obtained from FETs with different implantation conditions and gate recess depths. The influence of the doping profile on the equivalent circuit elements of GaAs MESFETs is finally investigated in view of an optimization of their microwave properties [fr

Postural Response Signal Characteristics Identified by Method of Developed Statokinesigram

Directory of Open Access Journals (Sweden)

Barbolyas Boris

2015-12-01

Full Text Available Human postural system is taken as complex biological system with specific input and output time characteristics, in this study. Evaluation of measured output characteristics is useful in medical diagnostics or in describing postural system disorders. System theory principle provide suitable basis for postural signals analysis. Participating volunteers were instructed to maintain quiet upright stance posture on firm support surface of stabilometric platform for 60s. Postural system actuation was realized by vibration stimuli applied bilaterally on Achilles tendons for 20s. Postural reaction signal, its time profile and static and dynamic characteristics were evaluated by Method of Developed Statokinesigram Trajectory (MDST.

Objective characterization of bruise evolution using photothermal depth profiling and Monte Carlo modeling

Science.gov (United States)

Vidovič, Luka; Milanič, Matija; Majaron, Boris

2015-01-01

Pulsed photothermal radiometry (PPTR) allows noninvasive determination of laser-induced temperature depth profiles in optically scattering layered structures. The obtained profiles provide information on spatial distribution of selected chromophores such as melanin and hemoglobin in human skin. We apply the described approach to study time evolution of incidental bruises (hematomas) in human subjects. By combining numerical simulations of laser energy deposition in bruised skin with objective fitting of the predicted and measured PPTR signals, we can quantitatively characterize the key processes involved in bruise evolution (i.e., hemoglobin mass diffusion and biochemical decomposition). Simultaneous analysis of PPTR signals obtained at various times post injury provides an insight into the variations of these parameters during the bruise healing process. The presented methodology and results advance our understanding of the bruise evolution and represent an important step toward development of an objective technique for age determination of traumatic bruises in forensic medicine.

High-dimensional analysis of the aging immune system: verification of age-associated differences in immune signaling responses in healthy donors.

Science.gov (United States)

Longo, Diane M; Louie, Brent; Ptacek, Jason; Friedland, Greg; Evensen, Erik; Putta, Santosh; Atallah, Michelle; Spellmeyer, David; Wang, Ena; Pos, Zoltan; Marincola, Francesco M; Schaeffer, Andrea; Lukac, Suzanne; Railkar, Radha; Beals, Chan R; Cesano, Alessandra; Carayannopoulos, Leonidas N; Hawtin, Rachael E

2014-06-21

Single-cell network profiling (SCNP) is a multiparametric flow cytometry-based approach that simultaneously measures evoked signaling in multiple cell subsets. Previously, using the SCNP approach, age-associated immune signaling responses were identified in a cohort of 60 healthy donors. In the current study, a high-dimensional analysis of intracellular signaling was performed by measuring 24 signaling nodes in 7 distinct immune cell subsets within PBMCs in an independent cohort of 174 healthy donors [144 elderly (>65 yrs); 30 young (25-40 yrs)]. Associations between age and 9 immune signaling responses identified in the previously published 60 donor cohort were confirmed in the current study. Furthermore, within the current study cohort, 48 additional immune signaling responses differed significantly between young and elderly donors. These associations spanned all profiled modulators and immune cell subsets. These results demonstrate that SCNP, a systems-based approach, can capture the complexity of the cellular mechanisms underlying immunological aging. Further, the confirmation of age associations in an independent donor cohort supports the use of SCNP as a tool for identifying reproducible predictive biomarkers in areas such as vaccine response and response to cancer immunotherapies.

Inhibition of Thrombopoietin/Mpl Signaling in Adult Hematopoiesis Identifies New Candidates for Hematopoietic Stem Cell Maintenance.

Science.gov (United States)

Kohlscheen, Saskia; Wintterle, Sabine; Schwarzer, Adrian; Kamp, Christel; Brugman, Martijn H; Breuer, Daniel C; Büsche, Guntram; Baum, Christopher; Modlich, Ute

2015-01-01

Thrombopoietin (Thpo) signals via its receptor Mpl and regulates megakaryopoiesis, hematopoietic stem cell (HSC) maintenance and post-transplant expansion. Mpl expression is tightly controlled and deregulation of Thpo/Mpl-signaling is linked to hematological disorders. Here, we constructed an intracellular-truncated, signaling-deficient Mpl protein which is presented on the cell surface (dnMpl). The transplantation of bone marrow cells retrovirally transduced to express dnMpl into wildtype mice induced thrombocytopenia, and a progressive loss of HSC. The aplastic BM allowed the engraftment of a second BM transplant without further conditioning. Functional analysis of the truncated Mpl in vitro and in vivo demonstrated no internalization after Thpo binding and the inhibition of Thpo/Mpl-signaling in wildtype cells due to dominant-negative (dn) effects by receptor competition with wildtype Mpl for Thpo binding. Intracellular inhibition of Mpl could be excluded as the major mechanism by the use of a constitutive-dimerized dnMpl. To further elucidate the molecular changes induced by Thpo/Mpl-inhibition on the HSC-enriched cell population in the BM, we performed gene expression analysis of Lin-Sca1+cKit+ (LSK) cells isolated from mice transplanted with dnMpl transduced BM cells. The gene expression profile supported the exhaustion of HSC due to increased cell cycle progression and identified new and known downstream effectors of Thpo/Mpl-signaling in HSC (namely TIE2, ESAM1 and EPCR detected on the HSC-enriched LSK cell population). We further compared gene expression profiles in LSK cells of dnMpl mice with human CD34+ cells of aplastic anemia patients and identified similar deregulations of important stemness genes in both cell populations. In summary, we established a novel way of Thpo/Mpl inhibition in the adult mouse and performed in depth analysis of the phenotype including gene expression profiling.

Optimizing Neighbor Discovery for Ad hoc Networks based on the Bluetooth PAN Profile

DEFF Research Database (Denmark)

Kuijpers, Gerben; Nielsen, Thomas Toftegaard; Prasad, Ramjee

2002-01-01

IP layer neighbor discovery mechanisms rely highly on broadcast/multicast capabilities of the underlying link layer. The Bluetooth personal area network (PAN) profile has no native link layer broadcast/multicast capabilities and can only emulate this by repeatedly unicast link layer frames....... This paper introduces a neighbor discovery mechanism that utilizes the resources in the Bluetooth PAN profile more efficient. The performance of the new mechanism is investigated using a IPv6 network simulator and compared with emulated broadcasting. It is shown that the signaling overhead can...

Interactive network analysis of the plasma amino acids profile in a mouse model of hyperglycemia

OpenAIRE

Tanaka, Takayuki; Mochida, Taiga; Maki, Yukihiro; Shiraki, Yasuko; Mori, Hiroko; Matsumoto, Shirou; Shimbo, Kazutaka; Ando, Toshihiko; Nakamura, Kimitoshi; Endo, Fumio; Okamoto, Masahiro

2013-01-01

Amino acids are a group of metabolites that are important substrates for protein synthesis, are important as signaling molecules and play central roles as highly connected metabolic hubs, and therefore, there are many reports that describe disease-specific abnormalities in plasma amino acids profile. However, the causes of progression from a healthy control to a manifestation of the plasma amino acid changes remain obscure. Here, we extended the plasma amino acids profile to relationships tha...

Clear air boundary layer spaced antenna wind measurement with the Multiple Antenna Profiler (MAPR

Directory of Open Access Journals (Sweden)

S. A. Cohn

Full Text Available Spaced antenna (SA wind measurement techniques are applied to Multiple Antenna Profiler (MAPR data to evaluate its performance in clear air conditions. MAPR is a multiple antenna 915 MHz wind profiler developed at the National Center for Atmospheric Research (NCAR and described in Cohn et al. (1997, designed to make high resolution wind measurements. Previous reported measurements with MAPR were restricted to precipitation because of low signal to noise (SNR and signal to ground-clutter (SCR ratios. By using a standard pulse-coding technique and upgrading the profiler control software, increases in average power and SNR were achieved, making routine measurements in clear air possible. Comparison of winds measured by MAPR and by a sonic anemometer on a nearby 300 m tower show correlation coefficients in the range of R² = 0.75 – 0.80, and an average absolute error of ~ 1.4 m s - 1 . This compares favorably with the agreement typically found in wind profiler comparisons. We also consider the use of the parameter ah , which is related to the value of the cross-correlation function at its zero crossing. This parameter is a data quality indicator and possibly a key component in a ground clutter removal technique.

Key words. Meteorology and atmospheric dynamics (mesoscale meteorology; instruments and techniques – Radio science (remote sensing

Data for spatial characterization of AC signal propagation over primary neuron dendrites

Directory of Open Access Journals (Sweden)

Hojeong Kim

2016-03-01

Full Text Available Action potentials generated near the soma propagate not only into the axonal nerve connecting to the adjacent neurons but also into the dendrites interacting with a diversity of synaptic inputs as well as voltage gated ion channels. Measuring voltage attenuation factors between the soma and all single points of the dendrites in the anatomically reconstructed primary neurons with the same cable properties, we report the signal propagation data showing how the alternating current (AC signal such as action potentials back-propagates over the dendrites among different types of primary neurons. Fitting equations and their parameter values for the data are also presented to quantitatively capture the spatial profile of AC signal propagation from the soma to the dendrites in primary neurons. Our data is supplemental to our original study for the dependency of dendritic signal propagation and excitability, and their relationship on the cell type-specific structure in primary neurons (DOI: 10.1016/j.neulet.2015.10.017 [1]. Keywords: Primary neurons, Dendritic signal processing, AC signal propagation, Voltage attenuation analysis

Tofacitinib Represses the Janus Kinase-Signal Transducer and Activators of Transcription Signalling Pathway in Keratinocytes.

Science.gov (United States)

Srivastava, Ankit; Ståhle, Mona; Pivarcsi, Andor; Sonkoly, Enikö

2018-05-08

Tofacitinib is a Janus kinase (JAK) inhibitor, which has shown efficacy in treating psoriasis. The mode of action of tofacitinib is not completely understood but it has been thought to be mediated by the inhibition of CD4+ T-cell activation. Here, we investigated whether the molecular targets of tofacitinib are expressed in keratinocytes, and whether tofacitinib can modulate the activity of the JAK/Signal Transducer and Activators of Transcription (STAT)-pathway in keratinocytes. Transcriptomic profiling of human keratinocytes treated with IL-22 in combination with tofacitinib revealed that tofacitinib could prevent the majority of IL-22-mediated gene expression changes. Pathway analysis of tofacitinib-regulated genes in keratinocytes revealed enrichment of genes involved in the JAK/STAT signalling pathway. Quantitative real-time-PCR confirmed the upregulation of S100A7 and downregulation of EGR1 expression by IL-22, which was prevented by tofacitinib pre-treatment. These results indicate a direct effect of tofacinitib on keratinocytes, which can have relevance for systemic as well as for topical treatment of psoriasis with tofacitinib.

The effects of the non-contingent presentation of safety signals on the elimination of safety behaviors: An experimental comparison between individuals with low and high obsessive-compulsive profiles.

Science.gov (United States)

Angelakis, Ioannis; Austin, Jennifer L

2018-06-01

Safety behaviors, defined as engagement in avoidance within safe environments, are a key symptom of obsessive-compulsive and related disorders. They may interfere with daily functioning and as such their emission should be reduced. The purpose of the current study is to investigate the effects of the non-contingent presentation of safety signals (cues produced by safety behaviors) on reducing safety behaviors in participants self-reporting low and high OCD profiles. In total, 32 participants were asked to play a game to gain points and avoid their loss. After having developed avoidance behavior, evidenced by maintaining all of their earned points, they were exposed to safe environments where no point loss was programmed. In Test 1, safety cues (blue bar) were produced contingent on performing safety behaviors. In Test 2, safety cues were presented continuously without any response requirement. Findings demonstrated that high OCD group displayed higher rates of safety behaviors than low OCD group. However, exposure to the non-contingent presentation of safety signals eliminated their emission in both groups. Future studies need to evaluate the effects of different non-contingent schedules on the suppression of safety behaviors. These findings contribute to the literature by demonstrating that non-contingent introduction of safety signals eliminated safety behaviors completely, even in high OCD participants, who performed safety behavior at higher rates. Such a treatment protocol may ameliorate exposure therapy in which response prevention constitutes a key element and is generally associated with increased drop-out rates. Copyright © 2017 Elsevier Ltd. All rights reserved.

Reversal of interlaminar signal between sensory and memory processing in monkey temporal cortex.

Science.gov (United States)

Takeuchi, Daigo; Hirabayashi, Toshiyuki; Tamura, Keita; Miyashita, Yasushi

2011-03-18

The primate temporal cortex implements visual long-term memory. However, how its interlaminar circuitry executes cognitive computations is poorly understood. Using linear-array multicontact electrodes, we simultaneously recorded unit activities across cortical layers in the perirhinal cortex of macaques performing a pair-association memory task. Cortical layers were estimated on the basis of current source density profiles with histological verifications, and the interlaminar signal flow was determined with cross-correlation analysis between spike trains. During the cue period, canonical "feed-forward" signals flowed from granular to supragranular layers and from supragranular to infragranular layers. During the delay period, however, the signal flow reversed to the "feed-back" direction: from infragranular to supragranular layers. This reversal of signal flow highlights how the temporal cortex differentially recruits its laminar circuits for sensory and mnemonic processing.

Quantification of in vivo 1H magnetic resonance spectroscopy signals with baseline and lineshape estimation

International Nuclear Information System (INIS)

Osorio-Garcia, M I; Sima, D M; Van Huffel, S; Nielsen, F U; Dresselaers, T; Himmelreich, U; Van Leuven, F

2011-01-01

The in vivo quantification of magnetic resonance spectroscopy (MRS) signals is a method to estimate metabolite concentrations of living tissue. Obtaining reliable concentrations is still a challenge due to the experimental conditions affecting spectral quality. Additionally, lipids and macromolecules overlap with the metabolites of interest, affecting their reliable estimation. In this study, we propose to combine the self-deconvolution lineshape estimation method, which accounts for spectral shape distortions, with two different approaches for taking into account the macromolecular baseline contribution: (a) based on macromolecules and lipids measured in vivo using an inversion recovery technique, and (b) based on the simulation of macromolecular resonances using prior knowledge from a database of inversion recovery signals. The ultimate goal is to measure macromolecular and lipid data only once as described in (a) to create macromolecular and lipid profiles. These profiles then can be used as described in (b) for data measured under the same conditions. The method is evaluated on in vivo 1 H MRS signals at 9.4 T from mouse hippocampus. Results show that better metabolite fits are obtained when lineshape and baseline estimations are simultaneously performed and that baseline estimation based on prior knowledge from macromolecular measured signals can be reliably used to replace time-consuming individual macromolecular and lipid acquisitions

The Comparison of Canopy Height Profiles Extracted from Ku-band Profile Radar Waveforms and LiDAR Data

Directory of Open Access Journals (Sweden)

Hui Zhou

2018-05-01

Full Text Available An airborne Ku-band frequency-modulated continuous waveform (FM-CW profiling radar, Tomoradar, records the backscatter signal from the canopy surface and the underlying ground in the southern boreal forest zone of Finland. The recorded waveforms are transformed into canopy height profiles (CHP with a similar methodology utilized in large-footprint light detection and ranging (LiDAR. The point cloud data simultaneously collected by a Velodyne® VLP-16 LiDAR on-board the same platform represent the frequency of discrete returns, which are also applied to the extraction of the CHP by calculating the gap probability and incremental distribution. To thoroughly explore the relationships of the CHP derived from Tomoradar waveforms and LiDAR data we utilized the effective waveforms of one-stripe field measurements and comparison them with four indicators, including the correlation coefficient, the root-mean-square error (RMSE of the difference, and the coefficient of determination and the RMSE of residuals of linear regression. By setting the Tomoradar footprint as 20 degrees to contain over 95% of the transmitting energy of the main lobe, the results show that 88.17% of the CHPs derived from Tomoradar waveforms correlated well with those from the LiDAR data; 98% of the RMSEs of the difference ranged between 0.002 and 0.01; 79.89% of the coefficients of determination were larger than 0.5; and 98.89% of the RMSEs of the residuals ranged from 0.001 to 0.01. Based on the investigations, we discovered that the locations of the greatest CHP derived from the Tomoradar were obviously deeper than those from the LiDAR, which indicated that the Tomoradar microwave signal had a stronger penetration capability than the LiDAR signal. Meanwhile, there are smaller differences (the average RMSEs of differences is only 0.0042 when the total canopy closure is less than 0.5 and better linear regression results in an area with a relatively open canopy than with a denser

Design of an O-mode frequency modulated reflectometry system for the measurement of Alborz Tokamak plasma density profile

Energy Technology Data Exchange (ETDEWEB)

Koohestani, Saeideh [Department of Energy Engineering and physics, Amirkabir University of Technology, Tehran, 15875-4413, Islamic Republic of Iran (Iran, Islamic Republic of); Amrollahi, Reza, E-mail: amrollahi@aut.ac.ir [Department of Energy Engineering and physics, Amirkabir University of Technology, Tehran, 15875-4413, Islamic Republic of Iran (Iran, Islamic Republic of); Moradi, Gholamreza [Department of Electrical Engineering, Amirkabir University of Technology, Tehran, 15875-4413, Islamic Republic of Iran (Iran, Islamic Republic of)

2016-12-15

Reflectometry is a common method for plasma diagnostic, in which microwaves are launched into the plasma and reflected at the critical surfaces. Comparing the reflected microwave signals with the launched waves would give rise to the plasma density profiles. In the present study, an ordinary mode (O-mode) frequency modulation (FM) reflectometry system has been designed for the electron density profile measurement of the Alborz Tokamak plasma. This system has been considered to operate at K-band (18–26.5 GHz) frequency range and scan the frequency band between 18 to 26 GHz in 40 μS. The density profile from major radius r = 47.9–51.55 cm can be measured in Alborz Tokamak plasma. Based on the Alborz Tokamak operational conditions, the characteristic frequencies, and some dimensional limitations, all parts of reflectometer have been designed so that an appropriate efficiency with minimum attenuation, especially in transmitting/receiving system would be achieved. A dual antenna and an oversized waveguide of X-band (8–12 GHz) for transmitting and receiving purposes and a balanced detector for absolute phase determination have been utilized. The details of the Alborz Tokamak FM reflectometry components focusing on the antenna and waveguide design and mounting are described in this paper. Additionally, the procedure of plasma profile reconstruction using the system output signal is discussed. This system uses signal phase shift to determine the position of the cutoff layer.

Hierarchical feedback modules and reaction hubs in cell signaling networks.

Science.gov (United States)

Xu, Jianfeng; Lan, Yueheng

2015-01-01

Despite much effort, identification of modular structures and study of their organizing and functional roles remain a formidable challenge in molecular systems biology, which, however, is essential in reaching a systematic understanding of large-scale cell regulation networks and hence gaining capacity of exerting effective interference to cell activity. Combining graph theoretic methods with available dynamics information, we successfully retrieved multiple feedback modules of three important signaling networks. These feedbacks are structurally arranged in a hierarchical way and dynamically produce layered temporal profiles of output signals. We found that global and local feedbacks act in very different ways and on distinct features of the information flow conveyed by signal transduction but work highly coordinately to implement specific biological functions. The redundancy embodied with multiple signal-relaying channels and feedback controls bestow great robustness and the reaction hubs seated at junctions of different paths announce their paramount importance through exquisite parameter management. The current investigation reveals intriguing general features of the organization of cell signaling networks and their relevance to biological function, which may find interesting applications in analysis, design and control of bio-networks.

Hierarchical feedback modules and reaction hubs in cell signaling networks.

Directory of Open Access Journals (Sweden)

Jianfeng Xu

Full Text Available Despite much effort, identification of modular structures and study of their organizing and functional roles remain a formidable challenge in molecular systems biology, which, however, is essential in reaching a systematic understanding of large-scale cell regulation networks and hence gaining capacity of exerting effective interference to cell activity. Combining graph theoretic methods with available dynamics information, we successfully retrieved multiple feedback modules of three important signaling networks. These feedbacks are structurally arranged in a hierarchical way and dynamically produce layered temporal profiles of output signals. We found that global and local feedbacks act in very different ways and on distinct features of the information flow conveyed by signal transduction but work highly coordinately to implement specific biological functions. The redundancy embodied with multiple signal-relaying channels and feedback controls bestow great robustness and the reaction hubs seated at junctions of different paths announce their paramount importance through exquisite parameter management. The current investigation reveals intriguing general features of the organization of cell signaling networks and their relevance to biological function, which may find interesting applications in analysis, design and control of bio-networks.

Hierarchical Feedback Modules and Reaction Hubs in Cell Signaling Networks

Science.gov (United States)

Xu, Jianfeng; Lan, Yueheng

2015-01-01

Despite much effort, identification of modular structures and study of their organizing and functional roles remain a formidable challenge in molecular systems biology, which, however, is essential in reaching a systematic understanding of large-scale cell regulation networks and hence gaining capacity of exerting effective interference to cell activity. Combining graph theoretic methods with available dynamics information, we successfully retrieved multiple feedback modules of three important signaling networks. These feedbacks are structurally arranged in a hierarchical way and dynamically produce layered temporal profiles of output signals. We found that global and local feedbacks act in very different ways and on distinct features of the information flow conveyed by signal transduction but work highly coordinately to implement specific biological functions. The redundancy embodied with multiple signal-relaying channels and feedback controls bestow great robustness and the reaction hubs seated at junctions of different paths announce their paramount importance through exquisite parameter management. The current investigation reveals intriguing general features of the organization of cell signaling networks and their relevance to biological function, which may find interesting applications in analysis, design and control of bio-networks. PMID:25951347

Scaling proprioceptor gene transcription by retrograde NT3 signaling.

Directory of Open Access Journals (Sweden)

Jun Lee

Full Text Available Cell-type specific intrinsic programs instruct neuronal subpopulations before target-derived factors influence later neuronal maturation. Retrograde neurotrophin signaling controls neuronal survival and maturation of dorsal root ganglion (DRG sensory neurons, but how these potent signaling pathways intersect with transcriptional programs established at earlier developmental stages remains poorly understood. Here we determine the consequences of genetic alternation of NT3 signaling on genome-wide transcription programs in proprioceptors, an important sensory neuron subpopulation involved in motor reflex behavior. We find that the expression of many proprioceptor-enriched genes is dramatically altered by genetic NT3 elimination, independent of survival-related activities. Combinatorial analysis of gene expression profiles with proprioceptors isolated from mice expressing surplus muscular NT3 identifies an anticorrelated gene set with transcriptional levels scaled in opposite directions. Voluntary running experiments in adult mice further demonstrate the maintenance of transcriptional adjustability of genes expressed by DRG neurons, pointing to life-long gene expression plasticity in sensory neurons.

Comparison of slowness profiles of lamb wave with elastic moduli and crystal structure in single crystalline silicon wafers

Energy Technology Data Exchange (ETDEWEB)

Min, Young Jae; Yun, Gyeong Won; Kim, Kyung Min; Roh, Yuji; Kim, Young H. [Applied Acoustics Lab, Korea Science Academy of KAIST, Busan (Korea, Republic of)

2016-02-15

Single crystalline silicon wafers having (100), (110), and (111) directions are employed as specimens for obtaining slowness profiles. Leaky Lamb waves (LLW) from immersed wafers were detected by varying the incident angles of the specimens and rotating the specimens. From an analysis of LLW signals for different propagation directions and phase velocities of each specimen, slowness profiles were obtained, which showed a unique symmetry with different symmetric axes. Slowness profiles were compared with elastic moduli of each wafer. They showed the same symmetries as crystal structures. In addition, slowness profiles showed expected patterns and values that can be inferred from elastic moduli. This implies that slowness profiles can be used to examine crystal structures of anisotropic solids.

Study on time response properties of ionization chamber in profile gauge

International Nuclear Information System (INIS)

Wang Zhentao; Shen Yixiong; Wang Liqiang; Hao Pengfei

2011-01-01

The drift time of ions in the ionization chamber was measured by means of using a shortly pulsed X-ray device and through analyzing the voltage signals on the load resistor of the chamber recorded by a digital oscilloscope. By using this method, the time response properties of the ionization chamber in the profile gauge were studied, results of ion drift time for ionization chambers with different internal structures, different voltages and different gas pressures were introduced and the sources of error were discussed. The experiment results show that the time response of ionization chamber in profile gauge meets the requirement of on-line hot strip measuring. (authors)

Long term variations of chlorine-36 input signal to groundwater as recorded in deep unsaturated zones, south-east Australia

International Nuclear Information System (INIS)

Le Gal La Salle, C.; Herczeg, A.L.; Leaney, F.W.; Fifield, L.K.; Cresswell, R.G.; Kellet, J.

1997-01-01

The use of chlorine-36 is increasing in hydrology as its long half-life (3x10 5 a), allows useful long-term investigations into groundwater systems. Because chloride is very hydrophillic, the chlorine-36 signal should not be affected by geochemical processes in most aquatic systems. Nevertheless, over long periods of time, the chlorine-36 input to groundwater systems may vary due to factors such as: changes of production of chlorine-36 and/or changes of its distribution in the atmosphere. For instance the production of chlorine-36 might be governed by long-term terrestrial magnetic dipole strength variations as suggested for other radiogenic isotopes. Variations of the input signal of chlorine-36 should be recorded in pore waters of deep unsaturated zones. In this system, the time scale is approximated by the cumulative chloride content with depth assuming a constant input of chloride. Long-term records of chloride and chlorine-36 in two deep unsaturated-zone profiles, situated in the semi-arid Murray Basin in Australia, are presented. The two profiles record periods of approximately 20±1 to 27±2 ka and 100±5 to 220±10 ka respectively. The range of variation of the recorded time at each site is related to the estimated range of chloride deposition rate. The recharge rates are constant in both profiles with values approximating 0.4 and less than 0.1 mm.a -1 respectively. The linear relationship between chlorine-36 and stable chloride indicates that variations of chlorine-36 are governed by evapotranspiration, with a concentration factor of up to 2. Therefore the chlorine-36 is normalised to chloride to take account of the evapotranspiration process. In the soil profile at Kaniva, Western Victoria, 36 Cl/Cl'- ratio shows an increase of approximately 20% down profile. The second profile at Boree Plains, Wester, NSW, shows variations of 36 Cl/Cl'- ratio of 40% with a decreasing trend down profile. The input signal of chlorine-36/chloride is calculated by correction

Accurately computing the optical pathlength difference for a michelson interferometer with minimal knowledge of the source spectrum.

Science.gov (United States)

Milman, Mark H

2005-12-01

Astrometric measurements using stellar interferometry rely on precise measurement of the central white light fringe to accurately obtain the optical pathlength difference of incoming starlight to the two arms of the interferometer. One standard approach to stellar interferometry uses a channeled spectrum to determine phases at a number of different wavelengths that are then converted to the pathlength delay. When throughput is low these channels are broadened to improve the signal-to-noise ratio. Ultimately the ability to use monochromatic models and algorithms in each of the channels to extract phase becomes problematic and knowledge of the spectrum must be incorporated to achieve the accuracies required of the astrometric measurements. To accomplish this an optimization problem is posed to estimate simultaneously the pathlength delay and spectrum of the source. Moreover, the nature of the parameterization of the spectrum that is introduced circumvents the need to solve directly for these parameters so that the optimization problem reduces to a scalar problem in just the pathlength delay variable. A number of examples are given to show the robustness of the approach.

Processing of acoustic signal in rock desintegration

Directory of Open Access Journals (Sweden)

Futó Jozef

2002-12-01

Full Text Available For the determination of an effective rock disintegration for a given tool and rock type it is needed to define an optimal disintegration regime. Optimisation of the disintegration process by drilling denotes the finding out an appropriate couple of input parameters of disintegration, i.e. the thrust and revolutions for a quasi-equal rock environment. The disintegration process can be optimised to reach the maximum immediate drilling rate, to reach the minimum specific disintegration energy or to reach the maximum ratio of immediate drilling rate and specific disintegration energy. For the determination of the optimal thrust and revolutions it is needed to monitor the disintegration process. Monitoring of the disintegration process in real conditions is complicated by unfavourable factors, such as the presence of water, dust, vibrations etc. Following our present experience in the monitoring of drilling or full-profile driving, we try to replace the monitoring of input values by monitoring of the scanned acoustic signal. This method of monitoring can extend the optimisation of disintegration process in the technical practice. Its advantage consists in the registration of one acoustic signal by an appropriate microphone. Monitoring of acoustic signal is used also in monitoring of metal machining by milling and turning jobs. The research results of scanning of the acoustic signal in machining of metals are encouraging. Acoustic signal can be processed by different statistical parameters. The paper decribes some results of monitoring of the acoustic signal in rock disintegration on the drilling stand of the Institute of Geotechnics SAS in Košice. The acoustic signal has been registered and processed in no-load run of electric motor, in no-load run of electric motor with a drilling fluid, and in the Ruskov andesite drilling. Registration and processing of the acoustic signal is solved as a part of the research grant task within the basic research

Astrometric Calibration and Performance of the Dark Energy Camera

Energy Technology Data Exchange (ETDEWEB)

Bernstein, G. M.; Armstrong, R.; Plazas, A. A.; Walker, A. R.; Abbott, T. M. C.; Allam, S.; Bechtol, K.; Benoit-Lévy, A.; Brooks, D.; Burke, D. L.; Rosell, A. Carnero; Kind, M. Carrasco; Carretero, J.; Cunha, C. E.; Costa, L. N. da; DePoy, D. L.; Desai, S.; Diehl, H. T.; Eifler, T. F.; Fernandez, E.; Fosalba, P.; Frieman, J.; García-Bellido, J.; Gerdes, D. W.; Gruen, D.; Gruendl, R. A.; Gschwend, J.; Gutierrez, G.; Honscheid, K.; James, D. J.; Kent, S.; Krause, E.; Kuehn, K.; Kuropatkin, N.; Li, T. S.; Maia, M. A. G.; March, M.; Marshall, J. L.; Menanteau, F.; Miquel, R.; Ogando, R. L. C.; Reil, K.; Roodman, A.; Rykoff, E. S.; Sanchez, E.; Scarpine, V.; Schindler, R.; Schubnell, M.; Sevilla-Noarbe, I.; Smith, M.; Smith, R. C.; Soares-Santos, M.; Sobreira, F.; Suchyta, E.; Swanson, M. E. C.; Tarle, G.

2017-05-30

We characterize the variation in photometric response of the Dark Energy Camera (DECam) across its 520~Mpix science array during 4 years of operation. These variations are measured using high signal-to-noise aperture photometry of $>10^7$ stellar images in thousands of exposures of a few selected fields, with the telescope dithered to move the sources around the array. A calibration procedure based on these results brings the RMS variation in aperture magnitudes of bright stars on cloudless nights down to 2--3 mmag, with <1 mmag of correlated photometric errors for stars separated by $\\ge20$". On cloudless nights, any departures of the exposure zeropoints from a secant airmass law exceeding >1 mmag are plausibly attributable to spatial/temporal variations in aperture corrections. These variations can be inferred and corrected by measuring the fraction of stellar light in an annulus between 6" and 8" diameter. Key elements of this calibration include: correction of amplifier nonlinearities; distinguishing pixel-area variations and stray light from quantum-efficiency variations in the flat fields; field-dependent color corrections; and the use of an aperture-correction proxy. The DECam response pattern across the 2-degree field drifts over months by up to $\\pm7$ mmag, in a nearly-wavelength-independent low-order pattern. We find no fundamental barriers to pushing global photometric calibrations toward mmag accuracy.

Gene expression profiling of canine osteosarcoma reveals genes associated with short and long survival times

Directory of Open Access Journals (Sweden)

Rao Nagesha AS

2009-09-01

Full Text Available Abstract Background Gene expression profiling of spontaneous tumors in the dog offers a unique translational opportunity to identify prognostic biomarkers and signaling pathways that are common to both canine and human. Osteosarcoma (OS accounts for approximately 80% of all malignant bone tumors in the dog. Canine OS are highly comparable with their human counterpart with respect to histology, high metastatic rate and poor long-term survival. This study investigates the prognostic gene profile among thirty-two primary canine OS using canine specific cDNA microarrays representing 20,313 genes to identify genes and cellular signaling pathways associated with survival. This, the first report of its kind in dogs with OS, also demonstrates the advantages of cross-species comparison with human OS. Results The 32 tumors were classified into two prognostic groups based on survival time (ST. They were defined as short survivors (dogs with poor prognosis: surviving fewer than 6 months and long survivors (dogs with better prognosis: surviving 6 months or longer. Fifty-one transcripts were found to be differentially expressed, with common upregulation of these genes in the short survivors. The overexpressed genes in short survivors are associated with possible roles in proliferation, drug resistance or metastasis. Several deregulated pathways identified in the present study, including Wnt signaling, Integrin signaling and Chemokine/cytokine signaling are comparable to the pathway analysis conducted on human OS gene profiles, emphasizing the value of the dog as an excellent model for humans. Conclusion A molecular-based method for discrimination of outcome for short and long survivors is useful for future prognostic stratification at initial diagnosis, where genes and pathways associated with cell cycle/proliferation, drug resistance and metastasis could be potential targets for diagnosis and therapy. The similarities between human and canine OS makes the

Employing Beam-Gas Interaction Vertices for Transverse Profile Measurements

CERN Document Server

Rihl, Mariana; Baglin, Vincent; Barschel, Colin; Bay, Aurelio; Blanc, Frederic; Bravin, Enrico; Bregliozzi, Giuseppe; Chritin, Nicolas; Dehning, Bernd; Ferro-Luzzi, Massimiliano; Gaspar, Clara; Gianì, Sebastiana; Giovannozzi, Massimo; Greim, Roman; Haefeli, Guido; Hopchev, Plamen; Jacobsson, Richard; Jensen, Lars; Jones, Owain Rhodri; Jurado, Nicolas; Kain, Verena; Karpinski, Waclaw; Kirn, Thomas; Kuhn, Maria; Luthi, Berengere; Magagnin, Paolo; Matev, Rosen; Nakada, Tatsuya; Neufeld, Niko; Panman, Jaap; Rakotomiaramanana, Barinjaka; Salustino Guimaraes, Valdir; Salvant, Benoit; Schael, Stefan; Schneider, Olivier; Schwering, Georg; Tobin, Mark; Veness, Raymond; Veyrat, Quentin; Vlachos, Sotiris; Wlochal, Michael; Xu, Zhirui; von Dratzig, Arndt

2016-01-01

Interactions of high-energy beam particles with residual gas offer a unique opportunity to measure the beam profile in a non-intrusive fashion. Such a method was successfully pioneered* at the LHCb experiment using a silicon microstrip vertex detector. During the recent Large Hadron Collider shutdown at CERN, a demonstrator Beam-Gas Vertexing system based on eight scintillating-fibre modules was designed**, constructed and installed on Ring 2 to be operated as a pure beam diagnostics device. The detector signals are read out and collected with LHCb-type front-end electronics and a DAQ system consisting of a CPU farm. Tracks and vertices will be reconstructed to obtain a beam profile in real time. Here, first commissioning results are reported. The advantages and potential for future applications of this technique are discussed.

Transcriptome profiling of the theca interna in transition from small to large antral ovarian follicles.

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Nicholas Hatzirodos

Full Text Available The theca interna layer of the ovarian follicle forms during the antral stage of follicle development and lies adjacent to and directly outside the follicular basal lamina. It supplies androgens and communicates with the granulosa cells and the oocyte by extracellular signaling. To better understand developmental changes in the theca interna, we undertook transcriptome profiling of the theca interna from small (3-5 mm, n = 10 and large (9-12 mm, n = 5 healthy antral bovine follicles, representing a calculated >7-fold increase in the amount of thecal tissue. Principal Component Analysis and hierarchical classification of the signal intensity plots for the arrays showed no clustering of the theca interna samples into groups depending on follicle size or subcategories of small follicles. From the over 23,000 probe sets analysed, only 76 were differentially expressed between large and small healthy follicles. Some of the differentially expressed genes were associated with processes such as myoblast differentiation, protein ubiquitination, nitric oxide and transforming growth factor β signaling. The most significant pathway affected from our analyses was found to be Wnt signaling, which was suppressed in large follicles via down-regulation of WNT2B and up-regulation of the inhibitor FRZB. These changes in the transcriptional profile could have been due to changes in cellular function or alternatively since the theca interna is composed of a number of different cell types it could have been due to any systematic change in the volume density of any particular cell type. However, our study suggests that the transcriptional profile of the theca interna is relatively stable during antral follicle development unlike that of granulosa cells observed previously. Thus both the cellular composition and cellular behavior of the theca interna and its contribution to follicular development appear to be relatively constant throughout the follicle growth

Transcriptomic profiles of human foreskin fibroblast cells in response to orf virus.

Science.gov (United States)

Chen, Daxiang; Long, Mingjian; Xiao, Bin; Xiong, Yufeng; Chen, Huiqin; Chen, Yu; Kuang, Zhenzhan; Li, Ming; Wu, Yingsong; Rock, Daniel L; Gong, Daoyuan; Wang, Yong; He, Haijian; Liu, Fang; Luo, Shuhong; Hao, Wenbo

2017-08-29

Orf virus has been utilized as a safe and efficient viral vector against not only diverse infectious diseases, but also against tumors. However, the nature of the genes triggered by the vector in human cells is poorly characterized. Using RNA sequencing technology, we compared specific changes in the transcriptomic profiles in human foreskin fibroblast cells following infection by the orf virus. The results indicated that orf virus upregulates or downregulates expression of a variety of genes, including genes involved in antiviral immune response, apoptosis, cell cycle and a series of signaling pathways, such as the IFN and p53-signaling pathways. The orf virus stimulates or inhibits immune gene expression such as chemokines, chemokine receptors, cytokines, cytokine receptors, and molecules involved in antigen uptake and processing after infection. Expression of pro-apoptotic genes increased at 8 hours post-infection. The p53 signaling pathway was activated to induce apoptosis at the same time. However, the cell cycle program was promoted after infection, which may be due to the immunomodulatory genes of the orf virus. This presents the first description of transcription profile changes in human foreskin fibroblast cells after orf virus infection and provides an in-depth analysis of the interaction between the host and orf virus. These data offer new insights into the understanding of the mechanisms of infection by orf virus and identify potential targets for future studies.

Atorvastatin ameliorates arsenic-induced hypertension and enhancement of vascular redox signaling in rats

International Nuclear Information System (INIS)

Sarath, Thengumpallil Sasindran; Waghe, Prashantkumar; Gupta, Priyanka; Choudhury, Soumen; Kannan, Kandasamy; Pillai, Ayyappan Harikrishna; Harikumar, Sankaran Kutty; Mishra, Santosh Kumar; Sarkar, Souvendra Nath

2014-01-01

Chronic arsenic exposure has been linked to elevated blood pressure and cardiovascular diseases, while statins reduce the incidence of cardiovascular disease predominantly by their low density lipoprotein-lowering effect. Besides, statins have other beneficial effects, including antioxidant and anti-inflammatory activities. We evaluated whether atorvastatin, a widely used statin, can ameliorate arsenic-induced increase in blood pressure and alteration in lipid profile and also whether the amelioration could relate to altered NO and ROS signaling. Rats were exposed to sodium arsenite (100 ppm) through drinking water for 90 consecutive days. Atorvastatin (10 mg/kg bw, orally) was administered once daily during the last 30 days of arsenic exposure. On the 91st day, blood was collected for lipid profile. Western blot of iNOS and eNOS protein, NO and 3-nitrotyrosine production, Nox-4 and p22Phox mRNA expression, Nox activity, ROS generation, lipid peroxidation and antioxidants were evaluated in thoracic aorta. Arsenic increased systolic, diastolic and mean arterial blood pressure, while it decreased HDL-C and increased LDL-C, total cholesterol and triglycerides in serum. Arsenic down-regulated eNOS and up-regulated iNOS protein expression and increased basal NO and 3-nitrotyrosine level. Arsenic increased aortic Nox-4 and p22Phox mRNA expression, Nox activity, ROS generation and lipid peroxidation. Further, arsenic decreased the activities of superoxide dismutase, catalase, and glutathione peroxidase and depleted aortic GSH content. Atorvastatin regularized blood pressure, improved lipid profile and attenuated arsenic-mediated redox alterations. The results demonstrate that atorvastatin has the potential to ameliorate arsenic-induced hypertension by improving lipid profile, aortic NO signaling and restoring vascular redox homeostasis. - Highlights: • Arsenic increased systolic, diastolic and mean arterial blood pressure and caused dyslipidemia. • Arsenic increased

Atorvastatin ameliorates arsenic-induced hypertension and enhancement of vascular redox signaling in rats

Energy Technology Data Exchange (ETDEWEB)

Sarath, Thengumpallil Sasindran; Waghe, Prashantkumar; Gupta, Priyanka; Choudhury, Soumen; Kannan, Kandasamy [Division of Pharmacology and Toxicology, Indian Veterinary Research Institute, Izatnagar, 243122 Bareilly, Uttar Pradesh (India); Pillai, Ayyappan Harikrishna [Division of Animal Biochemistry, Indian Veterinary Research Institute, Izatnagar, 243122 Bareilly, Uttar Pradesh (India); Harikumar, Sankaran Kutty; Mishra, Santosh Kumar [Division of Pharmacology and Toxicology, Indian Veterinary Research Institute, Izatnagar, 243122 Bareilly, Uttar Pradesh (India); Sarkar, Souvendra Nath, E-mail: snsarkar1911@rediffmail.com [Division of Pharmacology and Toxicology, Indian Veterinary Research Institute, Izatnagar, 243122 Bareilly, Uttar Pradesh (India)

2014-11-01

Chronic arsenic exposure has been linked to elevated blood pressure and cardiovascular diseases, while statins reduce the incidence of cardiovascular disease predominantly by their low density lipoprotein-lowering effect. Besides, statins have other beneficial effects, including antioxidant and anti-inflammatory activities. We evaluated whether atorvastatin, a widely used statin, can ameliorate arsenic-induced increase in blood pressure and alteration in lipid profile and also whether the amelioration could relate to altered NO and ROS signaling. Rats were exposed to sodium arsenite (100 ppm) through drinking water for 90 consecutive days. Atorvastatin (10 mg/kg bw, orally) was administered once daily during the last 30 days of arsenic exposure. On the 91st day, blood was collected for lipid profile. Western blot of iNOS and eNOS protein, NO and 3-nitrotyrosine production, Nox-4 and p22Phox mRNA expression, Nox activity, ROS generation, lipid peroxidation and antioxidants were evaluated in thoracic aorta. Arsenic increased systolic, diastolic and mean arterial blood pressure, while it decreased HDL-C and increased LDL-C, total cholesterol and triglycerides in serum. Arsenic down-regulated eNOS and up-regulated iNOS protein expression and increased basal NO and 3-nitrotyrosine level. Arsenic increased aortic Nox-4 and p22Phox mRNA expression, Nox activity, ROS generation and lipid peroxidation. Further, arsenic decreased the activities of superoxide dismutase, catalase, and glutathione peroxidase and depleted aortic GSH content. Atorvastatin regularized blood pressure, improved lipid profile and attenuated arsenic-mediated redox alterations. The results demonstrate that atorvastatin has the potential to ameliorate arsenic-induced hypertension by improving lipid profile, aortic NO signaling and restoring vascular redox homeostasis. - Highlights: • Arsenic increased systolic, diastolic and mean arterial blood pressure and caused dyslipidemia. • Arsenic increased

Greenhouse gas profiling by infrared-laser and microwave occultation: retrieval algorithm and demonstration results from end-to-end simulations

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V. Proschek

2011-10-01

Full Text Available Measuring greenhouse gas (GHG profiles with global coverage and high accuracy and vertical resolution in the upper troposphere and lower stratosphere (UTLS is key for improved monitoring of GHG concentrations in the free atmosphere. In this respect a new satellite mission concept adding an infrared-laser part to the already well studied microwave occultation technique exploits the joint propagation of infrared-laser and microwave signals between Low Earth Orbit (LEO satellites. This synergetic combination, referred to as LEO-LEO microwave and infrared-laser occultation (LMIO method, enables to retrieve thermodynamic profiles (pressure, temperature, humidity and accurate altitude levels from the microwave signals and GHG profiles from the simultaneously measured infrared-laser signals. However, due to the novelty of the LMIO method, a retrieval algorithm for GHG profiling is not yet available. Here we introduce such an algorithm for retrieving GHGs from LEO-LEO infrared-laser occultation (LIO data, applied as a second step after retrieving thermodynamic profiles from LEO-LEO microwave occultation (LMO data. We thoroughly describe the LIO retrieval algorithm and unveil the synergy with the LMO-retrieved pressure, temperature, and altitude information. We furthermore demonstrate the effective independence of the GHG retrieval results from background (a priori information in discussing demonstration results from LMIO end-to-end simulations for a representative set of GHG profiles, including carbon dioxide (CO₂, water vapor (H₂O, methane (CH₄, and ozone (O₃. The GHGs except for ozone are well retrieved throughout the UTLS, while ozone is well retrieved from about 10 km to 15 km upwards, since the ozone layer resides in the lower stratosphere. The GHG retrieval errors are generally smaller than 1% to 3% r.m.s., at a vertical resolution of about 1 km. The retrieved profiles also appear unbiased, which points

Profiling nonhuman intelligence: An exercise in developing unbiased tools for describing other "types" of intelligence on earth

Science.gov (United States)

Herzing, Denise L.

2014-02-01

Intelligence has historically been studied by comparing nonhuman cognitive and language abilities with human abilities. Primate-like species, which show human-like anatomy and share evolutionary lineage, have been the most studied. However, when comparing animals of non-primate origins our abilities to profile the potential for intelligence remains inadequate. Historically our measures for nonhuman intelligence have included a variety of tools: (1) physical measurements - brain to body ratio, brain structure/convolution/neural density, presence of artifacts and physical tools, (2) observational and sensory measurements - sensory signals, complexity of signals, cross-modal abilities, social complexity, (3) data mining - information theory, signal/noise, pattern recognition, (4) experimentation - memory, cognition, language comprehension/use, theory of mind, (5) direct interfaces - one way and two way interfaces with primates, dolphins, birds and (6) accidental interactions - human/animal symbiosis, cross-species enculturation. Because humans tend to focus on "human-like" attributes and measures and scientists are often unwilling to consider other "types" of intelligence that may not be human equated, our abilities to profile "types" of intelligence that differ on a variety of scales is weak. Just as biologists stretch their definitions of life to look at extremophiles in unusual conditions, so must we stretch our descriptions of types of minds and begin profiling, rather than equating, other life forms we may encounter.

Error Correction of Measured Unstructured Road Profiles Based on Accelerometer and Gyroscope Data

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Jinhua Han

2017-01-01

Full Text Available This paper describes a noncontact acquisition system composed of several time synchronized laser height sensors, accelerometers, gyroscope, and so forth in order to collect the road profiles of vehicle riding on the unstructured roads. A method of correcting road profiles based on the accelerometer and gyroscope data is proposed to eliminate the adverse impacts of vehicle vibration and attitudes change. Because the power spectral density (PSD of gyro attitudes concentrates in the low frequency band, a method called frequency division is presented to divide the road profiles into two parts: high frequency part and low frequency part. The vibration error of road profiles is corrected by displacement data obtained through two times integration of measured acceleration data. After building the mathematical model between gyro attitudes and road profiles, the gyro attitudes signals are separated from low frequency road profile by the method of sliding block overlap based on correlation analysis. The accuracy and limitations of the system have been analyzed, and its validity has been verified by implementing the system on wheeled equipment for road profiles’ measuring of vehicle testing ground. The paper offers an accurate and practical approach to obtaining unstructured road profiles for road simulation test.

An Ionization Profile Monitor for the Tevatron

CERN Document Server

Jansson, Andreas; Bowie, Kwame; Bross, Alan; Dysert, Robert; Fitzpatrick, Thomas; Kwarciany, Richard; Lundberg, Carl; Nguyen, Hogan; Rivetta, Claudio H; Slimmer, David; Valerio, Linda; Zagel, James

2005-01-01

Primarily to study emittance blowup during injection and ramping, an ionization profile monitor has been developed for the Tevatron. It is based on a prototype installed in the Main Injector, although with extensive modifications. In particular, the electromagnetic shielding has been improved, the signal path has been cleaned up, and provisions have been made for an internal electron source. Due to the good Tevatron vacuum, a local pressure bump is introduced to increase the primary signal, which is then amplified by a microchannel plate and detected on anode strips. For the DAQ, a custom ASIC developed for the CMS experiment is used. It is a combined charge integrator and digitizer, with a sensitivity of a few fC, and a time-resolution that allows single bunch measurement. Digitization is done in the tunnel to reduce noise. Preparations for detector installation were made during the long 2004 shutdown, with the installation of magnets, vacuum chambers, vacuum pumps and cabling. The actual detector will be in...

Temperature profile retrievals with extended Kalman-Bucy filters

Science.gov (United States)

Ledsham, W. H.; Staelin, D. H.

1979-01-01

The Extended Kalman-Bucy Filter is a powerful technique for estimating non-stationary random parameters in situations where the received signal is a noisy non-linear function of those parameters. A practical causal filter for retrieving atmospheric temperature profiles from radiances observed at a single scan angle by the Scanning Microwave Spectrometer (SCAMS) carried on the Nimbus 6 satellite typically shows approximately a 10-30% reduction in rms error about the mean at almost all levels below 70 mb when compared with a regression inversion.

Identifying colon cancer risk modules with better classification performance based on human signaling network.

Science.gov (United States)

Qu, Xiaoli; Xie, Ruiqiang; Chen, Lina; Feng, Chenchen; Zhou, Yanyan; Li, Wan; Huang, Hao; Jia, Xu; Lv, Junjie; He, Yuehan; Du, Youwen; Li, Weiguo; Shi, Yuchen; He, Weiming

2014-10-01

Identifying differences between normal and tumor samples from a modular perspective may help to improve our understanding of the mechanisms responsible for colon cancer. Many cancer studies have shown that signaling transduction and biological pathways are disturbed in disease states, and expression profiles can distinguish variations in diseases. In this study, we integrated a weighted human signaling network and gene expression profiles to select risk modules associated with tumor conditions. Risk modules as classification features by our method had a better classification performance than other methods, and one risk module for colon cancer had a good classification performance for distinguishing between normal/tumor samples and between tumor stages. All genes in the module were annotated to the biological process of positive regulation of cell proliferation, and were highly associated with colon cancer. These results suggested that these genes might be the potential risk genes for colon cancer. Copyright © 2013. Published by Elsevier Inc.

Dual Function of Wnt Signaling during Neuronal Differentiation of Mouse Embryonic Stem Cells

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Hanjun Kim

2015-01-01

Full Text Available Activation of Wnt signaling enhances self-renewal of mouse embryonic and neural stem/progenitor cells. In contrast, undifferentiated ES cells show a very low level of endogenous Wnt signaling, and ectopic activation of Wnt signaling has been shown to block neuronal differentiation. Therefore, it remains unclear whether or not endogenous Wnt/β-catenin signaling is necessary for self-renewal or neuronal differentiation of ES cells. To investigate this, we examined the expression profiles of Wnt signaling components. Expression levels of Wnts known to induce β-catenin were very low in undifferentiated ES cells. Stable ES cell lines which can monitor endogenous activity of Wnt/β-catenin signaling suggest that Wnt signaling was very low in undifferentiated ES cells, whereas it increased during embryonic body formation or neuronal differentiation. Interestingly, application of small molecules which can positively (BIO, GSK3β inhibitor or negatively (IWR-1-endo, Axin stabilizer control Wnt/β-catenin signaling suggests that activation of that signaling at different time periods had differential effects on neuronal differentiation of 46C ES cells. Further, ChIP analysis suggested that β-catenin/TCF1 complex directly regulated the expression of Sox1 during neuronal differentiation. Overall, our data suggest that Wnt/β-catenin signaling plays differential roles at different time points of neuronal differentiation.

Bias in mean velocities and noise in variances and covariances measured using a multistatic acoustic profiler: the Nortek Vectrino Profiler

Science.gov (United States)

Thomas, R. E.; Schindfessel, L.; McLelland, S. J.; Creëlle, S.; De Mulder, T.

2017-07-01

This paper compiles the technical characteristics and operating principles of the Nortek Vectrino Profiler and reviews previously reported user experiences. A series of experiments are then presented that investigate instrument behaviour and performance, with a particular focus on variations within the profile. First, controlled tests investigate the sensitivity of acoustic amplitude (and Signal-to-Noise Ratio, SNR) and pulse-to-pulse correlation coefficient, R 2, to seeding concentration and cell geometry. Second, a novel methodology that systematically shifts profiling cells through a single absolute vertical position investigates the sensitivity of mean velocities, SNR and noise to: (a) emitted sound intensity and the presence (or absence) of acoustic seeding; and (b) varying flow rates under ideal acoustic seeding conditions. A new solution is derived to quantify the noise affecting the two perpendicular tristatic systems of the Vectrino Profiler and its contribution to components of the Reynolds stress tensor. Results suggest that for the Vectrino Profiler: 1. optimum acoustic seeding concentrations are ~3000 to 6000 mg L-1 2. mean velocity magnitudes are biased by variable amounts in proximal cells but are consistently underestimated in distal cells; 3. noise varies parabolically with a minimum around the ‘sweet spot’, 50 mm below the transceiver; 4. the receiver beams only intersect at the sweet spot and diverge nearer to and further from the transceiver. This divergence significantly reduces the size of the sampled area away from the sweet spot, reducing data quality; 5. the most reliable velocity data will normally be collected in the region between approximately 43 and 61 mm below the transceiver.

Bias in mean velocities and noise in variances and covariances measured using a multistatic acoustic profiler: the Nortek Vectrino Profiler

International Nuclear Information System (INIS)

Thomas, R E; Schindfessel, L; Creëlle, S; De Mulder, T; McLelland, S J

2017-01-01

This paper compiles the technical characteristics and operating principles of the Nortek Vectrino Profiler and reviews previously reported user experiences. A series of experiments are then presented that investigate instrument behaviour and performance, with a particular focus on variations within the profile. First, controlled tests investigate the sensitivity of acoustic amplitude (and Signal-to-Noise Ratio, SNR) and pulse-to-pulse correlation coefficient, R 2 , to seeding concentration and cell geometry. Second, a novel methodology that systematically shifts profiling cells through a single absolute vertical position investigates the sensitivity of mean velocities, SNR and noise to: (a) emitted sound intensity and the presence (or absence) of acoustic seeding; and (b) varying flow rates under ideal acoustic seeding conditions. A new solution is derived to quantify the noise affecting the two perpendicular tristatic systems of the Vectrino Profiler and its contribution to components of the Reynolds stress tensor. Results suggest that for the Vectrino Profiler: 1. optimum acoustic seeding concentrations are ∼3000 to 6000 mg L −1 ; 2. mean velocity magnitudes are biased by variable amounts in proximal cells but are consistently underestimated in distal cells; 3. noise varies parabolically with a minimum around the ‘sweet spot’, 50 mm below the transceiver; 4. the receiver beams only intersect at the sweet spot and diverge nearer to and further from the transceiver. This divergence significantly reduces the size of the sampled area away from the sweet spot, reducing data quality; 5. the most reliable velocity data will normally be collected in the region between approximately 43 and 61 mm below the transceiver. (paper)

Wnt/β-Catenin Signaling Defines Organizing Centers that Orchestrate Growth and Differentiation of the Regenerating Zebrafish Caudal Fin

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Daniel Wehner

2014-02-01

Full Text Available Zebrafish regenerate their fins via the formation of a population of progenitor cells, the blastema. Wnt/β-catenin signaling is essential for blastemal cell proliferation and patterning of the overlying epidermis. Yet, we find that β-catenin signaling is neither active in the epidermis nor the majority of the proliferative blastemal cells. Rather, tissue-specific pathway interference indicates that Wnt signaling in the nonproliferative distal blastema is required for cell proliferation in the proximal blastema, and signaling in cells lining the osteoblasts directs osteoblast differentiation. Thus, Wnt signaling regulates epidermal patterning, blastemal cell proliferation, and osteoblast maturation indirectly via secondary signals. Gene expression profiling, chromatin immunoprecipitation, and functional rescue experiments suggest that Wnt/β-catenin signaling acts through Fgf and Bmp signaling to control epidermal patterning, whereas retinoic acid and Hedgehog signals mediate its effects on blastemal cell proliferation. We propose that Wnt signaling orchestrates fin regeneration by defining organizing centers that instruct cellular behaviors of adjacent tissues.

The cuticular hydrocarbons profiles in the stingless bee Melipona marginata reflect task-related differences.

Science.gov (United States)

Ferreira-Caliman, M J; Nascimento, F S; Turatti, I C; Mateus, S; Lopes, N P; Zucchi, R

2010-07-01

Members of social insect colonies employ a large variety of chemical signals during their life. Of these, cuticular hydrocarbons are of primary importance for social insects since they allow for the recognition of conspecifics, nestmates and even members of different castes. The objectives of this study were (1) to characterize the variation of the chemical profiles among workers of the stingless bee Melipona marginata, and (2) to investigate the dependence of the chemical profiles on the age and on the behavior of the studied individuals. The results showed that cuticular hydrocarbon profiles of workers were composed of alkanes, alkenes and alkadienes that varied quantitatively and qualitatively according to function of workers in the colony. Copyright 2010 Elsevier Ltd. All rights reserved.

Regulation of mesenchymal stromal cells through fine tuning of canonical Wnt signaling

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Jin-A Kim

2015-05-01

Full Text Available Mesenchymal stromal cells (MSCs have been extensively utilized for various cell therapeutic trials, but the signals regulating their stromal function remain largely unclear. Here, we show that canonical Wnt signals distinctively regulate MSCs in a biphasic manner depending on signal intensity, i.e., MSCs exhibit proliferation and progenitor self-renewal under low Wnt/β-catenin signaling, whereas they exhibit enhanced osteogenic differentiation with priming to osteoblast-like lineages under high Wnt/β-catenin signaling. Moreover, low or high levels of β-catenin in MSCs distinctly regulated the hematopoietic support of MSCs to promote proliferation or the undifferentiated state of hematopoietic progenitors, respectively. A gene expression study demonstrated that different intracellular levels of β-catenin in MSCs induce distinct transcriptomic changes in subsets of genes belonging to different gene function categories. Different β-catenin levels also induced differences in intracellular levels of the β-catenin co-factors, Tcf-1 and Lef-1. Moreover, nano-scale mass spectrometry of proteins that co-precipitated with β-catenin revealed distinctive spectra of proteins selectively interacting with β-catenin at specific expression levels. Together, these results show that Wnt/β-catenin signals can coax distinct transcription milieu to induce different transcription profiles in MSCs depending on the signal intensity and that fine-tuning of the canonical Wnt signaling intensity can regulate the phase-specific functionality of MSCs.

WNT signaling controls expression of pro-apoptotic BOK and BAX in intestinal cancer

Energy Technology Data Exchange (ETDEWEB)

Zeilstra, Jurrit; Joosten, Sander P.J. [Department of Pathology, Academic Medical Center, University of Amsterdam (Netherlands); Wensveen, Felix M. [Department of Experimental Immunology, Academic Medical Center, Amsterdam (Netherlands); Dessing, Mark C.; Schuetze, Denise M. [Department of Pathology, Academic Medical Center, University of Amsterdam (Netherlands); Eldering, Eric [Department of Experimental Immunology, Academic Medical Center, Amsterdam (Netherlands); Spaargaren, Marcel [Department of Pathology, Academic Medical Center, University of Amsterdam (Netherlands); Pals, Steven T., E-mail: s.t.pals@amc.uva.nl [Department of Pathology, Academic Medical Center, University of Amsterdam (Netherlands)

2011-03-04

Research highlights: {yields} Intestinal adenomas initiated by aberrant activation of the WNT pathway displayed an increased sensitivity to apoptosis. {yields} Expression profiling of apoptosis-related genes in Apc{sup Min/+} mice revealed the differential expression of pro-apoptotic Bok and Bax. {yields} APC-mutant adenomatous crypts in FAP patients showed strongly increased BAX immunoreactivity. {yields} Blocking of {beta}-catenin/TCF-4-mediated signaling in colon cancer cells reduced the expression of BOK and BAX. -- Abstract: In a majority of cases, colorectal cancer is initiated by aberrant activation of the WNT signaling pathway. Mutation of the genes encoding the WNT signaling components adenomatous polyposis coli or {beta}-catenin causes constitutively active {beta}-catenin/TCF-mediated transcription, driving the transformation of intestinal crypts to cancer precursor lesions, called dysplastic aberrant crypt foci. Deregulated apoptosis is a hallmark of adenomatous colon tissue. However, the contribution of WNT signaling to this process is not fully understood. We addressed this role by analyzing the rate of epithelial apoptosis in aberrant crypts and adenomas of the Apc{sup Min/+} mouse model. In comparison with normal crypts and adenomas, aberrant crypts displayed a dramatically increased rate of apoptotic cell death. Expression profiling of apoptosis-related genes along the crypt-villus axis and in Apc mutant adenomas revealed increased expression of two pro-apoptotic Bcl-2 family members in intestinal adenomas, Bok and Bax. Analysis of the colon of familial adenomatous polyposis (FAP) patients along the crypt-to-surface axis, and of dysplastic crypts, corroborated this expression pattern. Disruption of {beta}-catenin/TCF-4-mediated signaling in the colorectal cancer cell line Ls174T significantly decreased BOK and BAX expression, confirming WNT-dependent regulation in intestinal epithelial cells. Our results suggest a feedback mechanism by which

WNT signaling controls expression of pro-apoptotic BOK and BAX in intestinal cancer

International Nuclear Information System (INIS)

Zeilstra, Jurrit; Joosten, Sander P.J.; Wensveen, Felix M.; Dessing, Mark C.; Schuetze, Denise M.; Eldering, Eric; Spaargaren, Marcel; Pals, Steven T.

2011-01-01

Research highlights: → Intestinal adenomas initiated by aberrant activation of the WNT pathway displayed an increased sensitivity to apoptosis. → Expression profiling of apoptosis-related genes in Apc Min/+ mice revealed the differential expression of pro-apoptotic Bok and Bax. → APC-mutant adenomatous crypts in FAP patients showed strongly increased BAX immunoreactivity. → Blocking of β-catenin/TCF-4-mediated signaling in colon cancer cells reduced the expression of BOK and BAX. -- Abstract: In a majority of cases, colorectal cancer is initiated by aberrant activation of the WNT signaling pathway. Mutation of the genes encoding the WNT signaling components adenomatous polyposis coli or β-catenin causes constitutively active β-catenin/TCF-mediated transcription, driving the transformation of intestinal crypts to cancer precursor lesions, called dysplastic aberrant crypt foci. Deregulated apoptosis is a hallmark of adenomatous colon tissue. However, the contribution of WNT signaling to this process is not fully understood. We addressed this role by analyzing the rate of epithelial apoptosis in aberrant crypts and adenomas of the Apc Min/+ mouse model. In comparison with normal crypts and adenomas, aberrant crypts displayed a dramatically increased rate of apoptotic cell death. Expression profiling of apoptosis-related genes along the crypt-villus axis and in Apc mutant adenomas revealed increased expression of two pro-apoptotic Bcl-2 family members in intestinal adenomas, Bok and Bax. Analysis of the colon of familial adenomatous polyposis (FAP) patients along the crypt-to-surface axis, and of dysplastic crypts, corroborated this expression pattern. Disruption of β-catenin/TCF-4-mediated signaling in the colorectal cancer cell line Ls174T significantly decreased BOK and BAX expression, confirming WNT-dependent regulation in intestinal epithelial cells. Our results suggest a feedback mechanism by which uncontrolled epithelial cell proliferation in the

Retroactive signaling in short signaling pathways.

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Jacques-Alexandre Sepulchre

Full Text Available In biochemical signaling pathways without explicit feedback connections, the core signal transduction is usually described as a one-way communication, going from upstream to downstream in a feedforward chain or network of covalent modification cycles. In this paper we explore the possibility of a new type of signaling called retroactive signaling, offered by the recently demonstrated property of retroactivity in signaling cascades. The possibility of retroactive signaling is analysed in the simplest case of the stationary states of a bicyclic cascade of signaling cycles. In this case, we work out the conditions for which variables of the upstream cycle are affected by a change of the total amount of protein in the downstream cycle, or by a variation of the phosphatase deactivating the same protein. Particularly, we predict the characteristic ranges of the downstream protein, or of the downstream phosphatase, for which a retroactive effect can be observed on the upstream cycle variables. Next, we extend the possibility of retroactive signaling in short but nonlinear signaling pathways involving a few covalent modification cycles.

Proteomic profiling in multiple sclerosis clinical courses reveals potential biomarkers of neurodegeneration.

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Maria Liguori

Full Text Available The aim of our project was to perform an exploratory analysis of the cerebrospinal fluid (CSF proteomic profiles of Multiple Sclerosis (MS patients, collected in different phases of their clinical course, in order to investigate the existence of peculiar profiles characterizing the different MS phenotypes. The study was carried out on 24 Clinically Isolated Syndrome (CIS, 16 Relapsing Remitting (RR MS, 11 Progressive (Pr MS patients. The CSF samples were analysed using the Matrix Assisted Laser Desorption Ionisation Time Of Flight (MALDI-TOF mass spectrometer in linear mode geometry and in delayed extraction mode (m/z range: 1000-25000 Da. Peak lists were imported for normalization and statistical analysis. CSF data were correlated with demographic, clinical and MRI parameters. The evaluation of MALDI-TOF spectra revealed 348 peak signals with relative intensity ≥ 1% in the study range. The peak intensity of the signals corresponding to Secretogranin II and Protein 7B2 were significantly upregulated in RRMS patients compared to PrMS (p<0.05, whereas the signals of Fibrinogen and Fibrinopeptide A were significantly downregulated in CIS compared to PrMS patients (p<0.04. Additionally, the intensity of the Tymosin β4 peak was the only signal to be significantly discriminated between the CIS and RRMS patients (p = 0.013. Although with caution due to the relatively small size of the study populations, and considering that not all the findings remained significant after adjustment for multiple comparisons, in our opinion this mass spectrometry evaluation confirms that this technique may provide useful and important information to improve our understanding of the complex pathogenesis of MS.

Dose profile monitoring with carbon ions by means of prompt-gamma measurements

Energy Technology Data Exchange (ETDEWEB)

Testa, E. [Institut de Physique Nucleaire de Lyon, Universite de Lyon, F-69003 Lyon, Universite Lyon 1 and IN2P3/CNRS, UMR 5822, F-69622 Villeurbanne (France)], E-mail: e.testa@ipnl.in2p3.fr; Bajard, M.; Chevallier, M.; Dauvergne, D.; Le Foulher, F. [Institut de Physique Nucleaire de Lyon, Universite de Lyon, F-69003 Lyon, Universite Lyon 1 and IN2P3/CNRS, UMR 5822, F-69622 Villeurbanne (France); Freud, N.; Letang, J.M. [Institut National des Sciences Appliquees de Lyon, Laboratoire de Controle Non-Destructif par Rayonnements Ionisants (France); Poizat, J.C.; Ray, C.; Testa, M. [Institut de Physique Nucleaire de Lyon, Universite de Lyon, F-69003 Lyon, Universite Lyon 1 and IN2P3/CNRS, UMR 5822, F-69622 Villeurbanne (France)

2009-03-15

A key point in the quality control of ion therapy is real-time monitoring and imaging of the dose delivered to the patient. Among the possible signals that can be used to make such a monitoring, prompt gamma-rays issued from nuclear fragmentation are possible candidates, provided the correlation between the emission profile and the primary beam range can be established. By means of simultaneous energy and time-of-flight discrimination, we could measure the longitudinal profile of the prompt gamma-rays emitted by 73 MeV/u carbon ions stopping inside a PMMA target. This technique allowed us to minimize the shielding against neutrons and scattered gamma rays, and to find a good correlation between the prompt-gamma profile and the ion range. This profile was studied as a function of the observation angle. By extrapolating our results to higher energies and realistic detection efficiencies, we showed that prompt gamma-ray measurements make it feasible to control in real time the longitudinal dose during ion therapy treatments.

Genome-wide expression profiling of complex regional pain syndrome.

Directory of Open Access Journals (Sweden)

Eun-Heui Jin

Full Text Available Complex regional pain syndrome (CRPS is a chronic, progressive, and devastating pain syndrome characterized by spontaneous pain, hyperalgesia, allodynia, altered skin temperature, and motor dysfunction. Although previous gene expression profiling studies have been conducted in animal pain models, there genome-wide expression profiling in the whole blood of CRPS patients has not been reported yet. Here, we successfully identified certain pain-related genes through genome-wide expression profiling in the blood from CRPS patients. We found that 80 genes were differentially expressed between 4 CRPS patients (2 CRPS I and 2 CRPS II and 5 controls (cut-off value: 1.5-fold change and p<0.05. Most of those genes were associated with signal transduction, developmental processes, cell structure and motility, and immunity and defense. The expression levels of major histocompatibility complex class I A subtype (HLA-A29.1, matrix metalloproteinase 9 (MMP9, alanine aminopeptidase N (ANPEP, l-histidine decarboxylase (HDC, granulocyte colony-stimulating factor 3 receptor (G-CSF3R, and signal transducer and activator of transcription 3 (STAT3 genes selected from the microarray were confirmed in 24 CRPS patients and 18 controls by quantitative reverse transcription-polymerase chain reaction (qRT-PCR. We focused on the MMP9 gene that, by qRT-PCR, showed a statistically significant difference in expression in CRPS patients compared to controls with the highest relative fold change (4.0±1.23 times and p = 1.4×10(-4. The up-regulation of MMP9 gene in the blood may be related to the pain progression in CRPS patients. Our findings, which offer a valuable contribution to the understanding of the differential gene expression in CRPS may help in the understanding of the pathophysiology of CRPS pain progression.

Determination of dynamic heights in the Bay of Bengal from XBT profiles and climatological salinities

Digital Repository Service at National Institute of Oceanography (India)

Ali, M.M.; Gopalakrishna, V.V.; Araligidad, N.; Reddy, G.V.; Salgaonkar, G.

errors compared to the DH signals are 3.8%, 2.7% and 2.6% for 200, 700 and 1000 dbar levels, respectively. The DHs relative to 700 dbar computed using the XBT temperature and climatological salinity profiles are compared with the SSH observations from...

Use of multitarget tyrosine kinase inhibitors to attenuate platelet-derived growth factor signalling in lung disease

Directory of Open Access Journals (Sweden)

Rana Kanaan

2017-10-01

Full Text Available Platelet-derived growth factors (PDGFs and their receptors (PDGFRs play a fundamental role in the embryonic development of the lung. Aberrant PDGF signalling has been documented convincingly in a large variety of pulmonary diseases, including idiopathic pulmonary arterial hypertension, lung cancer and lung fibrosis. Targeting PDGF signalling has been proven to be effective in these diseases. In clinical practice, the most effective way to block PDGF signalling is to inhibit the activity of the intracellular PDGFR kinases. Although the mechanism of action of such drugs is not specific for PDGF signalling, the medications have a broad therapeutic index that allows clinical use. The safety profile and therapeutic opportunities of these and future medications that target PDGFs and PDGFRs are reviewed.

Fast-scan, beam-profile monitor

International Nuclear Information System (INIS)

Waugh, A.F.

1977-01-01

A minimodular, data-acquisition system can be used to rapidly interrogate a 45-point matrix of beam-current sampling targets over the 3- x 12-in. rectangular, output beam cross section of a 50-A, neutral-beam ion source. This system, operating at a throughput rate of 12 μs per channel, can make several complete scans during the 10- to 25-ms-duration beam pulse. Data obtained are available in both analog and digital form. The analog signal is used to create an immediately interpretable CRT display of the beam-current density profile that shows how well the source is aimed. The digital data are held in buffer memory until transfer to a minicomputer for software processing and plotting

Gene expression profile change and growth inhibition in Drosophila larvae treated with azadirachtin.

Science.gov (United States)

Lai, Duo; Jin, Xiaoyong; Wang, Hao; Yuan, Mei; Xu, Hanhong

2014-09-20

Azadirachtin is a botanical insecticide that affects various biological processes. The effects of azadirachtin on the digital gene expression profile and growth inhibition in Drosophila larvae have not been investigated. In this study, we applied high-throughput sequencing technology to detect the differentially expressed genes of Drosophila larvae regulated by azadirachtin. A total of 15,322 genes were detected, and 28 genes were found to be significantly regulated by azadirachtin. Biological process and pathway analysis showed that azadirachtin affected starch and sucrose metabolism, defense response, signal transduction, instar larval or pupal development, and chemosensory behavior processes. The genes regulated by azadirachtin were mainly enriched in starch and sucrose metabolism. This study provided a general digital gene expression profile of dysregulated genes in response to azadirachtin and showed that azadirachtin provoked potent growth inhibitory effects in Drosophila larvae by regulating the genes of cuticular protein, amylase, and odorant-binding protein. Finally, we propose a potential mechanism underlying the dysregulation of the insulin/insulin-like growth factor signaling pathway by azadirachtin. Copyright © 2014 Elsevier B.V. All rights reserved.

Ethanol consumption and pineal melatonin daily profile in rats.

Science.gov (United States)

Peres, Rafael; do Amaral, Fernanda Gaspar; Madrigrano, Thiago Cardoso; Scialfa, Julieta Helena; Bordin, Silvana; Afeche, Solange Castro; Cipolla-Neto, José

2011-10-01

It is well known that melatonin participates in the regulation of many important physiological functions such as sleep-wakefulness cycle, motor coordination and neural plasticity, and cognition. However, as there are contradictory results regarding the melatonin production diurnal profile under alcohol consumption, the aim of this paper was to study the phenomenology and mechanisms of the putative modifications on the daily profile of melatonin production in rats submitted to chronic alcohol intake. The present results show that rats receiving 10% ethanol in drinking water for 35 days display an altered daily profile of melatonin production, with a phase delay and a reduction in the nocturnal peak. This can be partially explained by a loss of the daily rhythm and the 25% reduction in tryptophan hydroxylase activity and, mainly, by a phase delay in arylalkylamine N-acetyltransferase gene expression and a 70% reduction in its peak activity. Upstream in the melatonin synthesis pathway, the results showed that noradrenergic signaling is impaired as well, with a decrease in β1 and α1 adrenergic receptors' mRNA contents and in vitro sustained loss of noradrenergic-stimulated melatonin production by glands from alcohol-treated rats. Together, these results confirm the alterations in the daily melatonin profile of alcoholic rats and suggest the possible mechanisms for the observed melatonin synthesis modification. © 2011 The Authors, Addiction Biology © 2011 Society for the Study of Addiction.

Signaling Pathways Involved in Lunar Dust Induced Cytotoxicity

Science.gov (United States)

Zhang, Ye; Lam, Chiu-Wing; Scully, Robert R.; Williams, Kyle; Zalesak, Selina; Wu, Honglu; James, John T.

2014-01-01

The Moon's surface is covered by a layer of fine, reactive dust. Lunar dust contain about 1-2% of very fine dust (pathways involved in lunar dust-induced toxicity. F344 rats were exposed for 4 weeks (6h/d; 5d/wk) in nose-only inhalation chambers to concentrations of 0 (control air), 2.1, 6.1, 21, and 61 mg/m(exp 3) of lunar dust. Five rats per group were euthanized 1 day, 1 week, 1 month, and 3 months after the last inhalation exposure. The total RNAs were isolated from the blood or lung tissue after being lavaged, using the Qigen RNeasy kit. The Rat Fibrosis RT2 Profile PCR Array was used to profile the expression of 84 genes relevant to fibrosis. The genes with significant expression changes are identified and the gene expression data were further analyzed using IPA pathway analysis tool to determine the signaling pathways with significant changes.

Characterization of ubiquitination dependent dynamics in growth factor receptor signaling by quantitative proteomics

DEFF Research Database (Denmark)

Akimov, Vyacheslav; Rigbolt, Kristoffer T G; Nielsen, Mogens M

2011-01-01

Protein ubiquitination is a dynamic reversible post-translational modification that plays a key role in the regulation of numerous cellular processes including signal transduction, endocytosis, cell cycle control, DNA repair and gene transcription. The conjugation of the small protein ubiquitin...... investigating ubiquitination on a proteomic scale, mainly due to the inherited complexity and heterogeneity of ubiquitination. We describe here a quantitative proteomics strategy based on the specificity of ubiquitin binding domains (UBDs) and Stable Isotope Labeling by Amino acids in Cell culture (SILAC...... as ubiquitination-dependent events in signaling pathways. In addition to a detailed seven time-point profile of EGFR ubiquitination over 30 minutes of ligand stimulation, our data determined prominent involvement of Lysine-63 ubiquitin branching in EGF signaling. Furthermore, we found two centrosomal proteins, PCM1...

Validation of ocean color sensors using a profiling hyperspectral radiometer

Science.gov (United States)

Ondrusek, M. E.; Stengel, E.; Rella, M. A.; Goode, W.; Ladner, S.; Feinholz, M.

2014-05-01

Validation measurements of satellite ocean color sensors require in situ measurements that are accurate, repeatable and traceable enough to distinguish variability between in situ measurements and variability in the signal being observed on orbit. The utility of using a Satlantic Profiler II equipped with HyperOCR radiometers (Hyperpro) for validating ocean color sensors is tested by assessing the stability of the calibration coefficients and by comparing Hyperpro in situ measurements to other instruments and between different Hyperpros in a variety of water types. Calibration and characterization of the NOAA Satlantic Hyperpro instrument is described and concurrent measurements of water-leaving radiances conducted during cruises are presented between this profiling instrument and other profiling, above-water and moored instruments. The moored optical instruments are the US operated Marine Optical BuoY (MOBY) and the French operated Boussole Buoy. In addition, Satlantic processing versions are described in terms of accuracy and consistency. A new multi-cast approach is compared to the most commonly used single cast method. Analysis comparisons are conducted in turbid and blue water conditions. Examples of validation matchups with VIIRS ocean color data are presented. With careful data collection and analysis, the Satlantic Hyperpro profiling radiometer has proven to be a reliable and consistent tool for satellite ocean color validation.

Indirect macrophage responses to ionizing radiation: implications for genotype-dependent bystander signaling.

Science.gov (United States)

Coates, Philip J; Rundle, Jana K; Lorimore, Sally A; Wright, Eric G

2008-01-15

In addition to the directly mutagenic effects of energy deposition in DNA, ionizing radiation is associated with a variety of untargeted and delayed effects that result in ongoing bone marrow damage. Delayed effects are genotype dependent with CBA/Ca mice, but not C57BL/6 mice, susceptible to the induction of damage and also radiation-induced acute myeloid leukemia. Because macrophages are a potential source of ongoing damaging signals, we have determined their gene expression profiles and we show that bone marrow-derived macrophages show widely different intrinsic expression patterns. The profiles classify macrophages derived from CBA/Ca mice as M1-like (pro-inflammatory) and those from C57BL/6 mice as M2-like (anti-inflammatory); measurements of NOS2 and arginase activity in normal bone marrow macrophages confirm these findings. After irradiation in vivo, but not in vitro, C57BL/6 macrophages show a reduction in NOS2 and an increase in arginase activities, indicating a further M2 response, whereas CBA/Ca macrophages retain an M1 phenotype. Activation of specific signal transducer and activator of transcription signaling pathways in irradiated hemopoietic tissues supports these observations. The data indicate that macrophage activation is not a direct effect of radiation but a tissue response, secondary to the initial radiation exposure, and have important implications for understanding genotype-dependent responses and the mechanisms of the hemotoxic and leukemogenic consequences of radiation exposure.

The solar neighborhood. XXXIV. A search for planets orbiting nearby M dwarfs using astrometry

International Nuclear Information System (INIS)

Lurie, John C.; Henry, Todd J.; Ianna, Philip A.; Jao, Wei-Chun; Quinn, Samuel N.; Winters, Jennifer G.; Koerner, David W.; Riedel, Adric R.; Subasavage, John P.

2014-01-01

Astrometric measurements are presented for seven nearby stars with previously detected planets: six M dwarfs (GJ 317, GJ 667C, GJ 581, GJ 849, GJ 876, and GJ 1214) and one K dwarf (BD-10 -3166). Measurements are also presented for six additional nearby M dwarfs without known planets, but which are more favorable to astrometric detections of low mass companions, as well as three binary systems for which we provide astrometric orbit solutions. Observations have baselines of 3 to 13 years, and were made as part of the RECONS long-term astrometry and photometry program at the CTIO/SMARTS 0.9 m telescope. We provide trigonometric parallaxes and proper motions for all 16 systems, and perform an extensive analysis of the astrometric residuals to determine the minimum detectable companion mass for the 12 M dwarfs not having close stellar secondaries. For the six M dwarfs with known planets, we are not sensitive to planets, but can rule out the presence of all but the least massive brown dwarfs at periods of 2–12 years. For the six more astrometrically favorable M dwarfs, we conclude that none have brown dwarf companions, and are sensitive to companions with masses as low as 1 M Jup for periods longer than two years. In particular, we conclude that Proxima Centauri has no Jovian companions at orbital periods of 2–12 years. These results complement previously published M dwarf planet occurrence rates by providing astrometrically determined upper mass limits on potential super-Jupiter companions at orbits of two years and longer. As part of a continuing survey, these results are consistent with the paucity of super-Jupiter and brown dwarf companions we find among the over 250 red dwarfs within 25 pc observed longer than five years in our astrometric program.

The solar neighborhood. XXXIV. A search for planets orbiting nearby M dwarfs using astrometry

Energy Technology Data Exchange (ETDEWEB)

Lurie, John C. [Department of Astronomy, University of Washington, Seattle, WA 98195 (United States); Henry, Todd J.; Ianna, Philip A. [RECONS Institute, Chambersburg, PA 17201 (United States); Jao, Wei-Chun; Quinn, Samuel N.; Winters, Jennifer G. [Department of Physics and Astronomy, Georgia State University, Atlanta, GA 30302 (United States); Koerner, David W. [Department of Physics and Astronomy, Northern Arizona University, Flagstaff, AZ 86011 (United States); Riedel, Adric R. [Department of Astrophysics, American Museum of Natural History, New York, NY 10034 (United States); Subasavage, John P., E-mail: lurie@uw.edu [United States Naval Observatory, Flagstaff, AZ 86001 (United States)

2014-11-01

Astrometric measurements are presented for seven nearby stars with previously detected planets: six M dwarfs (GJ 317, GJ 667C, GJ 581, GJ 849, GJ 876, and GJ 1214) and one K dwarf (BD-10 -3166). Measurements are also presented for six additional nearby M dwarfs without known planets, but which are more favorable to astrometric detections of low mass companions, as well as three binary systems for which we provide astrometric orbit solutions. Observations have baselines of 3 to 13 years, and were made as part of the RECONS long-term astrometry and photometry program at the CTIO/SMARTS 0.9 m telescope. We provide trigonometric parallaxes and proper motions for all 16 systems, and perform an extensive analysis of the astrometric residuals to determine the minimum detectable companion mass for the 12 M dwarfs not having close stellar secondaries. For the six M dwarfs with known planets, we are not sensitive to planets, but can rule out the presence of all but the least massive brown dwarfs at periods of 2–12 years. For the six more astrometrically favorable M dwarfs, we conclude that none have brown dwarf companions, and are sensitive to companions with masses as low as 1 M{sub Jup} for periods longer than two years. In particular, we conclude that Proxima Centauri has no Jovian companions at orbital periods of 2–12 years. These results complement previously published M dwarf planet occurrence rates by providing astrometrically determined upper mass limits on potential super-Jupiter companions at orbits of two years and longer. As part of a continuing survey, these results are consistent with the paucity of super-Jupiter and brown dwarf companions we find among the over 250 red dwarfs within 25 pc observed longer than five years in our astrometric program.

Multiple intracellular signaling pathways orchestrate adipocytic differentiation of human bone marrow stromal stem cells

DEFF Research Database (Denmark)

Ayesh Hafez Ali, Dalia; Abuelreich, Sarah; Alkeraishan, Nora

2018-01-01

during adipocyte differentiation of human bone marrow stromal (mesenchymal) stem cells (hMSCs) and identified 2,589 up-regulated and 2,583 down-regulated mRNA transcripts. Pathway analysis on the up-regulated gene list untraveled enrichment in multiple signaling pathways including insulin receptor......Bone marrow adipocyte formation plays a role in bone homeostasis and whole body energy metabolism. However, the transcriptional landscape and signaling pathways associated with adipocyte lineage commitment and maturation are not fully delineated. Thus, we performed global gene expression profiling...... signaling, focal Adhesion, metapathway biotransformation, a number of metabolic pathways e.g. selenium metabolism, Benzo(a)pyrene metabolism, fatty acid, triacylglycerol, ketone body metabolism, tryptophan metabolism, and catalytic cycle of mammalian flavin-containing monooxygenase (FMOs). On the other hand...

Distinct gene expression profiles in ovarian cancer linked to Lynch syndrome

DEFF Research Database (Denmark)

Jönsson, Jenny-Maria; Bartuma, Katarina; Dominguez-Valentin, Mev

2014-01-01

Ovarian cancer linked to Lynch syndrome represents a rare subset that typically presents at young age as early-stage tumors with an overrepresentation of endometrioid and clear cell histologies. We investigated the molecular profiles of Lynch syndrome-associated and sporadic ovarian cancer...... with the aim to identify key discriminators and central tumorigenic mechanisms in hereditary ovarian cancer. Global gene expression profiling using whole-genome c-DNA-mediated Annealing, Selection, extension, and Ligation was applied to 48 histopathologically matched Lynch syndrome-associated and sporadic...... ovarian cancers. Lynch syndrome-associated and sporadic ovarian cancers differed by 349 significantly deregulated genes, including PTPRH, BIRC3, SHH and TNFRSF6B. The genes involved were predominantly linked to cell growth, proliferation, and cell-to-cell signaling and interaction. When stratified...

A high resolution wire scanner beam profile monitor with a microprocessor data acquisition system

International Nuclear Information System (INIS)

Cutler, R.I.; Mohr, D.L.; Whittaker, J.K.; Yoder, N.R.

1983-01-01

A beam profile monitor has been constructed for the NBS-LANL Racetrack Microtron. The monitor consists of two perpendicular 30 μm diameter carbon wires that are driven through an electron beam by a pneumatic actuator. A long-lifetime, electroformed nickel bellows is used for the linear-motion vacuum feedthrough. Secondary emission current from the wires and a signal from a transducer measuring the position of the wires are simultaneously digitized by a microprocessor to yield beam current density profiles in two dimensions. The wire scanner is designed for use with both pulsed and cw beams

Finding sensory profilers amongst red wine composition: a novel nationwide approach

OpenAIRE

Coutinho, A. J.; Ávila, P.; Silva, J. M.

2015-01-01

The objective of this work was to verify the signaling/profiling potential of wine compounds and the physicochemical and bioclimatic winerelated measurements on a nationwide sensory scale of red wine typicality. Color tonality evolved from violet-purple in cooler northern regions to ruby-garnet in hotter southern regions. Acidity and astringency were enhanced from south to north. Conversely, alcohol and viscosity progressed southward. Bitterness was primarily affected by inland-coastal influe...

High-density transcriptional initiation signals underline genomic islands in bacteria.

Directory of Open Access Journals (Sweden)

Qianli Huang

Full Text Available Genomic islands (GIs, frequently associated with the pathogenicity of bacteria and having a substantial influence on bacterial evolution, are groups of "alien" elements which probably undergo special temporal-spatial regulation in the host genome. Are there particular hallmark transcriptional signals for these "exotic" regions? We here explore the potential transcriptional signals that underline the GIs beyond the conventional views on basic sequence composition, such as codon usage and GC property bias. It showed that there is a significant enrichment of the transcription start positions (TSPs in the GI regions compared to the whole genome of Salmonella enterica and Escherichia coli. There was up to a four-fold increase for the 70% GIs, implying high-density TSPs profile can potentially differentiate the GI regions. Based on this feature, we developed a new sliding window method GIST, Genomic-island Identification by Signals of Transcription, to identify these regions. Subsequently, we compared the known GI-associated features of the GIs detected by GIST and by the existing method Islandviewer to those of the whole genome. Our method demonstrates high sensitivity in detecting GIs harboring genes with biased GI-like function, preferred subcellular localization, skewed GC property, shorter gene length and biased "non-optimal" codon usage. The special transcriptional signals discovered here may contribute to the coordinate expression regulation of foreign genes. Finally, by using GIST, we detected many interesting GIs in the 2011 German E. coli O104:H4 outbreak strain TY-2482, including the microcin H47 system and gene cluster ycgXEFZ-ymgABC that activates the production of biofilm matrix. The aforesaid findings highlight the power of GIST to predict GIs with distinct intrinsic features to the genome. The heterogeneity of cumulative TSPs profiles may not only be a better identity for "alien" regions, but also provide hints to the special

Lidar sprectroscopy instrument (LISSI): An infrastructure facility for chemical aerosol profiling at the University of Hertfordshire

Science.gov (United States)

Tesche, Matthias; Tatarov, Boyan; Noh, Youngmin; Müller, Detlef

2018-04-01

The lidar development at the University of Hertfordshire explores the feasibility of using Raman backscattering for chemical aerosol profiling. This paper provides an overview of the new facility. A high-power Nd:YAG/OPO setup is used to excite Raman backscattering at a wide range of wavelengths. The receiver combines a spectrometer with a 32-channel detector or an ICCD camera to resolve Raman signals of various chemical compounds. The new facility will open new avenues for chemical profiling of aerosol pollution from measurements of Raman scattering by selected chemical compounds, provide data that allow to close the gap between optical and microphysical aerosol profiling with lidar and enables connecting lidar measurements to parameters used in atmospheric modelling.

WFC3/UVIS image skew

Science.gov (United States)

Petro, Larry

2009-07-01

This proposal will provide an independent check of the skew in the ACS astrometric catalog of Omega Cen stars, using exposures taken in a 45-deg range of telescope roll. The roll sequence will also provide a test for orbital variation of skew and field angle dependent PSF variations. The astrometric catalog of Omega Cen, improved for a skew, will be used to derive the geometric distorion to all UVIS filters, which has preliminarily been determined from F606W images and an astrometric catalog of 47 Tuc.

Determination of the High Frequency Inductance Profile of Surface Mounted Permanent Magnet Synchronous Motors

DEFF Research Database (Denmark)

Lu, Kaiyuan; Rasmussen, Peter Omand; Ritchie, Ewen

2008-01-01

) synchronous motors. This paper presents an AC+DC measurement method for determination of the d-axis and q-axis high frequency inductance profiles of SMPM synchronous motors. This method uses DC currents to set a desired magnetic working point on the motor laminations, and then superimpose balanced small AC......Accurate knowledge of the high frequency inductance profile plays an important role in many designs of sensorless controllers for Surface inductance. A special algorithm is used to decouple the cross-coupling effects between the d-axis and the q-axis, which allows Mounted Permanent Magnet (SMPM...... signals to measure the incremental a separate determination of the d, q inductance profiles as functions of the d, q currents. Experimental results on a commercial SMPM motor using the proposed method are presented in this paper....

Ocular Toxicity Profile of ST-162 and ST-168 as Novel Bifunctional MEK/PI3K Inhibitors.

Science.gov (United States)

Smith, Andrew; Pawar, Mercy; Van Dort, Marcian E; Galbán, Stefanie; Welton, Amanda R; Thurber, Greg M; Ross, Brian D; Besirli, Cagri G

2018-04-30

ST-162 and ST-168 are small-molecule bifunctional inhibitors of MEK and PI3K signaling pathways that are being developed as novel antitumor agents. Previous small-molecule and biologic MEK inhibitors demonstrated ocular toxicity events that were dose limiting in clinical studies. We evaluated in vitro and in vivo ocular toxicity profiles of ST-162 and ST-168. Photoreceptor cell line 661W and adult retinal pigment epithelium cell line ARPE-19 were treated with increasing concentrations of bifunctional inhibitors. Western blots, cell viability, and caspase activity assays were performed to evaluate MEK and PI3K inhibition and dose-dependent in vitro toxicity, and compared with monotherapy. In vivo toxicity profile was assessed by intravitreal injection of ST-162 and ST-168 in Dutch-Belted rabbits, followed by ocular examination and histological analysis of enucleated eyes. Retinal cell lines treated with ST-162 or ST-168 exhibited dose-dependent inhibition of MEK and PI3K signaling. Compared with inhibition by monotherapies and their combinations, bifunctional inhibitors demonstrated reduced cell death and caspase activity. In vivo, both bifunctional inhibitors exhibited a more favorable toxicity profile when compared with MEK inhibitor PD0325901. Novel MEK and PI3K bifunctional inhibitors ST-162 and ST-168 demonstrate favorable in vitro and in vivo ocular toxicity profiles, supporting their further development as potential therapeutic agents targeting multiple aggressive tumors.

Profiling Saturn's rings by radio occultation

International Nuclear Information System (INIS)

Marouf, E.A.; Tyler, G.L.; Rosen, P.A.

1986-01-01

The development of reconstruction algorithms that correct for diffraction effects in radio occultation measurements is described. The reciprocal Fresnel transform relationship between the complex amplitude of the observed coherent signal and the complex microwave transmittance of the rings is derived using the Huygens-Fresnel formulation of the diffraction problem. The effects of the finite data segment width, the uncertainties in the Fresnel scale, systematic phase errors in the kernel of the inverse transform, reference oscillator instabilities, and random noise measurements on the resolution of the reconstructed transmittance are analyzed. Examples of reconstructed opacity profiles for some regions of Saturn's rings derived by applying the reconstruction theory to Voyager 1 at Saturn data are presented. 35 references

Advances in the density profile evaluation from broadband reflectometry on ASDEX upgrade

International Nuclear Information System (INIS)

Varela, P.; Manso, M.; Conway, G.

2001-01-01

The high temporal and spatial resolutions provided by broadband microwave reflectometry make it an attractive diagnostic technique to measure the density profile in fusion plasmas. However, great problems have been encountered due to the plasma turbulence that difficult, and sometimes prevent, the routine evaluation of density profiles. Advanced broadband systems employ ultra-fast sweeping in an attempt to perform the profile measurement in a time window smaller than the temporal scale of the main plasma fluctuations but this is not sufficient. Indeed, abrupt plasma movements and/or spatial turbulence always affect the reflectometry signals, as shown by numerical studies (with both one- and two-dimensional codes), for the case of ultra-fast sweeping and pulse radar systems. For this reason not only the system performance is important but the software tools also play a crucial role for reflectometry to become a standard density profile diagnostic. Here we present the recent advances towards automatic evaluation of density profiles from broadband reflectometry on ASDEX Upgrade. For regimes with moderate levels of plasma turbulence, density profiles are obtained from single reflectometry samples (temporal resolution of 20 μs), and for higher turbulence levels average profiles are obtained from bursts of ultra-fast (20 μs), closely spaced (10 μs) sweeps. This method improved the accuracy and reliability of density profiles, which can now be obtained automatically from the edge to the bulk plasma - using reflectometry alone - in most plasma regimes of ASDEX Upgrade. New data processing capability has been implemented that allows the profiles to be available to the end-users 10-12 minutes after each discharge. These developments were possible due to the flexibility and high performance of the control and data acquisition systems and to the large number of measurements that can be performed with the diagnostic during each discharge (720 profiles both on the low- and

miR-155, identified as anti-metastatic by global miRNA profiling of a metastasis model, inhibits cancer cell extravasation and colonization in vivo and causes significant signaling alterations

DEFF Research Database (Denmark)

Gravgaard, Karina Hedelund; Terp, Mikkel G; Lund, Rikke R

2015-01-01

To gain insight into miRNA regulation in metastasis formation, we used a metastasis cell line model that allows investigation of extravasation and colonization of circulating cancer cells to lungs in mice. Using global miRNA profiling, 28 miRNAs were found to exhibit significantly altered...... proliferation or apoptosis in established lung tumors. To identify proteins regulated by miR-155 and thus delineate its function in our cell model, we compared the proteome of xenograft tumors derived from miR-155-overexpressing CL16 cells and CL16 control cells using mass spectrometry-based proteomics. >4......,000 proteins were identified, of which 92 were consistently differentially expressed. Network analysis revealed that the altered proteins were associated with cellular functions such as movement, growth and survival as well as cell-to-cell signaling and interaction. Downregulation of the three metastasis...

Dynamic mesolimbic dopamine signaling during action sequence learning and expectation violation

Science.gov (United States)

Collins, Anne L.; Greenfield, Venuz Y.; Bye, Jeffrey K.; Linker, Kay E.; Wang, Alice S.; Wassum, Kate M.

2016-01-01

Prolonged mesolimbic dopamine concentration changes have been detected during spatial navigation, but little is known about the conditions that engender this signaling profile or how it develops with learning. To address this, we monitored dopamine concentration changes in the nucleus accumbens core of rats throughout acquisition and performance of an instrumental action sequence task. Prolonged dopamine concentration changes were detected that ramped up as rats executed each action sequence and declined after earned reward collection. With learning, dopamine concentration began to rise increasingly earlier in the execution of the sequence and ultimately backpropagated away from stereotyped sequence actions, becoming only transiently elevated by the most distal and unexpected reward predictor. Action sequence-related dopamine signaling was reactivated in well-trained rats if they became disengaged in the task and in response to an unexpected change in the value, but not identity of the earned reward. Throughout training and test, dopamine signaling correlated with sequence performance. These results suggest that action sequences can engender a prolonged mode of dopamine signaling in the nucleus accumbens core and that such signaling relates to elements of the motivation underlying sequence execution and is dynamic with learning, overtraining and violations in reward expectation. PMID:26869075

Pathophysiology of Glucocorticoid Signaling.

Science.gov (United States)

Vitellius, Géraldine; Trabado, Séverine; Bouligand, Jérôme; Delemer, Brigitte; Lombès, Marc

2018-06-01

Glucocorticoids (GC), such as cortisol or dexamethasone, control various physiological functions, notably those involved in development, metabolism, inflammatory processes and stress, and exert most of their effects upon binding to the glucocorticoid receptor (GR, encoded by NR3C1 gene). GC signaling follows several consecutive steps leading to target gene transactivation, including ligand binding, nuclear translocation of ligand-activated GR complexes, DNA binding, coactivator interaction and recruitment of functional transcriptional machinery. Any step may be impaired and may account for altered GC signaling. Partial or generalized glucocorticoid resistance syndrome may result in a reduced level of functional GR, a decreased hormone affinity and binding, a defect in nuclear GR translocation, a decrease or lack of DNA binding and/or post-transcriptional GR modifications. To date, 26 loss-of-function NR3C1 mutations have been reported in the context of hypertension, hirsutism, adrenal hyperplasia or metabolic disorders. These clinical signs are generally associated with biological features including hypercortisolism without negative regulatory feedback loop on the hypothalamic-pituitary-adrenal axis. Patients had often low plasma aldosterone and renin levels despite hypertension. Only one GR gain-of-function mutation has been described associating Cushing's syndrome phenotype with normal urinary-free cortisol. Some GR polymorphisms (ER22/23EK, GR-9β) have been linked to glucocorticoid resistance and a healthier metabolic profile whereas some others seemed to be associated with GC hypersensitivity (N363S, BclI), increasing cardiovascular risk (diabetes type 2, visceral obesity). This review focuses on the earlier findings on the pathophysiology of GR signaling and presents criteria facilitating identification of novel NR3C1 mutations in selected patients. Copyright © 2018 Elsevier Masson SAS. All rights reserved.

Vismodegib, an antagonist of hedgehog signaling, directly alters taste molecular signaling in taste buds

International Nuclear Information System (INIS)

Yang, Hyekyung; Cong, Wei-na; Yoon, Jeong Seon; Egan, Josephine M

2015-01-01

Vismodegib, a highly selective inhibitor of hedgehog (Hh) pathway, is an approved treatment for basal-cell carcinoma. Patients on treatment with vismodegib often report profound alterations in taste sensation. The cellular mechanisms underlying the alterations have not been studied. Sonic Hh (Shh) signaling is required for cell growth and differentiation. In taste buds, Shh is exclusively expressed in type IV taste cells, which are undifferentiated basal cells and the precursors of the three types of taste sensing cells. Thus, we investigated if vismodegib has an inhibitory effect on taste cell turnover because of its known effects on Hh signaling. We gavaged C57BL/6J male mice daily with either vehicle or 30 mg/kg vismodegib for 15 weeks. The gustatory behavior and immunohistochemical profile of taste cells were examined. Vismodegib-treated mice showed decreased growth rate and behavioral responsivity to sweet and bitter stimuli, compared to vehicle-treated mice. We found that vismodegib-treated mice had significant reductions in taste bud size and numbers of taste cells per taste bud. Additionally, vismodegib treatment resulted in decreased numbers of Ki67- and Shh-expressing cells in taste buds. The numbers of phospholipase Cβ2- and α-gustducin-expressing cells, which contain biochemical machinery for sweet and bitter sensing, were reduced in vismodegib-treated mice. Furthermore, vismodegib treatment resulted in reduction in numbers of T1R3, glucagon-like peptide-1, and glucagon-expressing cells, which are known to modulate sweet taste sensitivity. These results suggest that inhibition of Shh signaling by vismodegib treatment directly results in alteration of taste due to local effects in taste buds

Heat stress differentially modifies ethylene biosynthesis and signaling in pea floral and fruit tissues.

Science.gov (United States)

Savada, Raghavendra P; Ozga, Jocelyn A; Jayasinghege, Charitha P A; Waduthanthri, Kosala D; Reinecke, Dennis M

2017-10-01

Ethylene biosynthesis is regulated in reproductive tissues in response to heat stress in a manner to optimize resource allocation to pollinated fruits with developing seeds. High temperatures during reproductive development are particularly detrimental to crop fruit/seed production. Ethylene plays vital roles in plant development and abiotic stress responses; however, little is known about ethylene's role in reproductive tissues during development under heat stress. We assessed ethylene biosynthesis and signaling regulation within the reproductive and associated tissues of pea during the developmental phase that sets the stage for fruit-set and seed development under normal and heat-stress conditions. The transcript abundance profiles of PsACS [encode enzymes that convert S-adenosyl-L-methionine to 1-aminocyclopropane-1-carboxylic acid (ACC)] and PsACO (encode enzymes that convert ACC to ethylene), and ethylene evolution were developmentally, environmentally, and tissue-specifically regulated in the floral/fruit/pedicel tissues of pea. Higher transcript abundance of PsACS and PsACO in the ovaries, and PsACO in the pedicels was correlated with higher ethylene evolution and ovary senescence and pedicel abscission in fruits that were not pollinated under control temperature conditions. Under heat-stress conditions, up-regulation of ethylene biosynthesis gene expression in pre-pollinated ovaries was also associated with higher ethylene evolution and lower retention of these fruits. Following successful pollination and ovule fertilization, heat-stress modified PsACS and PsACO transcript profiles in a manner that suppressed ovary ethylene evolution. The normal ethylene burst in the stigma/style and petals following pollination was also suppressed by heat-stress. Transcript abundance profiles of ethylene receptor and signaling-related genes acted as qualitative markers of tissue ethylene signaling events. These data support the hypothesis that ethylene biosynthesis is

A look inside the San Andreas Fault at Parkfield through vertical seismic profiling.

Science.gov (United States)

Chavarria, J Andres; Malin, Peter; Catchings, Rufus D; Shalev, Eylon

2003-12-05

The San Andreas Fault Observatory at Depth pilot hole is located on the southwestern side of the Parkfield San Andreas fault. This observatory includes a vertical seismic profiling (VSP) array. VSP seismograms from nearby microearthquakes contain signals between the P and S waves. These signals may be P and S waves scattered by the local geologic structure. The collected scattering points form planar surfaces that we interpret as the San Andreas fault and four other secondary faults. The scattering process includes conversions between P and S waves, the strengths of which suggest large contrasts in material properties, possibly indicating the presence of cracks or fluids.

Hypothalamus transcriptome profile suggests an anorexia-cachexia syndrome in the anx/anx mouse model.

Science.gov (United States)

Mercader, Josep Maria; Lozano, Juan José; Sumoy, Lauro; Dierssen, Mara; Visa, Joana; Gratacòs, Mònica; Estivill, Xavier

2008-11-12

The anx/anx mouse displays poor appetite and lean appearance and is considered a good model for the study of anorexia nervosa. To identify new genes involved in feeding behavior and body weight regulation we performed an expression profiling in the hypothalamus of the anx/anx mice. Using commercial microarrays we detected 156 differentially expressed genes and validated 92 of those using TaqMan low-density arrays. The expression of a set of 87 candidate genes selected based on literature evidences was also quantified by TaqMan low-density arrays. Our results showed enrichment in deregulated genes involved in cell death, cell morphology, and cancer, as well as an alteration of several signaling circuits involved in energy balance including neuropeptide Y and melanocortin signaling. The expression profile along with the phenotype led us to conclude that anx/anx mice resemble the anorexia-cachexia syndrome typically observed in cancer, infection with human immunodeficiency virus or chronic diseases, rather than starvation, and that anx/anx mice could be considered a good model for the treatment and investigation of this condition.

Photothermal depth profiling: Comparison between genetic algorithms and thermal wave backscattering (abstract)

Science.gov (United States)

Li Voti, R.; Sibilia, C.; Bertolotti, M.

2003-01-01

Photothermal depth profiling has been the subject of many papers in the last years. Inverse problems on different kinds of materials have been identified, classified, and solved. A first classification has been done according to the type of depth profile: the physical quantity to be reconstructed is the optical absorption in the problems of type I, the thermal effusivity for type II, and both of them for type III. Another classification may be done depending on the time scale of the pump beam heating (frequency scan, time scan), or on its geometrical symmetry (one- or three-dimensional). In this work we want to discuss two different approaches, the genetic algorithms (GA) [R. Li Voti, C. Melchiorri, C. Sibilia, and M. Bertolotti, Anal. Sci. 17, 410 (2001); R. Li Voti, Proceedings, IV Int. Workshop on Advances in Signal Processing for Non-Destructive Evaluation of Materials, Quebec, August 2001] and the thermal wave backscattering (TWBS) [R. Li Voti, G. L. Liakhou, S. Paoloni, C. Sibilia, and M. Bertolotti, Anal. Sci. 17, 414 (2001); J. C. Krapez and R. Li Voti, Anal. Sci. 17, 417 (2001)], showing their performances and limits of validity for several kinds of photothermal depth profiling problems: The two approaches are based on different mechanisms and exhibit obviously different features. GA may be implemented on the exact heat diffusion equation as follows: one chromosome is associated to each profile. The genetic evolution of the chromosome allows one to find better and better profiles, eventually converging towards the solution of the inverse problem. The main advantage is that GA may be applied to any arbitrary profile, but several disadvantages exist; for example, the complexity of the algorithm, the slow convergence, and consequently the computer time consumed. On the contrary, TWBS uses a simplified theoretical model of heat diffusion in inhomogeneous materials. According to such a model, the photothermal signal depends linearly on the thermal effusivity

Simultaneous real-time control of the current and pressure profiles in JET: experiments and modelling

Energy Technology Data Exchange (ETDEWEB)

Mazon, D.; Laborde, L.; Litaudon, X.; Moreau, D.; Zabeo, L.; Joffrin, E. [Association Euratom-CEA Cadarache (DSM/DRFC), 13 - Saint-Paul-lez-Durance (France). Dept. de Recherches sur la Fusion Controlee; Murari, A. [Consorzio RFX Association Euratom-ENEA, Padova (Italy); Ariola, M.; Albanese, R.; Tommasi, G. de; Pironti, A. [Association Euratom-ENEA, CREATE, Napoly (Italy); Moreau, D. [EFDA-JET CSU, Culham Science Centre, Abingdon, OX (United Kingdom); Tala, T. [Euratom-Tekes Association, VTT Processes (Finland); Crisanti, F.; Pericoli-Ridolfini, V.; Tuccillo, A. [Association Euratom-ENEA, C.R. Frascati (Italy); Baar, M. de; Vries, P. de [Euratom-FOM Association, TEC Cluster, Nieuwegein (Netherlands); De la Luna, E. [Euratom-Ciemat Association (Spain); Felton, R.; Corrigan, G. [Euratom-UKAEA Association, Culham Science Centre, Abingdon (United Kingdom)

2004-07-01

Real-time control of the plasma profiles (current density, pressure and flow) is one of the major issues for sustaining internal transport barriers (ITB) in a high performance plasma, with a large bootstrap current fraction. We have recently investigated the experimental and numerical aspects of the simultaneous control of the current and pressure profiles in JET ITB discharges. The current density and the electron temperature were successfully controlled via the safety factor profile (or via its inverse the tau-profile) and the {rho}{sup *}{sub Te} profile respectively. The results of these new studies are presented. With only a limited number of actuators, the technique aims at minimizing an integral square error signal which combines the 2 profiles, rather than attempting to control plasma parameters at some given radii with great precision. The resulting fuzziness of the control scheme allows the plasma to relax towards a physically accessible non-linear state which may not be accurately known in advance, but is close enough to the requested one to provide the required plasma performance. Closed loop experiments have allow to reach different target q and {rho}{sup *}{sub Te} profiles, and to some degree, to displace the region of maximum electron temperature gradient. The control has also shown some robustness in front of rapid transients.

Microarcsecond relative astrometry from the ground with a diffractive pupil

Energy Technology Data Exchange (ETDEWEB)

Ammons, S M; Bendek, E; Guyon, O

2011-09-08

The practical use of astrometry to detect exoplanets via the reflex motion of the parent star depends critically on the elimination of systematic floors in imaging systems. In the diffractive pupil technique proposed for space-based detection of exo-earths, extended diffraction spikes generated by a dotted primary mirror are referenced against a wide-field grid of background stars to calibrate changing optical distortion and achieve microarcsecond astrometric precision on bright targets (Guyon et al. 2010). We describe applications of this concept to ground-based uncrowded astrometry using a diffractive, monopupil telescope and a wide-field camera to image as many as {approx}4000 background reference stars. Final relative astrometric precision is limited by differential tip/tilt jitter caused by high altitude layers of turbulence. A diffractive 3-meter telescope is capable of reaching {approx}35 {micro}as relative astrometric error per coordinate perpendicular to the zenith vector in three hours on a bright target star (I < 10) in fields of moderate stellar density ({approx}40 stars arcmin{sup -2} with I < 23). Smaller diffractive apertures (D < 1 m) can achieve 100-200 {micro}as performance with the same stellar density and exposure time and a large telescope (6.5-10 m) could achieve as low as 10 {micro}as, nearly an order of magnitude better than current space-based facilities. The diffractive pupil enables the use of larger fields of view through calibration of changing optical distortion as well as brighter target stars (V < 6) by preventing star saturation. Permitting the sky to naturally roll to average signals over many thousands of pixels can mitigate the effects of detector imperfections.

Dopant profiling based on scanning electron and helium ion microscopy

Energy Technology Data Exchange (ETDEWEB)

Chee, Augustus K.W., E-mail: kwac2@cam.ac.uk [Centre for Advanced Photonics and Electronics, Electrical Engineering Division, Department of Engineering, University of Cambridge, 9 JJ Thomson Avenue, Cambridge CB3 0FA (United Kingdom); Boden, Stuart A. [University of Southampton, Electronics and Computer Science, Highfield, Southampton SO17 1BJ (United Kingdom)

2016-02-15

In this paper, we evaluate and compare doping contrast generated inside the scanning electron microscope (SEM) and scanning helium ion microscope (SHIM). Specialised energy-filtering techniques are often required to produce strong doping contrast to map donor distributions using the secondary electron (SE) signal in the SEM. However, strong doping contrast can be obtained from n-type regions in the SHIM, even without energy-filtering. This SHIM technique is more sensitive than the SEM to donor density changes above its sensitivity threshold, i.e. of the order of 10{sup 16} or 10{sup 17} donors cm{sup −3} respectively on specimens with or without a p–n junction; its sensitivity limit is well above 2×10{sup 17} acceptors cm{sup −3} on specimens with or without a p–n junction. Good correlation is found between the widths and slopes of experimentally measured doping contrast profiles of thin p-layers and the calculated widths and slopes of the potential energy distributions across these layers, at a depth of 1 to 3 nm and 5 to 10 nm below the surface in the SHIM and the SEM respectively. This is consistent with the mean escape depth of SEs in silicon being about 1.8 nm and 7 nm in the SHIM and SEM respectively, and we conclude that short escape depth, low energy SE signals are most suitable for donor profiling. - Highlights: • Strong doping contrast from n-type regions in the SHIM without energy-filtering. • Sensitivity limits are established of the SHIM and SEM techniques. • We discuss the impact of SHIM imaging conditions on quantitative dopant profiling. • Doping contrast stems from different surface layer thicknesses in the SHIM and SEM.

Numerical analysis of the optimal length and profile of a linearly chirped fiber Bragg grating for dispersion compensation.

Science.gov (United States)

Thibault, S; Lauzon, J; Cliche, J F; Martin, J; Duguay, M A; Têtu, M

1995-03-15

We propose a theoretical investigation of the length and coupling profile of a linearly chirped fiber Bragg grating for maximum dispersion compensation in a repeaterless optical communication system. The system consists of 100 km of standard optical fiber in which a 1550-nm signal, directly modulated at 2.5 Gbits/s, is launched. We discuss the results obtained with 6-, 4.33-, and 1-cm-long linearly chirped fiber Bragg gratings having Gaussian and uniform coupling profiles. We numerically show that a 4.33-cm-long chirped fiber Bragg grating having a uniform coupling profile is capable of compensating efficiently for the dispersion of our optical communication system.

Variable reflectivity signal mirrors and signal response measurements

International Nuclear Information System (INIS)

Vine, Glenn de; Shaddock, Daniel A; McClelland, David E

2002-01-01

Future gravitational wave detectors will include some form of signal mirror in order to alter the signal response of the device. We introduce interferometer configurations which utilize a variable reflectivity signal mirror allowing a tunable peak frequency and variable signal bandwidth. A detector configured with a Fabry-Perot cavity as the signal mirror is compared theoretically with one using a Michelson interferometer for a signal mirror. A system for the measurement of the interferometer signal responses is introduced. This technique is applied to a power-recycled Michelson interferometer with resonant sideband extraction. We present broadband measurements of the benchtop prototype's signal response for a range of signal cavity detunings. This technique is also applicable to most other gravitational wave detector configurations

Variable reflectivity signal mirrors and signal response measurements

CERN Document Server

Vine, G D; McClelland, D E

2002-01-01

Future gravitational wave detectors will include some form of signal mirror in order to alter the signal response of the device. We introduce interferometer configurations which utilize a variable reflectivity signal mirror allowing a tunable peak frequency and variable signal bandwidth. A detector configured with a Fabry-Perot cavity as the signal mirror is compared theoretically with one using a Michelson interferometer for a signal mirror. A system for the measurement of the interferometer signal responses is introduced. This technique is applied to a power-recycled Michelson interferometer with resonant sideband extraction. We present broadband measurements of the benchtop prototype's signal response for a range of signal cavity detunings. This technique is also applicable to most other gravitational wave detector configurations.

Increased signaling entropy in cancer requires the scale-free property of protein interaction networks

Science.gov (United States)

Teschendorff, Andrew E.; Banerji, Christopher R. S.; Severini, Simone; Kuehn, Reimer; Sollich, Peter

2015-01-01

One of the key characteristics of cancer cells is an increased phenotypic plasticity, driven by underlying genetic and epigenetic perturbations. However, at a systems-level it is unclear how these perturbations give rise to the observed increased plasticity. Elucidating such systems-level principles is key for an improved understanding of cancer. Recently, it has been shown that signaling entropy, an overall measure of signaling pathway promiscuity, and computable from integrating a sample's gene expression profile with a protein interaction network, correlates with phenotypic plasticity and is increased in cancer compared to normal tissue. Here we develop a computational framework for studying the effects of network perturbations on signaling entropy. We demonstrate that the increased signaling entropy of cancer is driven by two factors: (i) the scale-free (or near scale-free) topology of the interaction network, and (ii) a subtle positive correlation between differential gene expression and node connectivity. Indeed, we show that if protein interaction networks were random graphs, described by Poisson degree distributions, that cancer would generally not exhibit an increased signaling entropy. In summary, this work exposes a deep connection between cancer, signaling entropy and interaction network topology. PMID:25919796

ASTROMETRY AND RADIAL VELOCITIES OF THE PLANET HOST M DWARF GJ 317: NEW TRIGONOMETRIC DISTANCE, METALLICITY, AND UPPER LIMIT TO THE MASS OF GJ 317b

International Nuclear Information System (INIS)

Anglada-Escudé, Guillem; Boss, Alan P.; Weinberger, Alycia J.; Butler, R. Paul; Thompson, Ian B.; Vogt, Steven S.; Rivera, Eugenio J.

2012-01-01

We have obtained precision astrometry of the planet host M dwarf GJ 317 in the framework of the Carnegie Astrometric Planet Search project. The new astrometric measurements give a distance determination of 15.3 pc, 65% further than previous estimates. The resulting absolute magnitudes suggest that it is metal-rich and more massive than previously assumed. This result strengthens the correlation between high metallicity and the presence of gas giants around low-mass stars. At 15.3 pc, the minimal astrometric amplitude for planet candidate GJ 317b is 0.3 mas (edge-on orbit), just below our astrometric sensitivity. However, given the relatively large number of observations and good astrometric precision, a Bayesian Monte Carlo Markov Chain analysis indicates that the mass of planet b has to be smaller than twice the minimum mass with a 99% confidence level, with a most likely value of 2.5 M Jup . Additional radial velocity (RV) measurements obtained with Keck by the Lick-Carnegie Planet search program confirm the presence of an additional very long period planet candidate, with a period of 20 years or more. Even though such an object will imprint a large astrometric wobble on the star, its curvature is yet not evident in the astrometry. Given high metallicity, and the trend indicating that multiple systems are rich in low-mass companions, this system is likely to host additional low-mass planets in its habitable zone that can be readily detected with state-of-the-art optical and near-infrared RV measurements.

ASTROMETRY AND RADIAL VELOCITIES OF THE PLANET HOST M DWARF GJ 317: NEW TRIGONOMETRIC DISTANCE, METALLICITY, AND UPPER LIMIT TO THE MASS OF GJ 317b

Energy Technology Data Exchange (ETDEWEB)

Anglada-Escude, Guillem; Boss, Alan P.; Weinberger, Alycia J.; Butler, R. Paul [Department of Terrestrial Magnetism, Carnegie Institution for Science, 5241 Broad Branch Road NW, Washington, DC 20015 (United States); Thompson, Ian B. [Carnegie Observatories, 813 Santa Barbara Street, Pasadena, CA 91101 (United States); Vogt, Steven S.; Rivera, Eugenio J., E-mail: anglada@dtm.ciw.edu [UCO/Lick Observatory, University of California, Santa Cruz, CA 95064 (United States)

2012-02-10

We have obtained precision astrometry of the planet host M dwarf GJ 317 in the framework of the Carnegie Astrometric Planet Search project. The new astrometric measurements give a distance determination of 15.3 pc, 65% further than previous estimates. The resulting absolute magnitudes suggest that it is metal-rich and more massive than previously assumed. This result strengthens the correlation between high metallicity and the presence of gas giants around low-mass stars. At 15.3 pc, the minimal astrometric amplitude for planet candidate GJ 317b is 0.3 mas (edge-on orbit), just below our astrometric sensitivity. However, given the relatively large number of observations and good astrometric precision, a Bayesian Monte Carlo Markov Chain analysis indicates that the mass of planet b has to be smaller than twice the minimum mass with a 99% confidence level, with a most likely value of 2.5 M{sub Jup}. Additional radial velocity (RV) measurements obtained with Keck by the Lick-Carnegie Planet search program confirm the presence of an additional very long period planet candidate, with a period of 20 years or more. Even though such an object will imprint a large astrometric wobble on the star, its curvature is yet not evident in the astrometry. Given high metallicity, and the trend indicating that multiple systems are rich in low-mass companions, this system is likely to host additional low-mass planets in its habitable zone that can be readily detected with state-of-the-art optical and near-infrared RV measurements.

Continuous recording of seismic signals in Alpine permafrost

Science.gov (United States)

Hausmann, H.; Krainer, K.; Staudinger, M.; Brückl, E.

2009-04-01

Over the past years various geophysical methods were applied to study the internal structure and the temporal variation of permafrost whereof seismic is of importance. For most seismic investigations in Alpine permafrost 24-channel equipment in combination with long data and trigger cables is used. Due to the harsh environment source and geophone layouts are often limited to 2D profiles. With prospect for future 3D-layouts we introduce an alternative of seismic equipment that can be used for several applications in Alpine permafrost. This study is focussed on controlled and natural source seismic experiments in Alpine permafrost using continuous data recording. With recent data from an ongoing project ("Permafrost in Austria") we will highlight the potential of the used seismic equipment for three applications: (a) seismic permafrost mapping of unconsolidated sediments, (b) seismic tomography in rock mass, and (c) passive seismic monitoring of rock falls. Single recording units (REFTEK 130, 6 channels) are used to continuously record the waveforms of both the seismic signals and a trigger signal. The combination of a small number of recording units with different types of geophones or a trigger allow numerous applications in Alpine permafrost with regard to a high efficiency and flexible seismic layouts (2D, 3D, 4D). The efficiency of the light and robust seismic equipment is achieved by the simple acquisition and the flexible and fast deployment of the (omni-directional) geophones. Further advantages are short (data and trigger) cables and the prevention of trigger errors. The processing of the data is aided by 'Seismon' which is an open source software project based on Matlab® and MySQL (see SM1.0). For active-source experiments automatic stacking of the seismic signals is implemented. For passive data a program for automatic detection of events (e.g. rock falls) is available which allows event localization. In summer 2008 the seismic equipment was used for the

Analyses of GPR signals for characterization of ground conditions in urban areas

Science.gov (United States)

Hong, Won-Taek; Kang, Seonghun; Lee, Sung Jin; Lee, Jong-Sub

2018-05-01

Ground penetrating radar (GPR) is applied for the characterization of the ground conditions in urban areas. In addition, time domain reflectometry (TDR) and dynamic cone penetrometer (DCP) tests are conducted for the accurate analyses of the GPR images. The GPR images are acquired near a ground excavation site, where a ground subsidence occurred and was repaired. Moreover, the relative permittivity and dynamic cone penetration index (DCPI) are profiled through the TDR and DCP tests, respectively. As the ground in the urban area is kept under a low-moisture condition, the relative permittivity, which is inversely related to the electromagnetic impedance, is mainly affected by the dry density and is inversely proportional to the DCPI value. Because the first strong signal in the GPR image is shifted 180° from the emitted signal, the polarity of the electromagnetic wave reflected at the dense layer, where the reflection coefficient is negative, is identical to that of the first strong signal. The temporal-scaled GPR images can be accurately converted into the spatial-scaled GPR images using the relative permittivity determined by the TDR test. The distribution of the loose layer can be accurately estimated by using the spatial-scaled GPR images and reflection characteristics of the electromagnetic wave. Note that the loose layer distribution estimated in this study matches well with the DCPI profile and is visually verified from the endoscopic images. This study demonstrates that the GPR survey complemented by the TDR and DCP tests, may be an effective method for the characterization of ground conditions in an urban area.

Time-dependent, glucose-regulated Arabidopsis Regulator of G-protein Signaling 1 network

Directory of Open Access Journals (Sweden)

Dinesh Kumar Jaiswal

2016-04-01

Full Text Available Plants lack 7-transmembrane, G-protein coupled receptors (GPCRs because the G alpha subunit of the heterotrimeric G protein complex is “self-activating”—meaning that it spontaneously exchanges bound GDP for GTP without the need of a GPCR. In lieu of GPCRs, most plants have a seven transmembrane receptor-like regulator of G-protein signaling (RGS protein, a component of the complex that keeps G-protein signaling in its non-activated state. The addition of glucose physically uncouples AtRGS1 from the complex through specific endocytosis leaving the activated G protein at the plasma membrane. The complement of proteins in the AtRGS1/G-protein complex over time from glucose-induced endocytosis was profiled by immunoprecipitation coupled to mass spectrometry (IP-MS. A total of 119 proteins in the AtRGS1 complex were identified. Several known interactors of the complex were identified, thus validating the approach, but the vast majority (93/119 were not known previously. AtRGS1 protein interactions were dynamically modulated by d-glucose. At low glucose levels, the AtRGS1 complex is comprised of proteins involved in transport, stress and metabolism. After glucose application, the AtRGS1 complex rapidly sheds many of these proteins and recruits other proteins involved in vesicular trafficking and signal transduction. The profile of the AtRGS1 components answers several questions about the type of coat protein and vesicular trafficking GTPases used in AtRGS1 endocytosis and the function of endocytic AtRGS1.

High-precision astrometry towards ELTs

NARCIS (Netherlands)

Massari, Davide; Fiorentino, Giuliana; Tolstoy, Eline; McConnachie, Alan; Stuik, Remko; Schreiber, Laura; Andersen, David; Clénet, Yann; Davies, Richard; Gratadour, Damien; Kuijken, Konrad; Navarro, Ramon; Pott, Jörg-Uwe; Rodeghiero, Gabriele; Turri, Paolo; Verdoes Kleijn, Gijs

2016-01-01

With the aim of paving the road for future accurate astrometry with MICADO at the European-ELT, we performed an astrometric study using two different but complementary approaches to investigate two critical components that contribute to the total astrometric accuracy. First, we tested the predicted

Registration and processing of acoustic signal in rock drilling

Directory of Open Access Journals (Sweden)

Futó Jozef

2002-03-01

Full Text Available For the determination of an effective rock disintegration for a given tool and rock type it is needed to define an optimal disintegration regime. Optimisation of the disintegration process by drilling denotes the finding out an appropriate couple of input parameters of disintegration, i.e. the thrust and revolutions for a quasi-equal rock environment. The disintegration process can be optimised to reach the maximum immediate drilling rate, to reach the minimum specific disintegration energy or to reach the maximum ratio of immediate drilling rate and specific disintegration energy. For the determination of the optimal thrust and revolutions it is needed to monitor the disintegration process. Monitoring of the disintegration process in real conditions is complicated by unfavourable factors, such as the presence of water, dust, vibrations etc. Following our present experience in the monitoring of drilling or full-profile driving, we try to replace the monitoring of input values by monitoring of the scanned acoustic signal. This method of monitoring can extend the optimisation of disintegration process in the technical practice. Its advantage consists in the registration of one acoustic signal by an appropriate microphone. Monitoring of acoustic signal is used also in monitoring of metal machining by milling and turning jobs. The research results of scanning of the acoustic signal in machining of metals are encouraging. Acoustic signal can be processed by different statistical parameters. The paper decribes some results of monitoring of the acoustic signal in rock disintegration on the drilling stand of the Institute of Geotechnics SAS in Košice. The acoustic signal has been registered and processed in no-load run of electric motor, in no-load run of electric motor with a drilling fluid, and in the Ruskov andesite drilling. Registration and processing of the acoustic signal is solved as a part of the research grant task within the basic research

Atmospheric scintillation at Dome C, Antarctica: implications for photometry and astrometry

Science.gov (United States)

Kenyon, S.; Lawrence, J.; Ashley, M. C. B.; Storey, J. W. V.; Tokovinin, A.; Fossat, E.

2006-08-01

Night-time turbulence profiles of the atmosphere above Dome C, Antarctica, were measured during 2004, using a MASS instrument. We compare this data with turbulence profiles above Cerro Tololo and Cerro Pachon, also measured with a MASS, and find, with the exception of the owest layer, that Dome C has significantly less turbulence. In addition, the integrated at turbulence 16 km above Dome C is always less than the median values at the two Chilean sites. Using average wind speed profiles, we assess the photometric noise produced by scintillation, and the atmospheric contribution to the error budget in narrow angle differential astrometry. In comparison with the two mid-latitude sites in Chile, Dome C offers a potential gain of about 3.6 in both photometric precision (for long integrations) and narrow-angle astrometry precision. Although the data from Dome C cover a fairly limited time frame, they lend strong support to expectations that Dome C will offer significant advantages for photometric and astrometric studies.

Analysis of luminosity distributions of strong lensing galaxies: subtraction of diffuse lensed signal

Science.gov (United States)

Biernaux, J.; Magain, P.; Hauret, C.

2017-08-01

Context. Strong gravitational lensing gives access to the total mass distribution of galaxies. It can unveil a great deal of information about the lenses' dark matter content when combined with the study of the lenses' light profile. However, gravitational lensing galaxies, by definition, appear surrounded by lensed signal, both point-like and diffuse, that is irrelevant to the lens flux. Therefore, the observer is most often restricted to studying the innermost portions of the galaxy, where classical fitting methods show some instabilities. Aims: We aim at subtracting that lensed signal and at characterising some lenses' light profile by computing their shape parameters (half-light radius, ellipticity, and position angle). Our objective is to evaluate the total integrated flux in an aperture the size of the Einstein ring in order to obtain a robust estimate of the quantity of ordinary (luminous) matter in each system. Methods: We are expanding the work we started in a previous paper that consisted in subtracting point-like lensed images and in independently measuring each shape parameter. We improve it by designing a subtraction of the diffuse lensed signal, based only on one simple hypothesis of symmetry. We apply it to the cases where it proves to be necessary. This extra step improves our study of the shape parameters and we refine it even more by upgrading our half-light radius measurement method. We also calculate the impact of our specific image processing on the error bars. Results: The diffuse lensed signal subtraction makes it possible to study a larger portion of relevant galactic flux, as the radius of the fitting region increases by on average 17%. We retrieve new half-light radii values that are on average 11% smaller than in our previous work, although the uncertainties overlap in most cases. This shows that not taking the diffuse lensed signal into account may lead to a significant overestimate of the half-light radius. We are also able to measure

Transcriptome Profiling Reveals the Negative Regulation of Multiple Plant Hormone Signaling Pathways Elicited by Overexpression of C-Repeat Binding Factors

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Aixin Li

2017-09-01

Full Text Available C-repeat binding factors (CBF are a subfamily of AP2 transcription factors that play critical roles in the regulation of plant cold tolerance and growth in low temperature. In the present work, we sought to perform a detailed investigation into global transcriptional regulation of plant hormone signaling associated genes in transgenic plants engineered with CBF genes. RNA samples from Arabidopsis thaliana plants overexpressing two CBF genes, CBF2 and CBF3, were subjected to Illumina HiSeq 2000 RNA sequencing (RNA-Seq. Our results showed that more than half of the hormone associated genes that were differentially expressed in CBF2 or CBF3 transgenic plants were related to auxin signal transduction and metabolism. Most of these alterations in gene expression could lead to repression of auxin signaling. Accordingly, the IAA content was significantly decreased in young tissues of plants overexpressing CBF2 and CBF3 compared with wild type. In addition, genes associated with the biosynthesis of Jasmonate (JA and Salicylic acid (SA, as well as the signal sensing of Brassinolide (BR and SA, were down-regulated, while genes associated with Gibberellin (GA deactivation were up-regulated. In general, overexpression of CBF2 and CBF3 negatively affects multiple plant hormone signaling pathways in Arabidopsis. The transcriptome analysis using CBF2 and CBF3 transgenic plants provides novel and integrated insights into the interaction between CBFs and plant hormones, particularly the modulation of auxin signaling, which may contribute to the improvement of crop yields under abiotic stress via molecular engineering using CBF genes.

Digital timing: sampling frequency, anti-aliasing filter and signal interpolation filter dependence on timing resolution

International Nuclear Information System (INIS)

Cho, Sanghee; Grazioso, Ron; Zhang Nan; Aykac, Mehmet; Schmand, Matthias

2011-01-01

The main focus of our study is to investigate how the performance of digital timing methods is affected by sampling rate, anti-aliasing and signal interpolation filters. We used the Nyquist sampling theorem to address some basic questions such as what will be the minimum sampling frequencies? How accurate will the signal interpolation be? How do we validate the timing measurements? The preferred sampling rate would be as low as possible, considering the high cost and power consumption of high-speed analog-to-digital converters. However, when the sampling rate is too low, due to the aliasing effect, some artifacts are produced in the timing resolution estimations; the shape of the timing profile is distorted and the FWHM values of the profile fluctuate as the source location changes. Anti-aliasing filters are required in this case to avoid the artifacts, but the timing is degraded as a result. When the sampling rate is marginally over the Nyquist rate, a proper signal interpolation is important. A sharp roll-off (higher order) filter is required to separate the baseband signal from its replicates to avoid the aliasing, but in return the computation will be higher. We demonstrated the analysis through a digital timing study using fast LSO scintillation crystals as used in time-of-flight PET scanners. From the study, we observed that there is no significant timing resolution degradation down to 1.3 Ghz sampling frequency, and the computation requirement for the signal interpolation is reasonably low. A so-called sliding test is proposed as a validation tool checking constant timing resolution behavior of a given timing pick-off method regardless of the source location change. Lastly, the performance comparison for several digital timing methods is also shown.

MODELLING AND VIBRATION ANALYSIS OF A ROAD PROFILE MEASURING SYSTEM

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C. B. Patel

2010-06-01

Full Text Available During a vehicle development program, load data representing severe customer usage is required. The dilemma faced by a design engineer during the design process is that during the initial stage, only predicted loads estimated from historical targets are available, whereas the actual loads are available only at the fag end of the process. At the same time, changes required, if any, are easier and inexpensive during the initial stages of the design process whereas they are extremely costly in the latter stages of the process. The use of road profiles and vehicle models to predict the load acting on the whole vehicle is currently being researched. This work hinges on the ability to accurately measure road profiles. The objective of the work is to develop an algorithm, using MATLAB Simulink software, to convert the input signals into measured road profile. The algorithm is checked by the MATLAB Simulink 4 degrees of freedom half car model. To make the whole Simulink model more realistic, accelerometer and laser sensor properties are introduced. The present work contains the simulation of the mentioned algorithm with a half car model and studies the results in distance, time, and the frequency domain.

Random Subspace Aggregation for Cancer Prediction with Gene Expression Profiles

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Liying Yang

2016-01-01

Full Text Available Background. Precisely predicting cancer is crucial for cancer treatment. Gene expression profiles make it possible to analyze patterns between genes and cancers on the genome-wide scale. Gene expression data analysis, however, is confronted with enormous challenges for its characteristics, such as high dimensionality, small sample size, and low Signal-to-Noise Ratio. Results. This paper proposes a method, termed RS_SVM, to predict gene expression profiles via aggregating SVM trained on random subspaces. After choosing gene features through statistical analysis, RS_SVM randomly selects feature subsets to yield random subspaces and training SVM classifiers accordingly and then aggregates SVM classifiers to capture the advantage of ensemble learning. Experiments on eight real gene expression datasets are performed to validate the RS_SVM method. Experimental results show that RS_SVM achieved better classification accuracy and generalization performance in contrast with single SVM, K-nearest neighbor, decision tree, Bagging, AdaBoost, and the state-of-the-art methods. Experiments also explored the effect of subspace size on prediction performance. Conclusions. The proposed RS_SVM method yielded superior performance in analyzing gene expression profiles, which demonstrates that RS_SVM provides a good channel for such biological data.

Tests of variable-band multilayers designed for investigating optimal signal-to-noise vs artifact signal ratios in Dual-Energy Digital Subtraction Angiography (DDSA) imaging systems

International Nuclear Information System (INIS)

Boyers, D.; Ho, A.; Li, Q.; Piestrup, M.; Rice, M.; Tatchyn, R.

1993-08-01

In recent work, various design techniques were applied to investigate the feasibility of controlling the bandwidth and bandshape profiles of tungsten/boron-carbon (W/B 4 C) and tungsten/silicon (W/Si) multilayers for optimizing their performance in synchrotron radiation based angiographical imaging systems at 33 keV. Varied parameters included alternative spacing geometries, material thickness ratios, and numbers of layer pairs. Planar optics with nominal design reflectivities of 30%--94% and bandwidths ranging from 0.6%--10% were designed at the Stanford Radiation Laboratory, fabricated by the Ovonic Synthetic Materials Company, and characterized on Beam Line 4-3 at the Stanford Synchrotron Radiation Laboratory, in this paper we report selected results of these tests and review the possible use of the multilayers for determining optimal signal to noise vs. artifact signal ratios in practical Dual-Energy Digital Subtraction Angiography systems

Data Profiling

OpenAIRE

Hladíková, Radka

2010-01-01

Title: Data Profiling Author: Radka Hladíková Department: Department of Software Engineering Supervisor: Ing. Vladimír Kyjonka Supervisor's e-mail address: Abstract: This thesis puts mind on problems with data quality and data profiling. This Work analyses and summarizes problems of data quality, data defects, process of data quality, data quality assessment and data profiling. The main topic is data profiling as a process of researching data available in existing...

Vismodegib, an antagonist of hedgehog signaling, directly alters taste molecular signaling in taste buds.

Science.gov (United States)

Yang, Hyekyung; Cong, Wei-Na; Yoon, Jeong Seon; Egan, Josephine M

2015-02-01

Vismodegib, a highly selective inhibitor of hedgehog (Hh) pathway, is an approved treatment for basal-cell carcinoma. Patients on treatment with vismodegib often report profound alterations in taste sensation. The cellular mechanisms underlying the alterations have not been studied. Sonic Hh (Shh) signaling is required for cell growth and differentiation. In taste buds, Shh is exclusively expressed in type IV taste cells, which are undifferentiated basal cells and the precursors of the three types of taste sensing cells. Thus, we investigated if vismodegib has an inhibitory effect on taste cell turnover because of its known effects on Hh signaling. We gavaged C57BL/6J male mice daily with either vehicle or 30 mg/kg vismodegib for 15 weeks. The gustatory behavior and immunohistochemical profile of taste cells were examined. Vismodegib-treated mice showed decreased growth rate and behavioral responsivity to sweet and bitter stimuli, compared to vehicle-treated mice. We found that vismodegib-treated mice had significant reductions in taste bud size and numbers of taste cells per taste bud. Additionally, vismodegib treatment resulted in decreased numbers of Ki67- and Shh-expressing cells in taste buds. The numbers of phospholipase Cβ2- and α-gustducin-expressing cells, which contain biochemical machinery for sweet and bitter sensing, were reduced in vismodegib-treated mice. Furthermore, vismodegib treatment resulted in reduction in numbers of T1R3, glucagon-like peptide-1, and glucagon-expressing cells, which are known to modulate sweet taste sensitivity. These results suggest that inhibition of Shh signaling by vismodegib treatment directly results in alteration of taste due to local effects in taste buds. Published 2014. This article is a U.S. Government work and is in the public domain in the USA.

Kinome profiling reveals an interaction between jasmonate, salicylate and light control of hyponastic petiole growth in Arabidopsis thaliana.

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Tita Ritsema

Full Text Available Plants defend themselves against infection by biotic attackers by producing distinct phytohormones. Especially jasmonic acid (JA and salicylic acid (SA are well known defense-inducing hormones. Here, the effects of MeJA and SA on the Arabidopsis thaliana kinome were monitored using PepChip arrays containing kinase substrate peptides to analyze posttranslational interactions in MeJA and SA signaling pathways and to test if kinome profiling can provide leads to predict posttranslational events in plant signaling. MeJA and SA mediate differential phosphorylation of substrates for many kinase families. Also some plant specific substrates were differentially phosphorylated, including peptides derived from Phytochrome A, and Photosystem II D protein. This indicates that MeJA and SA mediate cross-talk between defense signaling and light responses. We tested the predicted effects of MeJA and SA using light-mediated upward leaf movement (differential petiole growth also called hyponastic growth. We found that MeJA, infestation by the JA-inducing insect herbivore Pieris rapae, and SA suppressed low light-induced hyponastic growth. MeJA and SA acted in a synergistic fashion via two (partially divergent signaling routes. This work demonstrates that kinome profiling using PepChip arrays can be a valuable complementary ∼omics tool to give directions towards predicting behavior of organisms after a given stimulus and can be used to obtain leads for physiological relevant phenomena in planta.

Synaptic and genomic responses to JNK and AP-1 signaling in Drosophila neurons

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Bohmann Dirk

2005-06-01

Full Text Available Abstract Background The transcription factor AP-1 positively controls synaptic plasticity at the Drosophila neuromuscular junction. Although in motor neurons, JNK has been shown to activate AP-1, a positive regulator of growth and strength at the larval NMJ, the consequences of JNK activation are poorly studied. In addition, the downstream transcriptional targets of JNK and AP-1 signaling in the Drosophila nervous system have yet to be identified. Here, we further investigated the role of JNK signaling at this model synapse employing an activated form of JNK-kinase; and using Serial Analysis of Gene Expression and oligonucleotide microarrays, searched for candidate early targets of JNK or AP-1 dependent transcription in neurons. Results Temporally-controlled JNK induction in postembryonic motor neurons triggers synaptic growth at the NMJ indicating a role in developmental plasticity rather than synaptogenesis. An unexpected observation that JNK activation also causes a reduction in transmitter release is inconsistent with JNK functioning solely through AP-1 and suggests an additional, yet-unidentified pathway for JNK signaling in motor neurons. SAGE profiling of mRNA expression helps define the neural transcriptome in Drosophila. Though many putative AP-1 and JNK target genes arose from the genomic screens, few were confirmed in subsequent validation experiments. One potentially important neuronal AP-1 target discovered, CG6044, was previously implicated in olfactory associative memory. In addition, 5 mRNAs regulated by RU486, a steroid used to trigger conditional gene expression were identified. Conclusion This study demonstrates a novel role for JNK signaling at the larval neuromuscular junction and provides a quantitative profile of gene transcription in Drosophila neurons. While identifying potential JNK/AP-1 targets it reveals the limitations of genome-wide analyses using complex tissues like the whole brain.

The Role of Diet in Shaping the Chemical Signal Design of Lacertid Lizards.

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Baeckens, Simon; García-Roa, Roberto; Martín, José; Van Damme, Raoul

2017-09-01

Lizards communicate with others via chemical signals, the composition of which may vary among species. Although the selective pressures and constraints affecting chemical signal diversity at the species level remain poorly understood, the possible role of diet has been largely neglected. The chemical signals of many lizards originate from the femoral glands that exude a mixture of semiochemicals, and may be used in a variety of contexts. We analyzed the lipophilic fraction of the glandular secretions of 45 species of lacertid lizard species by gas chromatography/mass spectrometry. The proportions of nine major chemical classes (alcohols, aldehydes, fatty acids, furanones, ketones, steroids, terpenoids, tocopherols and waxy esters), the relative contributions of these different classes ('chemical diversity'), and the total number of different lipophilic compounds ('chemical richness') varied greatly among species. We examined whether interspecific differences in these chemical variables could be coupled to interspecific variation in diet using data from the literature. In addition, we compared chemical signal composition among species that almost never, occasionally, or often eat plant material. We found little support for the hypothesis that the chemical profile of a given species' secretion depends on the type of food consumed. Diet breadth did not correlate with chemical diversity or richness. The amount of plants or ants consumed did not affect the relative contribution of any of the nine major chemical classes to the secretion. Chemical diversity did not differ among lizards with different levels of plant consumption; however, chemical richness was low in species with an exclusive arthropod diet, suggesting that incorporating plants in the diet enables lizards to increase the number of compounds allocated to secretions, likely because a (partly) herbivorous diet allows them to include compounds of plant origin that are unavailable in animal prey. Still, overall

Correlated and uncorrelated invisible temporal white noise alters mesopic rod signaling.

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Hathibelagal, Amithavikram R; Feigl, Beatrix; Kremers, Jan; Zele, Andrew J

2016-03-01

We determined how rod signaling at mesopic light levels is altered by extrinsic temporal white noise that is correlated or uncorrelated with the activity of one (magnocellular, parvocellular, or koniocellular) postreceptoral pathway. Rod and cone photoreceptor excitations were independently controlled using a four-primary photostimulator. Psychometric (Weibull) functions were measured for incremental rod pulses (50 to 250 ms) in the presence (or absence; control) of perceptually invisible subthreshold extrinsic noise. Uncorrelated (rod) noise facilitates rod detection. Correlated postreceptoral pathway noise produces differential changes in rod detection thresholds and decreases the slope of the psychometric functions. We demonstrate that invisible extrinsic noise changes rod-signaling characteristics within the three retinogeniculate pathways at mesopic illumination depending on the temporal profile of the rod stimulus and the extrinsic noise type.

Gaia DR2 documentation Chapter 3: Astrometry

Science.gov (United States)

Hobbs, D.; Lindegren, L.; Bastian, U.; Klioner, S.; Butkevich, A.; Stephenson, C.; Hernandez, J.; Lammers, U.; Bombrun, A.; Mignard, F.; Altmann, M.; Davidson, M.; de Bruijne, J. H. J.; Fernández-Hernández, J.; Siddiqui, H.; Utrilla Molina, E.

2018-04-01

This chapter of the Gaia DR2 documentation describes the models and processing steps used for the astrometric core solution, namely, the Astrometric Global Iterative Solution (AGIS). The inputs to this solution rely heavily on the basic observables (or astrometric elementaries) which have been pre-processed and discussed in Chapter 2, the results of which were published in Fabricius et al. (2016). The models consist of reference systems and time scales; assumed linear stellar motion and relativistic light deflection; in addition to fundamental constants and the transformation of coordinate systems. Higher level inputs such as: planetary and solar system ephemeris; Gaia tracking and orbit information; initial quasar catalogues and BAM data are all needed for the processing described here. The astrometric calibration models are outlined followed by the details processing steps which give AGIS its name. We also present a basic quality assessment and validation of the scientific results (for details, see Lindegren et al. 2018).

Normalization of TAM post-receptor signaling reveals a cell invasive signature for Axl tyrosine kinase.

Science.gov (United States)

Kimani, Stanley G; Kumar, Sushil; Davra, Viralkumar; Chang, Yun-Juan; Kasikara, Canan; Geng, Ke; Tsou, Wen-I; Wang, Shenyan; Hoque, Mainul; Boháč, Andrej; Lewis-Antes, Anita; De Lorenzo, Mariana S; Kotenko, Sergei V; Birge, Raymond B

2016-09-06

Tyro3, Axl, and Mertk (TAMs) are a family of three conserved receptor tyrosine kinases that have pleiotropic roles in innate immunity and homeostasis and when overexpressed in cancer cells can drive tumorigenesis. In the present study, we engineered EGFR/TAM chimeric receptors (EGFR/Tyro3, EGFR/Axl, and EGF/Mertk) with the goals to interrogate post-receptor functions of TAMs, and query whether TAMs have unique or overlapping post-receptor activation profiles. Stable expression of EGFR/TAMs in EGFR-deficient CHO cells afforded robust EGF inducible TAM receptor phosphorylation and activation of downstream signaling. Using a series of unbiased screening approaches, that include kinome-view analysis, phosphor-arrays, RNAseq/GSEA analysis, as well as cell biological and in vivo readouts, we provide evidence that each TAM has unique post-receptor signaling platforms and identify an intrinsic role for Axl that impinges on cell motility and invasion compared to Tyro3 and Mertk. These studies demonstrate that TAM show unique post-receptor signatures that impinge on distinct gene expression profiles and tumorigenic outcomes.

Effects of neutrino oscillations on nucleosynthesis and neutrino signals for an 18 M⊙ supernova model

Science.gov (United States)

Wu, Meng-Ru; Qian, Yong-Zhong; Martínez-Pinedo, Gabriel; Fischer, Tobias; Huther, Lutz

2015-03-01

In this paper, we explore the effects of neutrino flavor oscillations on supernova nucleosynthesis and on the neutrino signals. Our study is based on detailed information about the neutrino spectra and their time evolution from a spherically symmetric supernova model for an 18 M⊙ progenitor. We find that collective neutrino oscillations are not only sensitive to the detailed neutrino energy and angular distributions at emission, but also to the time evolution of both the neutrino spectra and the electron density profile. We apply the results of neutrino oscillations to study the impact on supernova nucleosynthesis and on the neutrino signals from a Galactic supernova. We show that in our supernova model, collective neutrino oscillations enhance the production of rare isotopes 138La and 180Ta but have little impact on the ν p -process nucleosynthesis. In addition, the adiabatic Mikheyev-Smirnov-Wolfenstein flavor transformation, which occurs in the C /O and He shells of the supernova, may affect the production of light nuclei such as 7Li and 11B. For the neutrino signals, we calculate the rate of neutrino events in the Super-Kamiokande detector and in a hypothetical liquid argon detector. Our results suggest the possibility of using the time profiles of the events in both detectors, along with the spectral information of the detected neutrinos, to infer the neutrino mass hierarchy.

The detection of cavitation in hydraulic machines by use of ultrasonic signal analysis

International Nuclear Information System (INIS)

Gruber, P; Odermatt, P; Etterlin, M; Lerch, T; Frei, M; Farhat, M

2014-01-01

This presentation describes an experimental approach for the detection of cavitation in hydraulic machines by use of ultrasonic signal analysis. Instead of using the high frequency pulses (typically 1MHz) only for transit time measurement different other signal characteristics are extracted from the individual signals and its correlation function with reference signals in order to gain knowledge of the water conditions. As the pulse repetition rate is high (typically 100Hz), statistical parameters can be extracted of the signals. The idea is to find patterns in the parameters by a classifier that can distinguish between the different water states. This classification scheme has been applied to different cavitation sections: a sphere in a water flow in circular tube at the HSLU in Lucerne, a NACA profile in a cavitation tunnel and a Francis model test turbine both at LMH in Lausanne. From the signal raw data several statistical parameters in the time and frequency domain as well as from the correlation function with reference signals have been determined. As classifiers two methods were used: neural feed forward networks and decision trees. For both classification methods realizations with lowest complexity as possible are of special interest. It is shown that three signal characteristics, two from the signal itself and one from the correlation function are in many cases sufficient for the detection capability. The final goal is to combine these results with operating point, vibration, acoustic emission and dynamic pressure information such that a distinction between dangerous and not dangerous cavitation is possible

Wavelet analysis to decompose a vibration simulation signal to improve pre-distribution testing of packaging

Science.gov (United States)

Griffiths, K. R.; Hicks, B. J.; Keogh, P. S.; Shires, D.

2016-08-01

In general, vehicle vibration is non-stationary and has a non-Gaussian probability distribution; yet existing testing methods for packaging design employ Gaussian distributions to represent vibration induced by road profiles. This frequently results in over-testing and/or over-design of the packaging to meet a specification and correspondingly leads to wasteful packaging and product waste, which represent 15bn per year in the USA and €3bn per year in the EU. The purpose of the paper is to enable a measured non-stationary acceleration signal to be replaced by a constructed signal that includes as far as possible any non-stationary characteristics from the original signal. The constructed signal consists of a concatenation of decomposed shorter duration signals, each having its own kurtosis level. Wavelet analysis is used for the decomposition process into inner and outlier signal components. The constructed signal has a similar PSD to the original signal, without incurring excessive acceleration levels. This allows an improved and more representative simulated input signal to be generated that can be used on the current generation of shaker tables. The wavelet decomposition method is also demonstrated experimentally through two correlation studies. It is shown that significant improvements over current international standards for packaging testing are achievable; hence the potential for more efficient packaging system design is possible.

VHF signal power suppression in stratiform and convective precipitation

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A. J. McDonald

2006-03-01

Full Text Available Previous studies have indicated that VHF clear-air radar return strengths are reduced during periods of precipitation. This study aims to examine whether the type of precipitation, stratiform and convective precipitation types are identified, has any impact on the relationships previously observed and to examine the possible mechanisms which produce this phenomenon. This study uses a combination of UHF and VHF wind-profiler data to define periods associated with stratiform and convective precipitation. This identification is achieved using an algorithm which examines the range squared corrected signal to noise ratio of the UHF returns for a bright band signature for stratiform precipitation. Regions associated with convective rainfall have been defined by identifying regions of enhanced range corrected signal to noise ratio that do not display a bright band structure and that are relatively uniform until a region above the melting layer. This study uses a total of 68 days, which incorporated significant periods of surface rainfall, between 31 August 2000 and 28 February 2002 inclusive from Aberystwyth (52.4° N, 4.1° W. Examination suggests that both precipitation types produce similar magnitude reductions in VHF signal power on average. However, the frequency of occurrence of statistically significant reductions in VHF signal power are very different. In the altitude range 2-4 km stratiform precipitation is related to VHF signal suppression approximately 50% of the time while in convective precipitation suppression is observed only 27% of the time. This statistical result suggests that evaporation, which occurs more often in stratiform precipitation, is important in reducing the small-scale irregularities in humidity and thereby the radio refractive index. A detailed case study presented also suggests that evaporation reducing small-scale irregularities in humidity may contribute to the observed VHF signal suppression.

Cell adhesion signaling regulates RANK expression in osteoclast precursors.

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Ayako Mochizuki

Full Text Available Cells with monocyte/macrophage lineage expressing receptor activator of NF-κB (RANK differentiate into osteoclasts following stimulation with the RANK ligand (RANKL. Cell adhesion signaling is also required for osteoclast differentiation from precursors. However, details of the mechanism by which cell adhesion signals induce osteoclast differentiation have not been fully elucidated. To investigate the participation of cell adhesion signaling in osteoclast differentiation, mouse bone marrow-derived macrophages (BMMs were used as osteoclast precursors, and cultured on either plastic cell culture dishes (adherent condition or the top surface of semisolid methylcellulose gel loaded in culture tubes (non-adherent condition. BMMs cultured under the adherent condition differentiated into osteoclasts in response to RANKL stimulation. However, under the non-adherent condition, the efficiency of osteoclast differentiation was markedly reduced even in the presence of RANKL. These BMMs retained macrophage characteristics including phagocytic function and gene expression profile. Lipopolysaccharide (LPS and tumor necrosis factor -αTNF-α activated the NF-κB-mediated signaling pathways under both the adherent and non-adherent conditions, while RANKL activated the pathways only under the adherent condition. BMMs highly expressed RANK mRNA and protein under the adherent condition as compared to the non-adherent condition. Also, BMMs transferred from the adherent to non-adherent condition showed downregulated RANK expression within 24 hours. In contrast, transferring those from the non-adherent to adherent condition significantly increased the level of RANK expression. Moreover, interruption of cell adhesion signaling by echistatin, an RGD-containing disintegrin, decreased RANK expression in BMMs, while forced expression of either RANK or TNFR-associated factor 6 (TRAF6 in BMMs induced their differentiation into osteoclasts even under the non

VHF signal power suppression in stratiform and convective precipitation

Directory of Open Access Journals (Sweden)

A. J. McDonald

2006-03-01

Full Text Available Previous studies have indicated that VHF clear-air radar return strengths are reduced during periods of precipitation. This study aims to examine whether the type of precipitation, stratiform and convective precipitation types are identified, has any impact on the relationships previously observed and to examine the possible mechanisms which produce this phenomenon. This study uses a combination of UHF and VHF wind-profiler data to define periods associated with stratiform and convective precipitation. This identification is achieved using an algorithm which examines the range squared corrected signal to noise ratio of the UHF returns for a bright band signature for stratiform precipitation. Regions associated with convective rainfall have been defined by identifying regions of enhanced range corrected signal to noise ratio that do not display a bright band structure and that are relatively uniform until a region above the melting layer.

This study uses a total of 68 days, which incorporated significant periods of surface rainfall, between 31 August 2000 and 28 February 2002 inclusive from Aberystwyth (52.4° N, 4.1° W. Examination suggests that both precipitation types produce similar magnitude reductions in VHF signal power on average. However, the frequency of occurrence of statistically significant reductions in VHF signal power are very different. In the altitude range 2-4 km stratiform precipitation is related to VHF signal suppression approximately 50% of the time while in convective precipitation suppression is observed only 27% of the time. This statistical result suggests that evaporation, which occurs more often in stratiform precipitation, is important in reducing the small-scale irregularities in humidity and thereby the radio refractive index. A detailed case study presented also suggests that evaporation reducing small-scale irregularities in humidity may contribute to the observed VHF signal

Digitally programmable signal generator

International Nuclear Information System (INIS)

Priatko, G.J.; Kaskey, J.A.

1988-01-01

A digitally programmable signal generator (DPSG) includes a first memory from which data is written into a second memory formed of n banks. Each bank includes four memories and a multiplexer, the banks being read once during each time frame, the read-out bits being multiplexed and fed out serially in synchronism with a plurality of clock pulses occuring during a time frame. The resulting serial bit streams may be fed in parallel to a digital-to-analog converter. The DPSG can be used in applications such as Atomic Vapor Laser Isotope Separation (AVLIS) to create an optimal match between the process laser's spectral profile and that of the vaporized material, optical telecommunications, non-optical telecommunication in the microwave and radio spectrum, radar, electronic countermeasures, high speed computer interconnects, local area networks, high definition video transport and the multiplexing of large quantities of slow digital memory into high speed data streams. This invention extends the operation of DPSGs into the GHz range. (author)

The Design of Ocean Turbulence Measurement with a Free Fall Vertical Profiler

Science.gov (United States)

Luan, Xin; Xin, Jia; Zhu, Tieyi; Yang, Hua; Teng, Yuru; Song, Dalei

2018-03-01

The newly designed instrument Free Fall Vertical Profiler (FFVP) developed by Ocean University of China (OUC) had been deployed in the Western Pacific in March 08, 2017 and succeed to collect turbulence signals about 350-m-deep water. According to the requirements of turbulence measurement, the mechanical design was developed for turbulence platform to achieve stability and good flow tracking. By analysing the Heading, Pitch and Roll, the results suggested that the platform satisfies the requirements of stability. The power spectrum of the cleaned shear signals using the noise correction algorithm match well with the theoretical Nasmyth spectrum and the rate of turbulence dissipation are approximately 10-8 W/kg. In general, the FFVP was rationally designed and provided a good measurement platform for turbulence observation.

Comparative expression profile of NOD1/2 and certain acute inflammatory cytokines in thermal-stressed cell culture model of native and crossbred cattle

Science.gov (United States)

Bhanuprakash, V.; Singh, Umesh; Sengar, Gyanendra Singh; Raja, T. V.; Sajjanar, Basavraj; Alex, Rani; Kumar, Sushil; Alyethodi, R. R.; Kumar, Ashish; Sharma, Ankur; Kumar, Suresh; Bhusan, Bharat; Deb, Rajib

2017-05-01

Thermotolerance depends mainly on the health and immune status of the animals. The variation in the immune status of the animals may alter the level of tolerance of animals exposed to heat or cold stress. The present study was conducted to investigate the expression profile of two important nucleotide binding and oligomerization domain receptors (NLRs) (NOD1 and NOD2) and their central signalling molecule RIP2 gene during in vitro thermal-stressed bovine peripheral blood mononuclear cells (PBMCs) of native (Sahiwal) and crossbred (Sahiwal X HF) cattle. We also examined the differential expression profile of certain acute inflammatory cytokines in in vitro thermal-stressed PBMC culture among native and its crossbred counterparts. Results revealed that the expression profile of NOD1/2 positively correlates with the thermal stress, signalling molecule and cytokines. Present findings also highlighted that the expression patterns during thermal stress were comparatively superior among indigenous compared to crossbred cattle which may add references regarding the better immune adaptability of Zebu cattle.

Accurate step-FMCW ultrasound ranging and comparison with pulse-echo signaling methods

Science.gov (United States)

Natarajan, Shyam; Singh, Rahul S.; Lee, Michael; Cox, Brian P.; Culjat, Martin O.; Grundfest, Warren S.; Lee, Hua

2010-03-01

This paper presents a method setup for high-frequency ultrasound ranging based on stepped frequency-modulated continuous waves (FMCW), potentially capable of producing a higher signal-to-noise ratio (SNR) compared to traditional pulse-echo signaling. In current ultrasound systems, the use of higher frequencies (10-20 MHz) to enhance resolution lowers signal quality due to frequency-dependent attenuation. The proposed ultrasound signaling format, step-FMCW, is well-known in the radar community, and features lower peak power, wider dynamic range, lower noise figure and simpler electronics in comparison to pulse-echo systems. In pulse-echo ultrasound ranging, distances are calculated using the transmit times between a pulse and its subsequent echoes. In step-FMCW ultrasonic ranging, the phase and magnitude differences at stepped frequencies are used to sample the frequency domain. Thus, by taking the inverse Fourier transform, a comprehensive range profile is recovered that has increased immunity to noise over conventional ranging methods. Step-FMCW and pulse-echo waveforms were created using custom-built hardware consisting of an arbitrary waveform generator and dual-channel super heterodyne receiver, providing high SNR and in turn, accuracy in detection.

Endoprotease profiling with double-tagged peptide substrates: a new diagnostic approach in oncology.

Science.gov (United States)

Peccerella, Teresa; Lukan, Nadine; Hofheinz, Ralf; Schadendorf, Dirk; Kostrezewa, Markus; Neumaier, Michael; Findeisen, Peter

2010-02-01

The measurement of disease-related proteolytic activity in complex biological matrices like serum is of emerging interest to improve the diagnosis of malignant diseases. We developed a mass spectrometry (MS)-based functional proteomic profiling approach that tracks degradation of artificial endoprotease substrates in serum specimens. The synthetic reporter peptides that are cleaved by tumor-associated endopeptidases were systematically optimized with regard to flanking affinity tags, linkers, and stabilizing elements. Serum specimens were incubated with reporter peptides under standardized conditions and the peptides subsequently extracted with affinity chromatography before MS. In a pilot study an optimized reporter peptide with the cleavage motif WKPYDAADL was added to serum specimens from colorectal tumor patients (n = 50) and healthy controls (n = 50). This reporter peptide comprised a known cleavage site for the cysteine-endopeptidase "cancer procoagulant." Serial affinity chromatography using biotin- and 6xHis tags was superior to the single affinity enrichment using only 6xHis tags. Furthermore, protease-resistant stop elements ensured signal accumulation after prolonged incubation. In contrast, signals from reporter peptides without stop elements vanished completely after prolonged incubation owing to their total degradation. Reporter-peptide spiking showed good reproducibility, and the difference in proteolytic activity between serum specimens from cancer patients and controls was highly significant (P < 0.001). The introduction of a few structural key elements (affinity tags, linkers, d-amino acids) into synthetic reporter peptides increases the diagnostic sensitivity for MS-based protease profiling of serum specimens. This new approach might lead to functional MS-based protease profiling for improved disease classification.

LipSpin: A New Bioinformatics Tool for Quantitative 1H NMR Lipid Profiling.

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Barrilero, Rubén; Gil, Miriam; Amigó, Núria; Dias, Cintia B; Wood, Lisa G; Garg, Manohar L; Ribalta, Josep; Heras, Mercedes; Vinaixa, Maria; Correig, Xavier

2018-02-06

The structural similarity among lipid species and the low sensitivity and spectral resolution of nuclear magnetic resonance (NMR) have traditionally hampered the routine use of 1 H NMR lipid profiling of complex biological samples in metabolomics, which remains mostly manual and lacks freely available bioinformatics tools. However, 1 H NMR lipid profiling provides fast quantitative screening of major lipid classes (fatty acids, glycerolipids, phospholipids, and sterols) and some individual species and has been used in several clinical and nutritional studies, leading to improved risk prediction models. In this Article, we present LipSpin, a free and open-source bioinformatics tool for quantitative 1 H NMR lipid profiling. LipSpin implements a constrained line shape fitting algorithm based on voigt profiles and spectral templates from spectra of lipid standards, which automates the analysis of severely overlapped spectral regions and lipid signals with complex coupling patterns. LipSpin provides the most detailed quantification of fatty acid families and choline phospholipids in serum lipid samples by 1 H NMR to date. Moreover, analytical and clinical results using LipSpin quantifications conform with other techniques commonly used for lipid analysis.

Prediction of graft-versus-host disease in humans by donor gene-expression profiling.

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Chantal Baron

2007-01-01

Full Text Available BACKGROUND: Graft-versus-host disease (GVHD results from recognition of host antigens by donor T cells following allogeneic hematopoietic cell transplantation (AHCT. Notably, histoincompatibility between donor and recipient is necessary but not sufficient to elicit GVHD. Therefore, we tested the hypothesis that some donors may be "stronger alloresponders" than others, and consequently more likely to elicit GVHD. METHODS AND FINDINGS: To this end, we measured the gene-expression profiles of CD4(+ and CD8(+ T cells from 50 AHCT donors with microarrays. We report that pre-AHCT gene-expression profiling segregates donors whose recipient suffered from GVHD or not. Using quantitative PCR, established statistical tests, and analysis of multiple independent training-test datasets, we found that for chronic GVHD the "dangerous donor" trait (occurrence of GVHD in the recipient is under polygenic control and is shaped by the activity of genes that regulate transforming growth factor-beta signaling and cell proliferation. CONCLUSIONS: These findings strongly suggest that the donor gene-expression profile has a dominant influence on the occurrence of GVHD in the recipient. The ability to discriminate strong and weak alloresponders using gene-expression profiling could pave the way to personalized transplantation medicine.

Canonical Wnt signaling transiently stimulates proliferation and enhances neurogenesis in neonatal neural progenitor cultures

International Nuclear Information System (INIS)

Hirsch, Cordula; Campano, Louise M.; Woehrle, Simon; Hecht, Andreas

2007-01-01

Canonical Wnt signaling triggers the formation of heterodimeric transcription factor complexes consisting of β-catenin and T cell factors, and thereby controls the execution of specific genetic programs. During the expansion and neurogenic phases of embryonic neural development canonical Wnt signaling initially controls proliferation of neural progenitor cells, and later neuronal differentiation. Whether Wnt growth factors affect neural progenitor cells postnatally is not known. Therefore, we have analyzed the impact of Wnt signaling on neural progenitors isolated from cerebral cortices of newborn mice. Expression profiling of pathway components revealed that these cells are fully equipped to respond to Wnt signals. However, Wnt pathway activation affected only a subset of neonatal progenitors and elicited a limited increase in proliferation and neuronal differentiation in distinct subsets of cells. Moreover, Wnt pathway activation only transiently stimulated S-phase entry but did not support long-term proliferation of progenitor cultures. The dampened nature of the Wnt response correlates with the predominant expression of inhibitory pathway components and the rapid actuation of negative feedback mechanisms. Interestingly, in differentiating cell cultures activation of canonical Wnt signaling reduced Hes1 and Hes5 expression suggesting that during postnatal neural development, Wnt/β-catenin signaling enhances neurogenesis from progenitor cells by interfering with Notch pathway activity

Profiling water content in soils with TDR: Comparison with the neutron probe technique

International Nuclear Information System (INIS)

Laurent, J.P.

2000-01-01

In November 1996, at a site on the Grenoble campus a 1.2-m-long neutron access tube, a 0.8-m fibreglass Trime access tube and three sets of 1-m twin-rod TDR probes were installed. Weekly measurements were made over a 9-month period. In addition, soil samples were taken from time to time with an auger, to determine gravimetric water-contents. The soil bulk density profile was initially characterised by gammametry using a Campbell TM probe. A Troxler TM 4300 was used for the neutron-probe measurements. The TDR signals, for further processing by TDR-SSI, were logged using a Trase 2000 from Soil Moisture Equipment Corporation TM . TDR methods were employed without any special calibration of the permittivity/water-content relationship: standard internal calibrations of the devices or Topp polynomial relation were always applied. The results of all these water-content profiling methods were compared in three ways: (i) the water-content profiles were plotted directly on the same graph for different dates; (ii) all the water contents measured at all dates and all depths were plotted against a corresponding 'reference', namely neutron probe or gravimetry; (iii) water balances were calculated for each method and their respective time-profiles analysed. There was fairly good agreement among the three profiling methods, indicating that TDR is now a viable alternative to nuclear techniques for soil water-content profiling. (author)

A revised estimate of the distance to the clouds in the Chamaeleon complex using the Tycho-Gaia Astrometric Solution

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Voirin, Jordan; Manara, Carlo F.; Prusti, Timo

2018-03-01

Context. The determination of the distance to dark star-forming clouds is a key parameter to derive the properties of the cloud itself and of its stellar content. This parameter is still loosely constrained even in nearby star-forming regions. Aim. We want to determine the distances to the clouds in the Chamaeleon-Musca complex and explore the connection between these clouds and the large-scale cloud structures in the Galaxy. Methods: We used the newly estimated distances obtained from the parallaxes measured by the Gaia satellite and included in the Tycho-Gaia Astrometric Solution catalog. When known members of a region are included in this catalog we used their distances to infer the distance to the cloud. Otherwise, we analyzed the dependence of the color excess on the distance of the stars and looked for a turn-on of this excess, which is a proxy of the position of the front-edge of the star-forming cloud. Results: We are able to measure the distance to the three Chamaeleon clouds. The distance to Chamaeleon I is 179-10-10+11+11 pc, where the quoted uncertainties are statistical and systematic uncertainties, respectively, 20 pc further away than previously assumed. The Chamaeleon II cloud is located at the distance of 181-5-10+6+11 pc, which agrees with previous estimates. We are able to measure for the first time a distance to the Chamaeleon III cloud of 199-7-11+8+12 pc. Finally, the distance of the Musca cloud is smaller than 603-70-92+91+133 pc. These estimates do not allow us to distinguish between the possibility that the Chamaeleon clouds are part of a sheet of clouds parallel to the Galactic plane, or perpendicular to it. Conclusions: We measured a larger distance to the Chamaeleon I cloud than assumed in the past, confirmed the distance to the Chamaeleon II region, and measured for the first time the distance to the Chamaleon III cloud. These values are consistent with the scenario in which the three clouds are part of a single large-scale structure

Statistical modelling of transcript profiles of differentially regulated genes

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Sergeant Martin J

2008-07-01

Full Text Available Abstract Background The vast quantities of gene expression profiling data produced in microarray studies, and the more precise quantitative PCR, are often not statistically analysed to their full potential. Previous studies have summarised gene expression profiles using simple descriptive statistics, basic analysis of variance (ANOVA and the clustering of genes based on simple models fitted to their expression profiles over time. We report the novel application of statistical non-linear regression modelling techniques to describe the shapes of expression profiles for the fungus Agaricus bisporus, quantified by PCR, and for E. coli and Rattus norvegicus, using microarray technology. The use of parametric non-linear regression models provides a more precise description of expression profiles, reducing the "noise" of the raw data to produce a clear "signal" given by the fitted curve, and describing each profile with a small number of biologically interpretable parameters. This approach then allows the direct comparison and clustering of the shapes of response patterns between genes and potentially enables a greater exploration and interpretation of the biological processes driving gene expression. Results Quantitative reverse transcriptase PCR-derived time-course data of genes were modelled. "Split-line" or "broken-stick" regression identified the initial time of gene up-regulation, enabling the classification of genes into those with primary and secondary responses. Five-day profiles were modelled using the biologically-oriented, critical exponential curve, y(t = A + (B + CtRt + ε. This non-linear regression approach allowed the expression patterns for different genes to be compared in terms of curve shape, time of maximal transcript level and the decline and asymptotic response levels. Three distinct regulatory patterns were identified for the five genes studied. Applying the regression modelling approach to microarray-derived time course data

The depletion of protein signals in metabonomics analysis with the WET-CPMG pulse sequence

International Nuclear Information System (INIS)

Van, Que N.; Chmurny, Gwendolyn N.; Veenstra, Timothy D.

2003-01-01

Nuclear magnetic resonance (NMR) spectroscopy is a powerful analytical tool capable of providing a comprehensive metabolic profile of biofluids such as urine, plasma, and serum. Unfortunately, when measuring serum and plasma, the high protein concentration can obscure the signals originating from low molecular weight metabolites. We evaluated the use of different parameters within the Carr-Purcell-Meiboom-Gill (CPMG) pulse train of fast spin-echoes to remove the macromolecular signal contribution in one-dimensional proton ( 1 H) NMR spectra. Experimental parameters such as the refocusing delay in the CPMG pulse train, pulse miscalibration, and recycle time were examined to assess the ability to remove the protein signals from the spectrum without causing a deleterious effect on the signals originating from free, low molecular weight metabolites. The 1 H-NMR spectra of a variety of serum samples spiked with 2 ' -deoxyadenosine were acquired using various acquisition parameters. Our results show that the delay used in the CPMG spin-echo and the combination of the acquisition pulse flip angle and recycle time are the two major factors affecting the observed metabolite signal amplitudes in the resulting 1 H-NMR spectrum

Oscillation effects and time variation of the supernova neutrino signal

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Kneller, James P.; McLaughlin, Gail C.; Brockman, Justin

2008-02-01

The neutrinos detected from the next galactic core-collapse supernova will contain valuable information on the internal dynamics of the explosion. One mechanism leading to a temporal evolution of the neutrino signal is the variation of the induced neutrino flavor mixing driven by changes in the density profile. With one and two-dimensional hydrodynamical simulations we identify the behavior and properties of prominent features of the explosion. Using these results we demonstrate the time variation of the neutrino crossing probabilities due to changes in the Mikheyev-Smirnov-Wolfenstein (MSW) neutrino transformations as the star explodes by using the S-matrix—Monte Carlo—approach to neutrino propagation. After adopting spectra for the neutrinos emitted from the proto-neutron star we calculate for a galactic supernova the evolution of the positron spectra within a water Cerenkov detector and find that this signal allows us to probe of a number of explosion features.

Estrogen and high-fat diet induced alterations in C57BL/6 mice endometrial transcriptome profile

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Yali Cheng

2017-12-01

Full Text Available Unopposed estrogen stimulation and insulin resistance are known to play important roles in endometrial cancer (EC, but the interaction between these two factors and how they contribute to endometrial lesions are not completely elucidated. To investigate the endometrial transcriptome profile and the associated molecular pathway alterations, we established an ovariectomized C57BL/6 mouse model treated with subcutaneous implantation of 17-β estradiol (E2 pellet and/or high-fat diet (HFD for 12 weeks to mimic sustained estrogen stimulation and insulin resistance. Histomorphologically, we found that both E2 and E2 + HFD groups showed markedly enlarged uterus and increased number of endometrial glands. The endometrium samples were collected for microarray assay. GO and KEGG analysis showed that genes regulated by E2 and/or HFD are mainly responsible for immune response, inflammatory response and metabolic pathways. Further IPA analysis demonstrated that the acute phase response signaling, NF-κB signaling, leukocyte extravasation signaling, PPAR signaling and LXR/RXR activation pathways are mainly involved in the pathways above. In addition, the genes modulated reciprocally by E2 and/or HFD were also analyzed, and their crosstalk mainly focuses on enhancing one another’s activity. The combination analysis of microarray data and TCGA database provided potential diagnostic or therapeutic targets for EC. Further validation was performed in mice endometrium and human EC cell lines. In conclusion, this study unraveled the endometrial transcriptome profile alterations affected by E2 and/or HFD that may disturb endometrial homeostasis and contribute to the development of endometrial hyperplasia.

Expansion of banana (Musa acuminata) gene families involved in ethylene biosynthesis and signalling after lineage-specific whole-genome duplications.

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Jourda, Cyril; Cardi, Céline; Mbéguié-A-Mbéguié, Didier; Bocs, Stéphanie; Garsmeur, Olivier; D'Hont, Angélique; Yahiaoui, Nabila

2014-05-01

Whole-genome duplications (WGDs) are widespread in plants, and three lineage-specific WGDs occurred in the banana (Musa acuminata) genome. Here, we analysed the impact of WGDs on the evolution of banana gene families involved in ethylene biosynthesis and signalling, a key pathway for banana fruit ripening. Banana ethylene pathway genes were identified using comparative genomics approaches and their duplication modes and expression profiles were analysed. Seven out of 10 banana ethylene gene families evolved through WGD and four of them (1-aminocyclopropane-1-carboxylate synthase (ACS), ethylene-insensitive 3-like (EIL), ethylene-insensitive 3-binding F-box (EBF) and ethylene response factor (ERF)) were preferentially retained. Banana orthologues of AtEIN3 and AtEIL1, two major genes for ethylene signalling in Arabidopsis, were particularly expanded. This expansion was paralleled by that of EBF genes which are responsible for control of EIL protein levels. Gene expression profiles in banana fruits suggested functional redundancy for several MaEBF and MaEIL genes derived from WGD and subfunctionalization for some of them. We propose that EIL and EBF genes were co-retained after WGD in banana to maintain balanced control of EIL protein levels and thus avoid detrimental effects of constitutive ethylene signalling. In the course of evolution, subfunctionalization was favoured to promote finer control of ethylene signalling. © 2014 CIRAD New Phytologist © 2014 New Phytologist Trust.

Exopolysaccharide-associated protein sorting in environmental organisms: the PEP-CTERM/EpsH system. Application of a novel phylogenetic profiling heuristic

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Ward Naomi

2006-08-01

Full Text Available Abstract Background Protein translocation to the proper cellular destination may be guided by various classes of sorting signals recognizable in the primary sequence. Detection in some genomes, but not others, may reveal sorting system components by comparison of the phylogenetic profile of the class of sorting signal to that of various protein families. Results We describe a short C-terminal homology domain, sporadically distributed in bacteria, with several key characteristics of protein sorting signals. The domain includes a near-invariant motif Pro-Glu-Pro (PEP. This possible recognition or processing site is followed by a predicted transmembrane helix and a cluster rich in basic amino acids. We designate this domain PEP-CTERM. It tends to occur multiple times in a genome if it occurs at all, with a median count of eight instances; Verrucomicrobium spinosum has sixty-five. PEP-CTERM-containing proteins generally contain an N-terminal signal peptide and exhibit high diversity and little homology to known proteins. All bacteria with PEP-CTERM have both an outer membrane and exopolysaccharide (EPS production genes. By a simple heuristic for screening phylogenetic profiles in the absence of pre-formed protein families, we discovered that a homolog of the membrane protein EpsH (exopolysaccharide locus protein H occurs in a species when PEP-CTERM domains are found. The EpsH family contains invariant residues consistent with a transpeptidase function. Most PEP-CTERM proteins are encoded by single-gene operons preceded by large intergenic regions. In the Proteobacteria, most of these upstream regions share a DNA sequence, a probable cis-regulatory site that contains a sigma-54 binding motif. The phylogenetic profile for this DNA sequence exactly matches that of three proteins: a sigma-54-interacting response regulator (PrsR, a transmembrane histidine kinase (PrsK, and a TPR protein (PrsT. Conclusion These findings are consistent with the hypothesis

A method of multi-crack shape identification from eddy current testing signals of steam generator tubes including support plates as noise sources

International Nuclear Information System (INIS)

Nagaya, Yoshiaki; Endo, Hisashi; Takagi, Toshiyuki; Uchimoto, Tetsuya

2005-01-01

This paper deals with identifying multiple cracks from eddy current testing (ECT) signals obtained in a steam generator tube with a support plate and deposits. Assume two-dimensionally scanned ECT signals to be a picture image, then the signal processing by a multi-frequency technique eliminates noise caused by the support plate and deposits. A template matching with help of genetic algorithms detects number and positions of cracks from the image after the signal processing. Inverse analysis estimates the crack profile based on the predicted position of cracks. The number and positions of the cracks are sufficiently well predicted. Crack shape reconstructions are achieved with a satisfactory degree of accuracy. (author)

Molecular pathway profiling of T lymphocyte signal transduction pathways; Th1 and Th2 genomic fingerprints are defined by TCR and CD28-mediated signaling

NARCIS (Netherlands)

Smeets, Ruben L.; Fleuren, Wilco W. M.; He, Xuehui; Vink, Paul M.; Wijnands, Frank; Gorecka, Monika; Klop, Henri; Bauerschmidt, Sussane; Garritsen, Anja; Koenen, Hans J. P. M.; Joosten, Irma; Boots, Annemieke M. H.; Alkema, Wynand

2012-01-01

Background: T lymphocytes are orchestrators of adaptive immunity. Naive T cells may differentiate into Th1, Th2, Th17 or iTreg phenotypes, depending on environmental co-stimulatory signals. To identify genes and pathways involved in differentiation of Jurkat T cells towards Th1 and Th2 subtypes we

Molecular pathway profiling of T lymphocyte signal transduction pathways; Th1 and Th2 genomic fingerprints are defined by TCR and CD28-mediated signaling.

NARCIS (Netherlands)

Smeets, R.L.; Fleuren, W.W.M.; He, X.; Vink, P.M.; Wijnands, F.; Gorecka, M.; Klop, H.; Bauerschmidt, S.; Garritsen, A.; Koenen, H.J.P.M.; Joosten, I.; Boots, A.M.H.; Alkema, W.

2012-01-01

BACKGROUND: T lymphocytes are orchestrators of adaptive immunity. Naive T cells may differentiate into Th1, Th2, Th17 or iTreg phenotypes, depending on environmental co-stimulatory signals. To identify genes and pathways involved in differentiation of Jurkat T cells towards Th1 and Th2 subtypes we

Use of glow discharge in measurement of diffusion profile

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Baudin, Guy

1976-05-01

The composition of a glow discharge plasma is a good image of the composition of the surface being erroded without fusion. The depth of metal eated away is a linear function of time in 10 to 60μ range, that is too say between 2 and 20 minutes after lightning of the lamp. So measuring the emission of the discharge is function of time gives the diffusion profile of elements either by measuring instantaneous signal or by integrating during short periods of time for weak concentration. Examples of application for diffusion of N 2 and C in steel will be given [fr

Numerical Signal Analysis of Thermo-Cyclically Operated MOG Gas Sensor Arrays for Early Identification of Emissions from Overloaded Electric Cables

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Rolf Seifert

2015-10-01

Full Text Available A thermo-cyclically operated multi metal oxide gas sensor (MOG array is introduced together with a novel signal analysis approach (SimSens for identifying the emissions from overheated isolation cable materials thereby detecting the fires originated in electrical cabinets at early stages. The MOG array can yield specific conductance signatures appropriate to specifically identify gases. The obtained results bear good capability for detection and identification of pyrolysis gas emissions at relatively low sample heating temperatures even before a visible color-change of the polyvinyl chloride (PVC-isolation material. The dynamic conductance signals were evaluated using SimSens, a numerical analysis tool designed for simultaneous evaluation of conductance profiles. The results show promising pyrolysis gas identification and concentration determination capabilities in relation to the conductance profile shapes of model gases like carbon monoxide (CO and propene.

Distinct signalling properties of insulin receptor substrate (IRS)-1 and IRS-2 in mediating insulin/IGF-1 action.

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Rabiee, Atefeh; Krüger, Marcus; Ardenkjær-Larsen, Jacob; Kahn, C Ronald; Emanuelli, Brice

2018-07-01

Insulin/IGF-1 action is driven by a complex and highly integrated signalling network. Loss-of-function studies indicate that the major insulin/IGF-1 receptor substrate (IRS) proteins, IRS-1 and IRS-2, mediate different biological functions in vitro and in vivo, suggesting specific signalling properties despite their high degree of homology. To identify mechanisms contributing to the differential signalling properties of IRS-1 and IRS-2 in the mediation of insulin/IGF-1 action, we performed comprehensive mass spectrometry (MS)-based phosphoproteomic profiling of brown preadipocytes from wild type, IRS-1 -/- and IRS-2 -/- mice in the basal and IGF-1-stimulated states. We applied stable isotope labeling by amino acids in cell culture (SILAC) for the accurate quantitation of changes in protein phosphorylation. We found ~10% of the 6262 unique phosphorylation sites detected to be regulated by IGF-1. These regulated sites included previously reported substrates of the insulin/IGF-1 signalling pathway, as well as novel substrates including Nuclear Factor I X and Semaphorin-4B. In silico prediction suggests the protein kinase B (PKB), protein kinase C (PKC), and cyclin-dependent kinase (CDK) as the main mediators of these phosphorylation events. Importantly, we found preferential phosphorylation patterns depending on the presence of either IRS-1 or IRS-2, which was associated with specific sets of kinases involved in signal transduction downstream of these substrates such as PDHK1, MAPK3, and PKD1 for IRS-1, and PIN1 and PKC beta for IRS-2. Overall, by generating a comprehensive phosphoproteomic profile from brown preadipocyte cells in response to IGF-1 stimulation, we reveal both common and distinct insulin/IGF-1 signalling events mediated by specific IRS proteins. Copyright © 2018 Elsevier Inc. All rights reserved.

Establishing a milkborne disease outbreak profile: potential food defense implications.

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Newkirk, Ryan; Hedberg, Craig; Bender, Jeff

2011-03-01

The main objectives of this study were to establish baseline characteristics for milkborne outbreaks, establish an expected milkborne outbreak profile, and identify potential indicators of food terrorism. This study used 1990-2006 data from the Centers for Disease Control and Prevention Annual Listings of Disease Outbreaks and the Foodborne Outbreak Database (FOOD) to establish epidemiologic baseline characteristics for disease outbreaks associated with fluid milk. FOOD data from 2007 were used to qualitatively validate the potential of the baseline characteristics and the expected outbreak profile. Eighty-three fluid milkborne outbreaks were reported between 1990 and 2006, resulting in 3621 illnesses. The mean number of illnesses per outbreak was 43.6 (illness range: 2-1644). Consumption of unpasteurized milk was associated with 55.4% of reported outbreaks. Campylobacter spp., Escherichia coli, and Salmonella spp. caused 51.2%, 10.8%, and 9.6% of reported outbreaks, respectively. Private homes accounted for 41.0% of outbreak locations. Number ill, outbreak location, and etiology were the primary characteristics which could signal a potential intentional contamination event. In 2007, one pasteurized milk outbreak caused by Listeria was flagged as aberrative compared with the expected outbreak profile. The creation and dissemination of expected outbreak profiles and epidemiologic baseline characteristics allow public health and Homeland Security officials to quickly assess the potential of intentional food contamination. A faster public health and medical system response can result in decreased morbidity and mortality.

Cyclic AMP signaling restricts activation and promotes maturation and antioxidant defenses in astrocytes.

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Paco, Sonia; Hummel, Manuela; Plá, Virginia; Sumoy, Lauro; Aguado, Fernando

2016-04-23

cAMP signaling produces dramatic changes in astrocyte morphology and physiology. However, its involvement in phenotype acquisition and the transcriptionally mediated mechanisms of action are largely unknown. Here we analyzed the global transcriptome of cultured astroglial cells incubated with activators of cAMP pathways. A bulk of astroglial transcripts, 6221 annotated genes, were differentially regulated by cAMP signaling. cAMP analogs strongly upregulated genes involved in typical functions of mature astrocytes, such as homeostatic control, metabolic and structural support to neurons, antioxidant defense and communication, whereas they downregulated a considerable number of proliferating and immaturity-related transcripts. Moreover, numerous genes typically activated in reactive cells, such as scar components and immunological mediators, were repressed by cAMP. GSEA analysis contrasting gene expression profiles with transcriptome signatures of acutely isolated astrocytes and in situ evaluation of protein levels in these cells showed that cAMP signaling conferred mature and in vivo-like transcriptional features to cultured astrocytes. These results indicate that cAMP signaling is a key pathway promoting astrocyte maturation and restricting their developmental and activation features. Therefore, a positive modulation of cAMP signaling may promote the normal state of differentiated astrocytes and favor the protection and function of neuronal networks.

Phospho-Tyrosine(s) vs. Phosphatidylinositol Binding in Shc Mediated Integrin Signaling.

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Lin, Xiaochen; Vinogradova, Olga

2015-04-01

The Shc adaptor protein, particularly its p52 isoform, has been identified as a primary signaling partner for the tyrosine(s)-phosphorylated cytoplasmic tails of activated β 3 integrins. Inspired by our recent structure of the Shc PTB domain in complex with a bi-phosphorylated peptide derived from β 3 cytoplasmic tail, we have initiated the investigation of Shc interaction with phospholipids of the membrane. We are particularly focused on PtdIns and their effects on Shc mediated integrin signaling in vitro . Here we present thermodynamic profiles and molecular details of the interactions between Shc, integrin, and PtdIns, all of which have been studied by ITC and solution NMR methods. A model of p52 Shc interaction with phosphorylated β 3 integrin cytoplasmic tail at the cytosolic face of the plasma membrane is proposed based on these data.

Transcriptomic profiling of linolenic acid-responsive genes in ROS signalling from RNA-seq data in Arabidopsis

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Capilla eMata-Pérez

2015-03-01

Full Text Available Linolenic acid (Ln released from chloroplast membrane galactolipids is a precursor of the phytohormone jasmonic acid (JA. The involvement of this hormone in different plant biological processes, such as responses to biotic stress conditions, has been extensively studied. However, the role of Ln in the regulation of gene expression during abiotic stress situations mediated by cellular redox changes and/or by oxidative stress processes remains poorly understood. An RNA-seq approach has increased our knowledge of the interplay among Ln, oxidative stress and ROS signalling that mediates abiotic stress conditions. Transcriptome analysis with the aid of RNA-seq in the absence of oxidative stress revealed that the incubation of Arabidopsis thaliana cell suspension cultures (ACSC with Ln resulted in the modulation of 7525 genes, of which 3034 genes had a 2 fold-change, being 533 up- and 2501 down-regulated genes, respectively. Thus, RNA-seq data analysis showed that an important set of these genes were associated with the jasmonic acid biosynthetic pathway including lypoxygenases (LOXs and Allene oxide cyclases (AOCs. In addition, several transcription factor families involved in the response to biotic stress conditions (pathogen attacks or herbivore feeding, such as WRKY, JAZ, MYC and LRR were also modified in response to Ln. However, this study also shows that Ln has the capacity to modulate the expression of genes involved in the response to abiotic stress conditions, particularly those mediated by ROS signalling. In this regard, we were able to identify new targets such as galactinol synthase 1 (GOLS1, methionine sulfoxide reductase (MSR and alkenal reductase in ACSC. It is therefore possible to suggest that, in the absence of any oxidative stress, Ln is capable of modulating new sets of genes involved in the signalling mechanism mediated by additional abiotic stresses (salinity, UV and high light intensity and especially in stresses mediated by ROS.

Simulating return signals of a spaceborne high-spectral resolution lidar channel at 532 nm

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Xiao, Yu; Binglong, Chen; Min, Min; Xingying, Zhang; Lilin, Yao; Yiming, Zhao; Lidong, Wang; Fu, Wang; Xiaobo, Deng

2018-06-01

High spectral resolution lidar (HSRL) system employs a narrow spectral filter to separate the particulate (cloud/aerosol) and molecular scattering components in lidar return signals, which improves the quality of the retrieved cloud/aerosol optical properties. To better develop a future spaceborne HSRL system, a novel simulation technique was developed to simulate spaceborne HSRL return signals at 532 nm using the Cloud-Aerosol Lidar and Infrared Pathfinder Satellite Observation (CALIPSO) cloud/aerosol extinction coefficients product and numerical weather prediction data. For validating simulated data, a mathematical particulate extinction coefficient retrieval method for spaceborne HSRL return signals is described here. We compare particulate extinction coefficient profiles from the CALIPSO operational product with simulated spaceborne HSRL data. Further uncertainty analysis shows that relative uncertainties are acceptable for retrieving the optical properties of cloud and aerosol. The final results demonstrate that they agree well with each other. It indicates that the return signals of the spaceborne HSRL molecular channel at 532 nm will be suitable for developing operational algorithms supporting a future spaceborne HSRL system.

Signal and Noise Delineation for Prompt-Gamma Detection during Hadrontherapy

International Nuclear Information System (INIS)

Chin, M.-P.W.; Cerutti, F.; Ferrari, A.; Garcia-Ortega, P.; Sala, P.-R.

2013-06-01

Proton and carbon therapies of a human brain were simulated using FLUKA, with particular emphasis on treatment monitoring using the prompt gamma method where activities of the source proton/carbon in the patient's body are to be extracted from the positional profile of exit photons. Tissue heterogeneity ranging from hydrogen to zinc was represented in a VIP-Man anthropomorphic voxel phantom. Each photon exiting the head was scored with ancestry attributes such as the particle type of its parent, the originating collision type and site. These data, not accessible via physical detectors, were analysed to characterise the escaping photons, delineating signal from noise according to the gamma origin and scatter history. Combinations of energy, geometry, time and angle filters, aided by ray-tracing, were studied for the optimal compromise between a sufficiently featured exit profile and a statistically adequate count. These will be put in context with ongoing research in the field; our perspective for the prompt gamma method will be discussed in detail. (authors)

Searching mixed DNA profiles directly against profile databases.

Science.gov (United States)

Bright, Jo-Anne; Taylor, Duncan; Curran, James; Buckleton, John

2014-03-01

DNA databases have revolutionised forensic science. They are a powerful investigative tool as they have the potential to identify persons of interest in criminal investigations. Routinely, a DNA profile generated from a crime sample could only be searched for in a database of individuals if the stain was from single contributor (single source) or if a contributor could unambiguously be determined from a mixed DNA profile. This meant that a significant number of samples were unsuitable for database searching. The advent of continuous methods for the interpretation of DNA profiles offers an advanced way to draw inferential power from the considerable investment made in DNA databases. Using these methods, each profile on the database may be considered a possible contributor to a mixture and a likelihood ratio (LR) can be formed. Those profiles which produce a sufficiently large LR can serve as an investigative lead. In this paper empirical studies are described to determine what constitutes a large LR. We investigate the effect on a database search of complex mixed DNA profiles with contributors in equal proportions with dropout as a consideration, and also the effect of an incorrect assignment of the number of contributors to a profile. In addition, we give, as a demonstration of the method, the results using two crime samples that were previously unsuitable for database comparison. We show that effective management of the selection of samples for searching and the interpretation of the output can be highly informative. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

Microlensing events by Proxima Centauri in 2014 and 2016: Opportunities for mass determination and possible planet detection

Energy Technology Data Exchange (ETDEWEB)

Sahu, Kailash C.; Bond, Howard E.; Anderson, Jay [Space Telescope Science Institute, 3700 San Martin Drive, Baltimore, MD 21218 (United States); Dominik, Martin, E-mail: ksahu@stsci.edu, E-mail: jayander@stsci.edu, E-mail: heb11@psu.edu, E-mail: md35@st-andrews.ac.uk [SUPA, School of Physics and Astronomy, University of St. Andrews, North Haugh, St. Andrews KY16 9SS (United Kingdom)

2014-02-20

We have found that Proxima Centauri, the star closest to our Sun, will pass close to a pair of faint background stars in the next few years. Using Hubble Space Telescope (HST) images obtained in 2012 October, we determine that the passage close to a mag 20 star will occur in 2014 October (impact parameter 1.''6), and to a mag 19.5 star in 2016 February (impact parameter 0.''5). As Proxima passes in front of these stars, the relativistic deflection of light will cause shifts in the positions of the background stars of ∼0.5 and 1.5 mas, respectively, readily detectable by HST imaging, and possibly by Gaia and ground-based facilities such as the Very Large Telescope. Measurement of these astrometric shifts offers a unique and direct method to measure the mass of Proxima. Moreover, if Proxima has a planetary system, the planets may be detectable through their additional microlensing signals, although the probability of such detections is small. With astrometric accuracies of 0.03 mas (achievable with HST spatial scanning), centroid shifts caused by Jovian planets are detectable at separations of up to 2.''0 (corresponding to 2.6 AU at the distance of Proxima), and centroid shifts by Earth-mass planets are detectable within a small band of 8 mas (corresponding to 0.01 AU) around the source trajectories. Jovian planets within a band of about 28 mas (corresponding to 0.036 AU) around the source trajectories would produce a brightening of the source by >0.01 mag and could hence be detectable. Estimated timescales of the astrometric and photometric microlensing events due to a planet range from a few hours to a few days, and both methods would provide direct measurements of the planetary mass.

THE BENEFITS OF VLBI ASTROMETRY TO PULSAR TIMING ARRAY SEARCHES FOR GRAVITATIONAL RADIATION

Energy Technology Data Exchange (ETDEWEB)

Madison, D. R.; Chatterjee, S.; Cordes, J. M. [Department of Astronomy and Center for Radiophysics and Space Research, Cornell University, Ithaca, NY 14850 (United States)

2013-11-10

Precision astrometry is an integral component of successful pulsar timing campaigns. Astrometric parameters are commonly derived by fitting them as parameters of a timing model to a series of pulse times of arrival (TOAs). TOAs measured to microsecond precision over spans of several years can yield position measurements with sub-milliarcsecond precision. However, timing-based astrometry can become biased if a pulsar displays any red spin noise or a red signal produced by the stochastic gravitational wave background. We investigate how noise of different spectral types is absorbed by timing models, leading to significant estimation biases in the astrometric parameters. We find that commonly used techniques for fitting timing models in the presence of red noise (Cholesky whitening) prevent the absorption of noise into the timing model remarkably well if the time baseline of observations exceeds several years, but are inadequate for dealing with shorter pulsar data sets. Independent of timing, pulsar-optimized very long baseline interferometry (VLBI) is capable of providing position estimates precise to the sub-milliarcsecond levels needed for high-precision timing. In order to make VLBI astrometric parameters useful in pulsar timing models, the transformation between the International Celestial Reference Frame (ICRF) and the dynamical solar system ephemeris used for pulsar timing must be constrained to within a few microarcseconds. We compute a transformation between the ICRF and pulsar timing frames and quantitatively discuss how the transformation will improve in coming years. We find that incorporating VLBI astrometry into the timing models of pulsars for which only a couple of years of timing data exist will lead to more realistic assessments of red spin noise and could enhance the amplitude of gravitational wave signatures in post-fit timing residuals by factors of 20 or more.

Molecular classification of fatty liver by high-throughput profiling of protein post-translational modifications.

Science.gov (United States)

Urasaki, Yasuyo; Fiscus, Ronald R; Le, Thuc T

2016-04-01

We describe an alternative approach to classifying fatty liver by profiling protein post-translational modifications (PTMs) with high-throughput capillary isoelectric focusing (cIEF) immunoassays. Four strains of mice were studied, with fatty livers induced by different causes, such as ageing, genetic mutation, acute drug usage, and high-fat diet. Nutrient-sensitive PTMs of a panel of 12 liver metabolic and signalling proteins were simultaneously evaluated with cIEF immunoassays, using nanograms of total cellular protein per assay. Changes to liver protein acetylation, phosphorylation, and O-N-acetylglucosamine glycosylation were quantified and compared between normal and diseased states. Fatty liver tissues could be distinguished from one another by distinctive protein PTM profiles. Fatty liver is currently classified by morphological assessment of lipid droplets, without identifying the underlying molecular causes. In contrast, high-throughput profiling of protein PTMs has the potential to provide molecular classification of fatty liver. Copyright © 2016 Pathological Society of Great Britain and Ireland. Published by John Wiley & Sons, Ltd.

Evidence of the influence of reflections on the Zeff profile measurements and their mitigation

International Nuclear Information System (INIS)

Schunke, B.; Huysmans, G.; Thomas, P.

2004-01-01

There is a significant interest in the reconstruction of the mean effective charge (Zeff) profile to assess the control of the plasma impurities. On Tore-Supra a modified Abel inversion of the visible Bremsstrahlung allows the calculation of the Zeff profile. Although the total number of viewing lines of the Bremsstrahlung diagnostic is small, the method gives acceptable accuracy due to the high poloidal symmetry (circularity) of the Tore-Supra plasma. It has been noticed that the outer channels were often over-estimated, giving unphysical high Zeff at the edge of 20 or more. An experimental set-up using dedicated discharges has showed that reflections on the vacuum vessel wall are responsible for the additional signal component. It was attempted to model the impact of these reflections on the calculated profile but it appeared that the choice of the model depends strongly on the accurate value of the reflection coefficient of the vacuum wall of Tore-Supra

Evidence of the influence of reflections on the Zeff profile measurements and their mitigation

Energy Technology Data Exchange (ETDEWEB)

Schunke, B.; Huysmans, G.; Thomas, P

2004-07-01

There is a significant interest in the reconstruction of the mean effective charge (Zeff) profile to assess the control of the plasma impurities. On Tore-Supra a modified Abel inversion of the visible Bremsstrahlung allows the calculation of the Zeff profile. Although the total number of viewing lines of the Bremsstrahlung diagnostic is small, the method gives acceptable accuracy due to the high poloidal symmetry (circularity) of the Tore-Supra plasma. It has been noticed that the outer channels were often over-estimated, giving unphysical high Zeff at the edge of 20 or more. An experimental set-up using dedicated discharges has showed that reflections on the vacuum vessel wall are responsible for the additional signal component. It was attempted to model the impact of these reflections on the calculated profile but it appeared that the choice of the model depends strongly on the accurate value of the reflection coefficient of the vacuum wall of Tore-Supra.

Profiles

International Nuclear Information System (INIS)

2004-01-01

Profiles is a synthetic overview of more than 100 national energy markets in the world, providing insightful facts and key energy statistics. A Profile is structured around 6 main items and completed by key statistics: Ministries, public agencies, energy policy are concerned; main companies in the oil, gas, electricity and coal sectors, status, shareholders; reserve, production, imports and exports, electricity and refining capacities; deregulation of prices, subsidies, taxes; consumption trends by sector, energy market shares; main energy projects, production and consumption prospects. Statistical Profiles are present in about 3 pages the main data and indicators on oil, gas, coal and electricity. (A.L.B.)

Kinome-wide transcriptional profiling of uveal melanoma reveals new vulnerabilities to targeted therapeutics.

Science.gov (United States)

Bailey, Fiona P; Clarke, Kim; Kalirai, Helen; Kenyani, Jenna; Shahidipour, Haleh; Falciani, Francesco; Coulson, Judy M; Sacco, Joseph J; Coupland, Sarah E; Eyers, Patrick A

2018-03-01

Metastatic uveal melanoma (UM) is invariably fatal, usually within a year of diagnosis. There are currently no effective therapies, and clinical studies employing kinase inhibitors have so far demonstrated limited success. This is despite common activating mutations in GNAQ/11 genes, which trigger signalling pathways that might predispose tumours to a variety of targeted drugs. In this study, we have profiled kinome expression network dynamics in various human ocular melanomas. We uncovered a shared transcriptional profile in human primary UM samples and across a variety of experimental cell-based models. The poor overall response of UM cells to FDA-approved kinase inhibitors contrasted with much higher sensitivity to the bromodomain inhibitor JQ1, a broad transcriptional repressor. Mechanistically, we identified a repressed FOXM1-dependent kinase subnetwork in JQ1-exposed cells that contained multiple cell cycle-regulated protein kinases. Consistently, we demonstrated vulnerability of UM cells to inhibitors of mitotic protein kinases within this network, including the investigational PLK1 inhibitor BI6727. We conclude that analysis of kinome-wide signalling network dynamics has the potential to reveal actionable drug targets and inhibitors of potential therapeutic benefit for UM patients. © 2017 The Authors. Pigment Cell & Melanoma Research Published by John Wiley & Sons.

Modeling of Nonlinear Beat Signals of TAE's

Science.gov (United States)

Zhang, Bo; Berk, Herbert; Breizman, Boris; Zheng, Linjin

2012-03-01

Experiments on Alcator C-Mod reveal Toroidal Alfven Eigenmodes (TAE) together with signals at various beat frequencies, including those at twice the mode frequency. The beat frequencies are sidebands driven by quadratic nonlinear terms in the MHD equations. These nonlinear sidebands have not yet been quantified by any existing codes. We extend the AEGIS code to capture nonlinear effects by treating the nonlinear terms as a driving source in the linear MHD solver. Our goal is to compute the spatial structure of the sidebands for realistic geometry and q-profile, which can be directly compared with experiment in order to interpret the phase contrast imaging diagnostic measurements and to enable the quantitative determination of the Alfven wave amplitude in the plasma core

Monitoring and Management of Toxicities of Novel B Cell Signaling Agents.

Science.gov (United States)

Rhodes, Joanna; Mato, Anthony; Sharman, Jeff P

2018-04-11

B cell signaling agents, including ibrutinib, idelalisib, and the BCL-2 inhibitor venetoclax have become an integral part of therapy for patients with non-Hodgkin's lymphomas. The toxicity profiles of these medications is distinct from chemoimmunotherapy. Here, we will review the mechanism of action of these drugs, their efficacy, and toxicity management. Ibrutinib use is associated with increased risk of atrial fibrillation and bleeding which can be managed using dose interruptions and modifications. Patients on idelalisib require close clinical and frequent laboratory monitoring, particularly of liver function tests to ensure there are no serious adverse events. Monitoring for infections is important in patients on both idelalisib and ibrutinib. Venetoclax requires close clinical and laboratory monitoring to prevent significant tumor lysis. Targeted B cell receptor therapies each have unique side effect profiles which require careful clinical monitoring. As we continue to use these therapies, optimal management strategies will continue to be elucidated.

Mars Global Surveyor Radio Science Electron Density Profiles: Interannual Variability and Implications for the Neutral Atmosphere

Science.gov (United States)

Bougher, S. W.; Engel, S.; Hinson, D. P.; Murphy, J. R.

2003-01-01

The Mars Global Surveyor (MGS) Radio Science (RS) experiment employs an ultrastable oscillator aboard the spacecraft. The signal from the oscillator to Earth is refracted by the Martian ionosphere, allowing retrieval of electron density profiles versus radius and geopotential. The present analysis is carried out on five sets of occultation measurements: (1) four obtained near northern summer solstice (Ls = 74-116, near aphelion) at high northern latitudes (64.7-77.6N), and (2) one set of profiles approaching equinox conditions (Ls = 135- 146) at high southern latitudes (64.7-69.1S). Electron density profiles (95 to 200 km) are examined over a narrow range of solar zenith angles (76.5-86.9 degrees) for local true solar times of (1) 3-4 hours and (2) 12.1 hours. Variations spanning 1-Martian year are specifically examined in the Northern hemisphere.

Integrated inertial sensors and mobile computing for real-time cycling performance guidance via pedaling profile classification.

Science.gov (United States)

Xu, James Y; Nan, Xiaomeng; Ebken, Victor; Wang, Yan; Pottie, Greg J; Kaiser, William J

2015-03-01

Today, the bicycle is utilized as a daily commute tool, a physical rehabilitation asset, and sporting equipment, prompting studies into the biomechanics of cycling. Of the number of important parameters that affect cycling efficiency, the foot angle profile is one of the most important as it correlates directly with the effective force applied to the bike. However, there has been no compact and portable solution for measuring the foot angle and for providing the cyclist with real-time feedback due to a number of difficulties of the current tracking and sensing technologies and the myriad types of bikes available. This paper presents a novel sensing and mobile computing system for classifying the foot angle profiles during cycling and for providing real-time guidance to the user to achieve the correct profile. Continuous foot angle tracking is firstly converted into a discrete problem requiring only recognition of acceleration profiles of the foot using a single shoe mounted tri-axial accelerometer during each pedaling cycle. A classification method is then applied to identify the pedaling profile. Finally, a mobile solution is presented to provide real-time signal processing and guidance.

EEG-informed fMRI analysis during a hand grip task: estimating the relationship between EEG rhythms and the BOLD signal

Directory of Open Access Journals (Sweden)

Roberta eSclocco

2014-04-01

Full Text Available In the last decade, an increasing interest has arisen in investigating the relationship between the electrophysiological and hemodynamic measurements of brain activity, such as EEG and (BOLD fMRI. In particular, changes in BOLD have been shown to be associated with changes in the spectral profile of neural activity, rather than with absolute power. Concurrently, recent findings showed that different EEG rhythms are independently related to changes in the BOLD signal: therefore, it would be important to distinguish between the contributions of the different EEG rhythms to BOLD fluctuations when modeling the relationship between the two signals. Here we propose a method to perform EEG-informed fMRI analysis, in which the EEG regressors take into account both the changes in the spectral profile and the rhythms distinction. We applied it to EEG-fMRI data during a hand grip task in healthy subjects, and compared the results with those obtained by two existing models found in literature. Our results showed that the proposed method better captures the correlations between BOLD signal and EEG rhythms modulations, identifying task-related, well localized activated volumes. Furthermore, we showed that including among the regressors also EEG rhythms not primarily involved in the task enhances the performance of the analysis, even when only correlations with BOLD signal and specific EEG rhythms are explored.

EGFR/Ras Signaling Controls Drosophila Intestinal Stem Cell Proliferation via Capicua-Regulated Genes.

Directory of Open Access Journals (Sweden)

Yinhua Jin

2015-12-01

Full Text Available Epithelial renewal in the Drosophila intestine is orchestrated by Intestinal Stem Cells (ISCs. Following damage or stress the intestinal epithelium produces ligands that activate the epidermal growth factor receptor (EGFR in ISCs. This promotes their growth and division and, thereby, epithelial regeneration. Here we demonstrate that the HMG-box transcriptional repressor, Capicua (Cic, mediates these functions of EGFR signaling. Depleting Cic in ISCs activated them for division, whereas overexpressed Cic inhibited ISC proliferation and midgut regeneration. Epistasis tests showed that Cic acted as an essential downstream effector of EGFR/Ras signaling, and immunofluorescence showed that Cic's nuclear localization was regulated by EGFR signaling. ISC-specific mRNA expression profiling and DNA binding mapping using DamID indicated that Cic represses cell proliferation via direct targets including string (Cdc25, Cyclin E, and the ETS domain transcription factors Ets21C and Pointed (pnt. pnt was required for ISC over-proliferation following Cic depletion, and ectopic pnt restored ISC proliferation even in the presence of overexpressed dominant-active Cic. These studies identify Cic, Pnt, and Ets21C as critical downstream effectors of EGFR signaling in Drosophila ISCs.

Design and implementation of a data acquisition system for the study of dynamics signals in the time Domain

International Nuclear Information System (INIS)

Daza, Arnoldo; Hinojosa, Ana; Diaz, Xavier; Neira, Oscar

2011-01-01

The purpose of this research was to design and implement a data acquisition system for the study of dynamic signals in the time in order of nanoseconds, through the use of electronic instrumentation to obtain the temporal profiles of light signals, such as pulses of light from a laser or fluorescent light signals. To carry out the design and implementation of the data acquisition system proposed, we used a rapid response transducer and a data acquisition card of high speed. As well, it was developed a graphical user interface for visualization, analysis and study of the data acquired. Thus, it was possible to perform the digitization of a pulse on the order of nanoseconds, as well as the acquisition of fluorescence signals of different wavelengths, from which to obtain theoretical and experimental valuable knowledge based on the physics of spectroscopy.

Karolinske psychodynamic profile (KAPP)

DEFF Research Database (Denmark)

Mathiesen, Birgit Bork; Søgaard, Ulf

2006-01-01

psykologiske testmetoder, assesment, Karolinska psychodynamic profile (KAPP), psykodynamisk profil......psykologiske testmetoder, assesment, Karolinska psychodynamic profile (KAPP), psykodynamisk profil...

Highly sensitive and specific derivatization strategy to profile and quantitate eicosanoids by UPLC-MS/MS

Energy Technology Data Exchange (ETDEWEB)

Hu, Ting; Tie, Cai; Wang, Zhe; Zhang, Jin-Lan, E-mail: zhjl@imm.ac.cn

2017-01-15

Eicosanoids are signaling molecules mainly oxidized from arachidonic acid (ARA) and eicosapentaenoic acid (EPA) or docosahexaenoic acid (DHA). They have attracted increasing attention from the scientists attributing to their essential physiological functions. However, their quantification have long been challenged by the low abundance, high structure similarity, poor stability and limited ionization efficiency. In this paper, an ultra-high performance liquid chromatograph coupled with tandem mass spectrometry (UPLC-MS/MS) strategy was developed for the comprehensive profiling of more than 60 eicosanoids based on an efficient derivatization reagent 2,4-bis(diethylamino)-6-hydrazino-1,3,5-triazine (T3) and general multiple reaction monitoring (MRM) parameters. Carboxylic acid of eicosanoid was converted to amide in 30 min at 4 °C with derivatization yield larger than 99%. Limits of quantitation (LOQs) for derivatized eicosanoids varied from 0.05 to 50 pg depending on their structures. The sensitivities of derivatized eicosanoids were enhanced by 10- to 5000-folds compared to free eicosanoids. Stabilities of T3 modified eicosanoids were also highly improved compared to free eicosanoids. This new method can also be used to quantify eicosanoids in bio-samples using isotopic internal standards with high efficiency and reliability within 19 min. 46 and 50 eicosanoids in rat plasma and heart tissue from control and acute myocardial ischemia (AMI) model rats were respectively profiled and quantitated using this new method. And 24 of 46 and 25 of 50 eicosanoids were found to be significantly changed between control and model groups. The changed eicosanoids related to AMI modeling were further statistically analyzed and interpreted based on eicosanoid metabolism pathway. - Highlights: • Eicosanoids are important signaling molecules. • A highly sensitive and specific derivatization strategy was developed for eicosanoid profiling. • The strategy was employed for

Highly sensitive and specific derivatization strategy to profile and quantitate eicosanoids by UPLC-MS/MS

International Nuclear Information System (INIS)

Hu, Ting; Tie, Cai; Wang, Zhe; Zhang, Jin-Lan

2017-01-01

Eicosanoids are signaling molecules mainly oxidized from arachidonic acid (ARA) and eicosapentaenoic acid (EPA) or docosahexaenoic acid (DHA). They have attracted increasing attention from the scientists attributing to their essential physiological functions. However, their quantification have long been challenged by the low abundance, high structure similarity, poor stability and limited ionization efficiency. In this paper, an ultra-high performance liquid chromatograph coupled with tandem mass spectrometry (UPLC-MS/MS) strategy was developed for the comprehensive profiling of more than 60 eicosanoids based on an efficient derivatization reagent 2,4-bis(diethylamino)-6-hydrazino-1,3,5-triazine (T3) and general multiple reaction monitoring (MRM) parameters. Carboxylic acid of eicosanoid was converted to amide in 30 min at 4 °C with derivatization yield larger than 99%. Limits of quantitation (LOQs) for derivatized eicosanoids varied from 0.05 to 50 pg depending on their structures. The sensitivities of derivatized eicosanoids were enhanced by 10- to 5000-folds compared to free eicosanoids. Stabilities of T3 modified eicosanoids were also highly improved compared to free eicosanoids. This new method can also be used to quantify eicosanoids in bio-samples using isotopic internal standards with high efficiency and reliability within 19 min. 46 and 50 eicosanoids in rat plasma and heart tissue from control and acute myocardial ischemia (AMI) model rats were respectively profiled and quantitated using this new method. And 24 of 46 and 25 of 50 eicosanoids were found to be significantly changed between control and model groups. The changed eicosanoids related to AMI modeling were further statistically analyzed and interpreted based on eicosanoid metabolism pathway. - Highlights: • Eicosanoids are important signaling molecules. • A highly sensitive and specific derivatization strategy was developed for eicosanoid profiling. • The strategy was employed for

Phenotypic and microRNA transcriptomic profiling of the MDA-MB-231 spheroid-enriched CSCs with comparison of MCF-7 microRNA profiling dataset

Directory of Open Access Journals (Sweden)

Lily Boo

2017-07-01

Full Text Available Breast cancer spheroids have been widely used as in vitro models of cancer stem cells (CSCs, yet little is known about their phenotypic characteristics and microRNAs (miRNAs expression profiles. The objectives of this research were to evaluate the phenotypic characteristics of MDA-MB-231 spheroid-enriched cells for their CSCs properties and also to determine their miRNAs expression profile. Similar to our previously published MCF-7 spheroid, MDA-MB-231 spheroid also showed typical CSCs characteristics namely self-renewability, expression of putative CSCs-related surface markers and enhancement of drug resistance. From the miRNA profile, miR-15b, miR-34a, miR-148a, miR-628 and miR-196b were shown to be involved in CSCs-associated signalling pathways in both models of spheroids, which highlights the involvement of these miRNAs in maintaining the CSCs features. In addition, unique clusters of miRNAs namely miR-205, miR-181a and miR-204 were found in basal-like spheroid whereas miR-125, miR-760, miR-30c and miR-136 were identified in luminal-like spheroid. Our results highlight the roles of miRNAs as well as novel perspectives of the relevant pathways underlying spheroid-enriched CSCs in breast cancer.

Fano lineshapes of 'Peak-tracking chip' spatial profiles analyzed with correlation analysis for bioarray imaging and refractive index sensing

KAUST Repository

Bougot-Robin, K.

2013-05-22

The asymmetric Fano resonance lineshapes, resulting from interference between background and a resonant scattering, is archetypal in resonant waveguide grating (RWG) reflectivity. Resonant profile shift resulting from a change of refractive index (from fluid medium or biomolecules at the chip surface) is classically used to perform label-free sensing. Lineshapes are sometimes sampled at discretized “detuning” values to relax instrumental demands, the highest reflectivity element giving a coarse resonance estimate. A finer extraction, needed to increase sensor sensitivity, can be obtained using a correlation approach, correlating the sensed signal to a zero-shifted reference signal. Fabrication process is presented leading to discrete Fano profiles. Our findings are illustrated with resonance profiles from silicon nitride RWGs operated at visible wavelengths. We recently demonstrated that direct imaging multi-assay RWGs sensing may be rendered more reliable using “chirped” RWG chips, by varying a RWG structure parameter. Then, the spatial reflectivity profiles of tracks composed of RWGs units with slowly varying filling factor (thus slowly varying resonance condition) are measured under monochromatic conditions. Extracting the resonance location using spatial Fano profiles allows multiplex refractive index based sensing. Discretization and sensitivity are discussed both through simulation and experiment for different filling factor variation, here Δf=0.0222 and Δf=0.0089. This scheme based on a “Peak-tracking chip” demonstrates a new technique for bioarray imaging using a simpler set-up that maintains high performance with cheap lenses, with down to Δn=2×10-5 RIU sensitivity for the highest sampling of Fano lineshapes. © (2013) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE). Downloading of the abstract is permitted for personal use only.

Fano lineshapes of 'Peak-tracking chip' spatial profiles analyzed with correlation analysis for bioarray imaging and refractive index sensing

KAUST Repository

Bougot-Robin, K.; Li, S.; Yue, W.; Chen, L. Q.; Zhang, Xixiang; Wen, W. J.; Benisty, H.

2013-01-01

The asymmetric Fano resonance lineshapes, resulting from interference between background and a resonant scattering, is archetypal in resonant waveguide grating (RWG) reflectivity. Resonant profile shift resulting from a change of refractive index (from fluid medium or biomolecules at the chip surface) is classically used to perform label-free sensing. Lineshapes are sometimes sampled at discretized “detuning” values to relax instrumental demands, the highest reflectivity element giving a coarse resonance estimate. A finer extraction, needed to increase sensor sensitivity, can be obtained using a correlation approach, correlating the sensed signal to a zero-shifted reference signal. Fabrication process is presented leading to discrete Fano profiles. Our findings are illustrated with resonance profiles from silicon nitride RWGs operated at visible wavelengths. We recently demonstrated that direct imaging multi-assay RWGs sensing may be rendered more reliable using “chirped” RWG chips, by varying a RWG structure parameter. Then, the spatial reflectivity profiles of tracks composed of RWGs units with slowly varying filling factor (thus slowly varying resonance condition) are measured under monochromatic conditions. Extracting the resonance location using spatial Fano profiles allows multiplex refractive index based sensing. Discretization and sensitivity are discussed both through simulation and experiment for different filling factor variation, here Δf=0.0222 and Δf=0.0089. This scheme based on a “Peak-tracking chip” demonstrates a new technique for bioarray imaging using a simpler set-up that maintains high performance with cheap lenses, with down to Δn=2×10-5 RIU sensitivity for the highest sampling of Fano lineshapes. © (2013) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE). Downloading of the abstract is permitted for personal use only.

Signaling aggression.

Science.gov (United States)

van Staaden, Moira J; Searcy, William A; Hanlon, Roger T

2011-01-01

From psychological and sociological standpoints, aggression is regarded as intentional behavior aimed at inflicting pain and manifested by hostility and attacking behaviors. In contrast, biologists define aggression as behavior associated with attack or escalation toward attack, omitting any stipulation about intentions and goals. Certain animal signals are strongly associated with escalation toward attack and have the same function as physical attack in intimidating opponents and winning contests, and ethologists therefore consider them an integral part of aggressive behavior. Aggressive signals have been molded by evolution to make them ever more effective in mediating interactions between the contestants. Early theoretical analyses of aggressive signaling suggested that signals could never be honest about fighting ability or aggressive intentions because weak individuals would exaggerate such signals whenever they were effective in influencing the behavior of opponents. More recent game theory models, however, demonstrate that given the right costs and constraints, aggressive signals are both reliable about strength and intentions and effective in influencing contest outcomes. Here, we review the role of signaling in lieu of physical violence, considering threat displays from an ethological perspective as an adaptive outcome of evolutionary selection pressures. Fighting prowess is conveyed by performance signals whose production is constrained by physical ability and thus limited to just some individuals, whereas aggressive intent is encoded in strategic signals that all signalers are able to produce. We illustrate recent advances in the study of aggressive signaling with case studies of charismatic taxa that employ a range of sensory modalities, viz. visual and chemical signaling in cephalopod behavior, and indicators of aggressive intent in the territorial calls of songbirds. Copyright © 2011 Elsevier Inc. All rights reserved.

Glycosylation profiles of therapeutic antibody pharmaceuticals.

Science.gov (United States)

Wacker, Christoph; Berger, Christoph N; Girard, Philippe; Meier, Roger

2011-11-01

Recombinant antibodies specific for human targets are often used as therapeutics and represent a major class of drug products. Their therapeutic efficacy depends on the formation of antibody complexes resulting in the elimination of a target molecule or the modulation of specific signalling pathways. The physiological effects of antibody therapeutics are known to depend on the structural characteristics of the antibody molecule, specifically on the glycosylation which is the result of posttranslational modifications. Hence, production of therapeutic antibodies with a defined and consistent glycoform profile is needed which still remains a considerable challenge to the biopharmaceutical industry. To provide an insight into the industries capability to control their manufacturing process and to provide antibodies of highest quality, we conducted a market surveillance study and compared major oligosaccharide profiles of a number of monoclonal antibody pharmaceuticals sampled on the Swiss market. Product lot-to-lot variability was found to be generally low, suggesting that a majority of manufacturers have implemented high quality standards in their production processes. However, proportions of G0, G1 and G2 core-fucosylated chains derived from different products varied considerably and showed a bias towards the immature agalactosidated G0 form. Interestingly, differences in glycosylation caused by the production cell type seem to be of less importance compared with process related parameters such as cell growth. Copyright © 2011 Elsevier B.V. All rights reserved.

Ant Queen Egg-Marking Signals: Matching Deceptive Laboratory Simplicity with Natural Complexity

DEFF Research Database (Denmark)

van Zweden, Jelle Stijn; Heinze, Jürgen; Boomsma, Jacobus Jan

2009-01-01

Background Experiments under controlled laboratory conditions can produce decisive evidence for testing biological hypotheses, provided they are representative of the more complex natural conditions. However, whether this requirement is fulfilled is seldom tested explicitly. Here we provide a lab....../field comparison to investigate the identity of an egg-marking signal of ant queens. Our study was based on ant workers resolving conflict over male production by destroying each other's eggs, but leaving queen eggs unharmed. For this, the workers need a proximate cue to discriminate between the two egg types...... that this compound by itself is not the natural queen egg-marking pheromone. We subsequently investigated the overall differences of entire chemical profiles of eggs, and found that queen-laid eggs in field colonies are more distinct from worker-laid eggs than in lab colonies, have more variation in profiles...

Computation of restoration of ligand response in the random kinetics of a prostate cancer cell signaling pathway.

Science.gov (United States)

Dana, Saswati; Nakakuki, Takashi; Hatakeyama, Mariko; Kimura, Shuhei; Raha, Soumyendu

2011-01-01

Mutation and/or dysfunction of signaling proteins in the mitogen activated protein kinase (MAPK) signal transduction pathway are frequently observed in various kinds of human cancer. Consistent with this fact, in the present study, we experimentally observe that the epidermal growth factor (EGF) induced activation profile of MAP kinase signaling is not straightforward dose-dependent in the PC3 prostate cancer cells. To find out what parameters and reactions in the pathway are involved in this departure from the normal dose-dependency, a model-based pathway analysis is performed. The pathway is mathematically modeled with 28 rate equations yielding those many ordinary differential equations (ODE) with kinetic rate constants that have been reported to take random values in the existing literature. This has led to us treating the ODE model of the pathways kinetics as a random differential equations (RDE) system in which the parameters are random variables. We show that our RDE model captures the uncertainty in the kinetic rate constants as seen in the behavior of the experimental data and more importantly, upon simulation, exhibits the abnormal EGF dose-dependency of the activation profile of MAP kinase signaling in PC3 prostate cancer cells. The most likely set of values of the kinetic rate constants obtained from fitting the RDE model into the experimental data is then used in a direct transcription based dynamic optimization method for computing the changes needed in these kinetic rate constant values for the restoration of the normal EGF dose response. The last computation identifies the parameters, i.e., the kinetic rate constants in the RDE model, that are the most sensitive to the change in the EGF dose response behavior in the PC3 prostate cancer cells. The reactions in which these most sensitive parameters participate emerge as candidate drug targets on the signaling pathway. 2011 Elsevier Ireland Ltd. All rights reserved.

Robust power detector for wideband signals among many single tone signals

Science.gov (United States)

Musgrove, Cameron H.; Thompson, Douglas

2018-03-06

Various technologies for isolating a signal of interest from signals received contemporaneously by an antenna are described herein. A time period for which a signal of interest is present in a second signal can be identified based upon ratios of values of the second signal to the mean value of the second signal. When the ratio of the value of the second signal at a particular time to the mean of the second signal exceeds a threshold value, the signal of interest is considered to be present in the second signal.

Towards the systematic discovery of signal transduction networks using phosphorylation dynamics data

Directory of Open Access Journals (Sweden)

Yachie Nozomu

2010-05-01

Full Text Available Abstract Background Phosphorylation is a ubiquitous and fundamental regulatory mechanism that controls signal transduction in living cells. The number of identified phosphoproteins and their phosphosites is rapidly increasing as a result of recent mass spectrometry-based approaches. Results We analyzed time-course phosphoproteome data obtained previously by liquid chromatography mass spectrometry with the stable isotope labeling using amino acids in cell culture (SILAC method. This provides the relative phosphorylation activities of digested peptides at each of five time points after stimulating HeLa cells with epidermal growth factor (EGF. We initially calculated the correlations between the phosphorylation dynamics patterns of every pair of peptides and connected the strongly correlated pairs to construct a network. We found that peptides extracted from the same intracellular fraction (nucleus vs. cytoplasm tended to be close together within this phosphorylation dynamics-based network. The network was then analyzed using graph theory and compared with five known signal-transduction pathways. The dynamics-based network was correlated with known signaling pathways in the NetPath and Phospho.ELM databases, and especially with the EGF receptor (EGFR signaling pathway. Although the phosphorylation patterns of many proteins were drastically changed by the EGF stimulation, our results suggest that only EGFR signaling transduction was both strongly activated and precisely controlled. Conclusions The construction of a phosphorylation dynamics-based network provides a useful overview of condition-specific intracellular signal transduction using quantitative time-course phosphoproteome data under specific experimental conditions. Detailed prediction of signal transduction based on phosphoproteome dynamics remains challenging. However, since the phosphorylation profiles of kinase-substrate pairs on the specific pathway were localized in the dynamics

BELINDA: Broadband Emission Lidar with Narrowband Determination of Absorption. A new concept for measuring water vapor and temperature profiles

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Theopold, F. A.; Weitkamp, C.; Michaelis, W.

1992-01-01

We present a new concept for differential absorption lidar measurements of water vapor and temperature profiles. The idea is to use one broadband emission laser and a narrowband filter system for separation of the 'online' and 'offline' return signals. It is shown that BELINDA offers improvements as to laser emission shape and stability requirements, background suppression, and last and most important a significant reduction of the influence of Rayleigh scattering. A suitably designed system based on this concept is presented, capable of measuring water vapor or temperature profiles throughout the planetary boundary layer.

O-GlcNAc profiling: from proteins to proteomes

Science.gov (United States)

2014-01-01

O-linked β-D-N-acetylglucosamine (O-GlcNAc) modification (O-GlcNAcylation) onto serine and threonine residues of proteins is an important post-translational modification (PTM), which is involved in many crucial biological processes including transcription, translation, proteasomal degradation, and signal transduction. Aberrant protein O-GlcNAcylation is directly linked to the pathological progression of chronic diseases including diabetes, cancer, and neurodegenerative disorders. Identification, site mapping, and quantification of O-GlcNAc proteins are a prerequisite to decipher their functions. In this review, we mainly focus on technological developments regarding O-GlcNAc protein profiling. Specifically, on one hand, we show how these techniques are being used for the comprehensive characterization of certain targeted proteins in which biologists are most interested. On the other hand, we present several newly developed approaches for O-GlcNAcomic profiling as well as how they provide us with a systems perspective to crosstalk amongst different PTMs and complicated biological events. Promising technical trends are also highlighted to evoke more efforts by diverse laboratories, which would further expand our understanding of the physiological and pathological roles of protein O-GlcNAcylation in chronic diseases. PMID:24593906

Investigating the Fundamentals of Molecular Depth Profiling Using Strong-field Photoionization of Sputtered Neutrals

Science.gov (United States)

Willingham, D.; Brenes, D. A.; Winograd, N.; Wucher, A.

2010-01-01

Molecular depth profiles of model organic thin films were performed using a 40 keV C60+ cluster ion source in concert with TOF-SIMS. Strong-field photoionization of intact neutral molecules sputtered by 40 keV C60+ primary ions was used to analyze changes in the chemical environment of the guanine thin films as a function of ion fluence. Direct comparison of the secondary ion and neutral components of the molecular depth profiles yields valuable information about chemical damage accumulation as well as changes in the molecular ionization probability. An analytical protocol based on the erosion dynamics model is developed and evaluated using guanine and trehalose molecular secondary ion signals with and without comparable laser photoionization data. PMID:26269660

Salicylic acid signaling inhibits apoplastic reactive oxygen species signaling.

Science.gov (United States)

Xu, Enjun; Brosché, Mikael

2014-06-04

Reactive oxygen species (ROS) are used by plants as signaling molecules during stress and development. Given the amount of possible challenges a plant face from their environment, plants need to activate and prioritize between potentially conflicting defense signaling pathways. Until recently, most studies on signal interactions have focused on phytohormone interaction, such as the antagonistic relationship between salicylic acid (SA)-jasmonic acid and cytokinin-auxin. In this study, we report an antagonistic interaction between SA signaling and apoplastic ROS signaling. Treatment with ozone (O3) leads to a ROS burst in the apoplast and induces extensive changes in gene expression and elevation of defense hormones. However, Arabidopsis thaliana dnd1 (defense no death1) exhibited an attenuated response to O3. In addition, the dnd1 mutant displayed constitutive expression of defense genes and spontaneous cell death. To determine the exact process which blocks the apoplastic ROS signaling, double and triple mutants involved in various signaling pathway were generated in dnd1 background. Simultaneous elimination of SA-dependent and SA-independent signaling components from dnd1 restored its responsiveness to O3. Conversely, pre-treatment of plants with SA or using mutants that constitutively activate SA signaling led to an attenuation of changes in gene expression elicited by O3. Based upon these findings, we conclude that plants are able to prioritize the response between ROS and SA via an antagonistic action of SA and SA signaling on apoplastic ROS signaling.

Colorectal cancer mutational profiles correlate with defined microbial communities in the tumor microenvironment.

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Burns, Michael B; Montassier, Emmanuel; Abrahante, Juan; Priya, Sambhawa; Niccum, David E; Khoruts, Alexander; Starr, Timothy K; Knights, Dan; Blekhman, Ran

2018-06-20

Variation in the gut microbiome has been linked to colorectal cancer (CRC), as well as to host genetic variation. However, we do not know whether, in addition to baseline host genetics, somatic mutational profiles in CRC tumors interact with the surrounding tumor microbiome, and if so, whether these changes can be used to understand microbe-host interactions with potential functional biological relevance. Here, we characterized the association between CRC microbial communities and tumor mutations using microbiome profiling and whole-exome sequencing in 44 pairs of tumors and matched normal tissues. We found statistically significant associations between loss-of-function mutations in tumor genes and shifts in the abundances of specific sets of bacterial taxa, suggestive of potential functional interaction. This correlation allows us to statistically predict interactions between loss-of-function tumor mutations in cancer-related genes and pathways, including MAPK and Wnt signaling, solely based on the composition of the microbiome. In conclusion, our study shows that CRC microbiomes are correlated with tumor mutational profiles, pointing towards possible mechanisms of molecular interaction.

Profile: Asian Americans

Science.gov (United States)

... and Data > Minority Population Profiles > Asian American Profile: Asian Americans Asian American Profile (Map of the US with the top 10 states displaying the largest Asian American population according to the Census Bureau) CA - ...

Basal cell carcinoma pathogenesis and therapy involving hedgehog signaling and beyond.

Science.gov (United States)

Bakshi, Anshika; Chaudhary, Sandeep C; Rana, Mehtab; Elmets, Craig A; Athar, Mohammad

2017-12-01

Basal cell carcinoma (BCC) of the skin is driven by aberrant hedgehog signaling. Thus blocking this signaling pathway by small molecules such as vismodegib inhibits tumor growth. Primary cilium in the epidermal cells plays an integral role in the processing of hedgehog signaling-related proteins. Recent genomic studies point to the involvement of additional genetic mutations that might be associated with the development of BCCs, suggesting significance of other signaling pathways, such as WNT, NOTCH, mTOR, and Hippo, aside from hedgehog in the pathogenesis of this human neoplasm. Some of these pathways could be regulated by noncoding microRNA. Altered microRNA expression profile is recognized with the progression of these lesions. Stopping treatment with Smoothened (SMO) inhibitors often leads to tumor reoccurrence in the patients with basal cell nevus syndrome, who develop 10-100 of BCCs. In addition, the initial effectiveness of these SMO inhibitors is impaired due to the onset of mutations in the drug-binding domain of SMO. These data point to a need to develop strategies to overcome tumor recurrence and resistance and to enhance efficacy by developing novel single agent-based or multiple agents-based combinatorial approaches. Immunotherapy and photodynamic therapy could be additional successful approaches particularly if developed in combination with chemotherapy for inoperable and metastatic BCCs. © 2017 Wiley Periodicals, Inc.

Blood Gene Expression Profiling of Breast Cancer Survivors Experiencing Fibrosis

International Nuclear Information System (INIS)

Landmark-Hoyvik, Hege; Dumeaux, Vanessa; Reinertsen, Kristin V.; Edvardsen, Hege; Fossa, Sophie D.; Borresen-Dale, Anne-Lise

2011-01-01

Purpose: To extend knowledge on the mechanisms and pathways involved in maintenance of radiation-induced fibrosis (RIF) by performing gene expression profiling of whole blood from breast cancer (BC) survivors with and without fibrosis 3-7 years after end of radiotherapy treatment. Methods and Materials: Gene expression profiles from blood were obtained for 254 BC survivors derived from a cohort of survivors, treated with adjuvant radiotherapy for breast cancer 3-7 years earlier. Analyses of transcriptional differences in blood gene expression between BC survivors with fibrosis (n = 31) and BC survivors without fibrosis (n = 223) were performed using R version 2.8.0 and tools from the Bioconductor project. Gene sets extracted through a literature search on fibrosis and breast cancer were subsequently used in gene set enrichment analysis. Results: Substantial differences in blood gene expression between BC survivors with and without fibrosis were observed, and 87 differentially expressed genes were identified through linear analysis. Transforming growth factor-β1 signaling was identified as the most significant gene set, showing a down-regulation of most of the core genes, together with up-regulation of a transcriptional activator of the inhibitor of fibrinolysis, Plasminogen activator inhibitor 1 in the BC survivors with fibrosis. Conclusion: Transforming growth factor-β1 signaling was found down-regulated during the maintenance phase of fibrosis as opposed to the up-regulation reported during the early, initiating phase of fibrosis. Hence, once the fibrotic tissue has developed, the maintenance phase might rather involve a deregulation of fibrinolysis and altered degradation of extracellular matrix components.

Gene expression profiles of fin regeneration in loach (Paramisgurnus dabryanu).

Science.gov (United States)

Li, Li; He, Jingya; Wang, Linlin; Chen, Weihua; Chang, Zhongjie

2017-11-01

Teleost fins can regenerate accurate position-matched structure and function after amputation. However, we still lack systematic transcriptional profiling and methodologies to understand the molecular basis of fin regeneration. After histological analysis, we established a suppression subtraction hybridization library containing 418 distinct sequences expressed differentially during the process of blastema formation and differentiation in caudal fin regeneration. Genome ontology and comparative analysis of differential distribution of our data and the reference zebrafish genome showed notable subcategories, including multi-organism processes, response to stimuli, extracellular matrix, antioxidant activity, and cell junction function. KEGG pathway analysis allowed the effective identification of relevant genes in those pathways involved in tissue morphogenesis and regeneration, including tight junction, cell adhesion molecules, mTOR and Jak-STAT signaling pathway. From relevant function subcategories and signaling pathways, 78 clones were examined for further Southern-blot hybridization. Then, 17 genes were chosen and characterized using semi-quantitative PCR. Then 4 candidate genes were identified, including F11r, Mmp9, Agr2 and one without a match to any database. After real-time quantitative PCR, the results showed obvious expression changes in different periods of caudal fin regeneration. We can assume that the 4 candidates, likely valuable genes associated with fin regeneration, deserve additional attention. Thus, our study demonstrated how to investigate the transcript profiles with an emphasis on bioinformatics intervention and how to identify potential genes related to fin regeneration processes. The results also provide a foundation or knowledge for further research into genes and molecular mechanisms of fin regeneration. Copyright © 2017 Elsevier B.V. All rights reserved.

Developmental gene expression profiles of the human pathogen Schistosoma japonicum

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McManus Donald P

2009-03-01

Full Text Available Abstract Background The schistosome blood flukes are complex trematodes and cause a chronic parasitic disease of significant public health importance worldwide, schistosomiasis. Their life cycle is characterised by distinct parasitic and free-living phases involving mammalian and snail hosts and freshwater. Microarray analysis was used to profile developmental gene expression in the Asian species, Schistosoma japonicum. Total RNAs were isolated from the three distinct environmental phases of the lifecycle – aquatic/snail (eggs, miracidia, sporocysts, cercariae, juvenile (lung schistosomula and paired but pre-egg laying adults and adult (paired, mature males and egg-producing females, both examined separately. Advanced analyses including ANOVA, principal component analysis, and hierarchal clustering provided a global synopsis of gene expression relationships among the different developmental stages of the schistosome parasite. Results Gene expression profiles were linked to the major environmental settings through which the developmental stages of the fluke have to adapt during the course of its life cycle. Gene ontologies of the differentially expressed genes revealed a wide range of functions and processes. In addition, stage-specific, differentially expressed genes were identified that were involved in numerous biological pathways and functions including calcium signalling, sphingolipid metabolism and parasite defence. Conclusion The findings provide a comprehensive database of gene expression in an important human pathogen, including transcriptional changes in genes involved in evasion of the host immune response, nutrient acquisition, energy production, calcium signalling, sphingolipid metabolism, egg production and tegumental function during development. This resource should help facilitate the identification and prioritization of new anti-schistosome drug and vaccine targets for the control of schistosomiasis.

The time course of individual face recognition: A pattern analysis of ERP signals.

Science.gov (United States)

Nemrodov, Dan; Niemeier, Matthias; Mok, Jenkin Ngo Yin; Nestor, Adrian

2016-05-15

An extensive body of work documents the time course of neural face processing in the human visual cortex. However, the majority of this work has focused on specific temporal landmarks, such as N170 and N250 components, derived through univariate analyses of EEG data. Here, we take on a broader evaluation of ERP signals related to individual face recognition as we attempt to move beyond the leading theoretical and methodological framework through the application of pattern analysis to ERP data. Specifically, we investigate the spatiotemporal profile of identity recognition across variation in emotional expression. To this end, we apply pattern classification to ERP signals both in time, for any single electrode, and in space, across multiple electrodes. Our results confirm the significance of traditional ERP components in face processing. At the same time though, they support the idea that the temporal profile of face recognition is incompletely described by such components. First, we show that signals associated with different facial identities can be discriminated from each other outside the scope of these components, as early as 70ms following stimulus presentation. Next, electrodes associated with traditional ERP components as well as, critically, those not associated with such components are shown to contribute information to stimulus discriminability. And last, the levels of ERP-based pattern discrimination are found to correlate with recognition accuracy across subjects confirming the relevance of these methods for bridging brain and behavior data. Altogether, the current results shed new light on the fine-grained time course of neural face processing and showcase the value of novel methods for pattern analysis to investigating fundamental aspects of visual recognition. Copyright © 2016 Elsevier Inc. All rights reserved.

Polarized cellular patterns of endocannabinoid production and detection shape cannabinoid signaling in neurons

Directory of Open Access Journals (Sweden)

Delphine eLadarre

2015-01-01

Full Text Available Neurons display important differences in plasma membrane composition between somatodendritic and axonal compartments, potentially leading to currently unexplored consequences in G-protein-coupled-receptor signaling. Here, by using highly-resolved biosensor imaging to measure local changes in basal levels of key signaling components, we explored features of type-1 cannabinoid receptor (CB1R signaling in individual axons and dendrites of cultured rat hippocampal neurons. Activation of endogenous CB1Rs led to rapid, Gi/o-protein- and cAMP-mediated decrease of cyclic-AMP-dependent protein kinase (PKA activity in the somatodendritic compartment. In axons, PKA inhibition was significantly stronger, in line with axonally-polarized distribution of CB1Rs. Conversely, inverse agonist AM281 produced marked rapid increase of basal PKA activation in somata and dendrites, but not in axons, removing constitutive activation of CB1Rs generated by local production of the endocannabinoid 2-arachidonoylglycerol (2-AG. Interestingly, somatodendritic 2-AG levels differently modified signaling responses to CB1R activation by Δ9-THC, the psychoactive compound of marijuana, and by the synthetic cannabinoids WIN55,212-2 and CP55,940. These highly contrasted differences in sub-neuronal signaling responses warrant caution in extrapolating pharmacological profiles, which are typically obtained in non-polarized cells, to predict in vivo responses of axonal (i.e. presynaptic GPCRs. Therefore, our results suggest that enhanced comprehension of GPCR signaling constraints imposed by neuronal cell biology may improve the understanding of neuropharmacological action.

Fractal properties of background noise and target signal enhancement using CSEM data

Science.gov (United States)

Benavides, Alfonso; Everett, Mark E.; Pierce, Carl; Nguyen, Cam

2003-09-01

Controlled-source electromagnetic (CSEM) spatial profiles and 2-D conductivity maps were obtained on the Brazos Valley, TX floodplain to study the fractal statistics of geological signals and effects of man-made conductive targets using Geonics EM34, EM31 and EM63. Using target-free areas, a consistent power-law power spectrum (|A(k)| ~ k ^-β) for the profiles was found with β values typical of fractional Brownian motion (fBm). This means that the spatial variation of conductivity does not correspond to Gaussian statistics, where there are spatial correlations at different scales. The presence of targets tends to flatten the power-law power spectrum (PS) at small wavenumbers. Detection and localization of targets can be achieved using short-time Fourier transform (STFT). The presence of targets is enhanced because the signal energy is spread to higher wavenumbers (small scale numbers) in the positions occupied by the targets. In the case of poor spatial sampling or small amount of data, the information available from the power spectrum is not enough to separate spatial correlations from target signatures. Advantages are gained by using the spatial correlations of the fBm in order to reject the background response, and to enhance the signals from highly conductive targets. This approach was tested for the EM31 using a pre-processing step that combines apparent conductivity readings from two perpendicular transmitter-receiver orientations at each station. The response obtained using time-domain CSEM is influence to a lesser degree by geological noise and the target response can be processed to recover target features. The homotopy method is proposed to solve the inverse problem using a set of possible target models and a dynamic library of responses used to optimize the starting model.

Synergism between Hedgehog-GLI and EGFR signaling in Hedgehog-responsive human medulloblastoma cells induces downregulation of canonical Hedgehog-target genes and stabilized expression of GLI1.

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Frank Götschel

Full Text Available Aberrant activation of Hedgehog (HH signaling has been identified as a key etiologic factor in many human malignancies. Signal strength, target gene specificity, and oncogenic activity of HH signaling depend profoundly on interactions with other pathways, such as epidermal growth factor receptor-mediated signaling, which has been shown to cooperate with HH/GLI in basal cell carcinoma and pancreatic cancer. Our experimental data demonstrated that the Daoy human medulloblastoma cell line possesses a fully inducible endogenous HH pathway. Treatment of Daoy cells with Sonic HH or Smoothened agonist induced expression of GLI1 protein and simultaneously prevented the processing of GLI3 to its repressor form. To study interactions between HH- and EGF-induced signaling in greater detail, time-resolved measurements were carried out and analyzed at the transcriptomic and proteomic levels. The Daoy cells responded to the HH/EGF co-treatment by downregulating GLI1, PTCH, and HHIP at the transcript level; this was also observed when Amphiregulin (AREG was used instead of EGF. We identified a novel crosstalk mechanism whereby EGFR signaling silences proteins acting as negative regulators of HH signaling, as AKT- and ERK-signaling independent process. EGFR/HH signaling maintained high GLI1 protein levels which contrasted the GLI1 downregulation on the transcript level. Conversely, a high-level synergism was also observed, due to a strong and significant upregulation of numerous canonical EGF-targets with putative tumor-promoting properties such as MMP7, VEGFA, and IL-8. In conclusion, synergistic effects between EGFR and HH signaling can selectively induce a switch from a canonical HH/GLI profile to a modulated specific target gene profile. This suggests that there are more wide-spread, yet context-dependent interactions, between HH/GLI and growth factor receptor signaling in human malignancies.

Impacts of temperature and lunar day on gene expression profiles during a monthly reproductive cycle in the brooding coral Pocillopora damicornis.

Science.gov (United States)

Crowder, Camerron M; Meyer, Eli; Fan, Tung-Yung; Weis, Virginia M

2017-08-01

Reproductive timing in brooding corals has been correlated to temperature and lunar irradiance, but the mechanisms by which corals transduce these environmental variables into molecular signals are unknown. To gain insight into these processes, global gene expression profiles in the coral Pocillopora damicornis were examined (via RNA-Seq) across lunar phases and between temperature treatments, during a monthly planulation cycle. The interaction of temperature and lunar day together had the largest influence on gene expression. Mean timing of planulation, which occurred at lunar days 7.4 and 12.5 for 28- and 23°C-treated corals, respectively, was associated with an upregulation of transcripts in individual temperature treatments. Expression profiles of planulation-associated genes were compared between temperature treatments, revealing that elevated temperatures disrupted expression profiles associated with planulation. Gene functions inferred from homologous matches to online databases suggest complex neuropeptide signalling, with calcium as a central mediator, acting through tyrosine kinase and G protein-coupled receptor pathways. This work contributes to our understanding of coral reproductive physiology and the impacts of environmental variables on coral reproductive pathways. © 2017 John Wiley & Sons Ltd.

Using physicochemical and compositional characteristics of DNA sequence for prediction of genomic signals

KAUST Repository

Mulamba, Pierre Abraham

2014-12-01

The challenge in finding genes in eukaryotic organisms using computational methods is an ongoing problem in the biology. Based on various genomic signals found in eukaryotic genomes, this problem can be divided into many different sub­‐problems such as identification of transcription start sites, translation initiation sites, splice sites, poly (A) signals, etc. Each sub-­problem deals with a particular type of genomic signals and various computational methods are used to solve each sub-­problem. Aggregating information from all these individual sub-­problems can lead to a complete annotation of a gene and its component signals. The fundamental principle of most of these computational methods is the mapping principle – building an input-­output model for the prediction of a particular genomic signal based on a set of known input signals and their corresponding output signal. The type of input signals used to build the model is an essential element in most of these computational methods. The common factor of most of these methods is that they are mainly based on the statistical analysis of the basic nucleotide sequence string composition. 4 Our study is based on a novel approach to predict genomic signals in which uniquely generated structural profiles that combine compressed physicochemical properties with topological and compositional properties of DNA sequences are used to develop machine learning predictive models. The compression of the physicochemical properties is made using principal component analysis transformation. Our ideas are evaluated through prediction models of canonical splice sites using support vector machine models. We demonstrate across several species that the proposed methodology has resulted in the most accurate splice site predictors that are publicly available or described. We believe that the approach in this study is quite general and has various applications in other biological modeling problems.

Pluto-Charon Stellar Occultation Candidates: 1990-1995

Science.gov (United States)

Dunham, E. W.; McDonald, S. W.; Elliot, J. L.

1991-01-01

We have carried out a search to identify stars that might be occulted by Pluto or Charon during the period 1990-1995 and part of 1996. This search was made with an unfiltered CCD camera operated in the strip scanning mode, and it reaches an R magnitude of approximately 17.5-about 1.5 mag fainter than previous searches. Circumstances for each of the 162 potential occultations are given, including an approximate R magnitude of the star, which allows estimation of the signal-to-noise ratio (S/N) for observation of each occultation. The faintest stars in our list would yield an S/N of about 20 for a 1 S integration when observed with a CCD detector on an 8 m telescope under a dark sky. Our astrometric precision (+/- 0.2 arcsec, with larger systematic errors possible for individual cases) is insufficient to serve as a final prediction for these potential occultations, but is sufficient to identify stars deserving of further, more accurate, astrometric observations. Statistically, we expect about 32 of these events to be observable somewhere on Earth. The number of events actually observed will be substantially smaller because of clouds and the sparse distribution of large telescopes. Finder charts for each of the 91 stars involved are presented.

Development and validation of a skin fibroblast biomarker profile for schizophrenic patients

Directory of Open Access Journals (Sweden)

Marianthi Logotheti

2016-12-01

Full Text Available Gene expression profiles of non-neural tissues through microarray technology could be used in schizophrenia studies, adding more information to the results from similar studies on postmortem brain tissue. The ultimate goal of such studies is to develop accessible biomarkers. Supervised machine learning methodologies were used, in order to examine if the gene expression from skin fibroblast cells could be exploited for the classification of schizophrenic subjects. A dataset of skin fibroblasts gene expression of schizophrenia patients was obtained from Gene Expression Omnibus database. After applying statistical criteria, we concluded to genes that present a differential expression between the schizophrenic patients and the healthy controls. Based on those genes, functional profiling was performed with the BioInfoMiner web tool. After the statistical analysis, 63 genes were identified as differentially expressed. The functional profiling revealed interesting terms and pathways, such as mitogen activated protein kinase and cyclic adenosine monophosphate signaling pathways, as well as immune-related mechanisms. A subset of 16 differentially expressed genes from fibroblast gene expression profiling that occurred after Support Vector Machines Recursive Feature Elimination could efficiently separate schizophrenic from healthy controls subjects. These findings suggest that through the analysis of fibroblast based gene expression signature and with the application of machine learning methodologies we might conclude to a diagnostic classification model in schizophrenia.

Breast cancer oestrogen independence mediated by BCAR1 or BCAR3 genes is transmitted through mechanisms distinct from the oestrogen receptor signalling pathway or the epidermal growth factor receptor signalling pathway

International Nuclear Information System (INIS)

Dorssers, Lambert CJ; Agthoven, Ton van; Brinkman, Arend; Veldscholte, Jos; Smid, Marcel; Dechering, Koen J

2005-01-01

Tamoxifen is effective for endocrine treatment of oestrogen receptor-positive breast cancers but ultimately fails due to the development of resistance. A functional screen in human breast cancer cells identified two BCAR genes causing oestrogen-independent proliferation. The BCAR1 and BCAR3 genes both encode components of intracellular signal transduction, but their direct effect on breast cancer cell proliferation is not known. The aim of this study was to investigate the growth control mediated by these BCAR genes by gene expression profiling. We have measured the expression changes induced by overexpression of the BCAR1 or BCAR3 gene in ZR-75-1 cells and have made direct comparisons with the expression changes after cell stimulation with oestrogen or epidermal growth factor (EGF). A comparison with published gene expression data of cell models and breast tumours is made. Relatively few changes in gene expression were detected in the BCAR-transfected cells, in comparison with the extensive and distinct differences in gene expression induced by oestrogen or EGF. Both BCAR1 and BCAR3 regulate discrete sets of genes in these ZR-75-1-derived cells, indicating that the proliferation signalling proceeds along distinct pathways. Oestrogen-regulated genes in our cell model showed general concordance with reported data of cell models and gene expression association with oestrogen receptor status of breast tumours. The direct comparison of the expression profiles of BCAR transfectants and oestrogen or EGF-stimulated cells strongly suggests that anti-oestrogen-resistant cell proliferation is not caused by alternative activation of the oestrogen receptor or by the epidermal growth factor receptor signalling pathway

Mode profiling of optical fibers at high laser powers

DEFF Research Database (Denmark)

Nielsen, Peter Carøe; Pedersen, David Bue; Simonsen, R.B.

2008-01-01

of the focused spot can be determined. The analyser is based on the principle of a rotating wire being swept though the laser beam, while the reflected signal is recorded [1]. By changing the incident angle of the rotating rod from 0° to 360° in relation to the fiber, the full profile of the laser beam...... is obtained. Choosing a highly reflective rod material and a sufficiently high rotation speed, these measurements can be done with high laser powers, without any additional optical elements between the fiber and analyzer. The performance of the analyzer was evaluated by coupling laser light into different...