Finite-temperature phase transitions of third and higher order in gauge theories at large N

DOE PAGES

Nishimura, Hiromichi; Pisarski, Robert D.; Skokov, Vladimir V.

2018-02-15

We study phase transitions in SU(∞) gauge theories at nonzero temperature using matrix models. Our basic assumption is that the effective potential is dominated by double trace terms for the Polyakov loops. As a function of the various parameters, related to terms linear, quadratic, and quartic in the Polyakov loop, the phase diagram exhibits a universal structure. In a large region of this parameter space, there is a continuous phase transition whose order is larger than second. This is a generalization of the phase transition of Gross, Witten, and Wadia (GWW). Depending upon the detailed form of the matrix model,more » the eigenvalue density and the behavior of the specific heat near the transition differ drastically. Here, we speculate that in the pure gauge theory, that although the deconfining transition is thermodynamically of first order, it can be nevertheless conformally symmetric at infnite N.« less

Finite-temperature phase transitions of third and higher order in gauge theories at large N

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nishimura, Hiromichi; Pisarski, Robert D.; Skokov, Vladimir V.

We study phase transitions in SU(∞) gauge theories at nonzero temperature using matrix models. Our basic assumption is that the effective potential is dominated by double trace terms for the Polyakov loops. As a function of the various parameters, related to terms linear, quadratic, and quartic in the Polyakov loop, the phase diagram exhibits a universal structure. In a large region of this parameter space, there is a continuous phase transition whose order is larger than second. This is a generalization of the phase transition of Gross, Witten, and Wadia (GWW). Depending upon the detailed form of the matrix model,more » the eigenvalue density and the behavior of the specific heat near the transition differ drastically. Here, we speculate that in the pure gauge theory, that although the deconfining transition is thermodynamically of first order, it can be nevertheless conformally symmetric at infnite N.« less

Polyakov loop and the hadron resonance gas model.

PubMed

Megías, E; Arriola, E Ruiz; Salcedo, L L

2012-10-12

The Polyakov loop has been used repeatedly as an order parameter in the deconfinement phase transition in QCD. We argue that, in the confined phase, its expectation value can be represented in terms of hadronic states, similarly to the hadron resonance gas model for the pressure. Specifically, L(T)≈1/2[∑(α)g(α)e(-Δ(α)/T), where g(α) are the degeneracies and Δ(α) are the masses of hadrons with exactly one heavy quark (the mass of the heavy quark itself being subtracted). We show that this approximate sum rule gives a fair description of available lattice data with N(f)=2+1 for temperatures in the range 150 MeV

Nonperturbative quark-gluon thermodynamics at finite density

NASA Astrophysics Data System (ADS)

Andreichikov, M. A.; Lukashov, M. S.; Simonov, Yu. A.

2018-03-01

Thermodynamics of the quark-gluon plasma at finite density is studied in the framework of the Field Correlator Method, where thermodynamical effects of Polyakov loops and color magnetic confinement are taken into account. Having found good agreement with numerical lattice data for zero density, we calculate pressure P(T,μ), for 0 < μ < 400 MeV and 150 < T < 1000 MeV. For the first time, the explicit integral form is found in this region, demonstrating analytic structure in the complex μ plane. The resulting multiple complex branch points are found at the Roberge-Weiss values of Imμ, with Reμ defined by the values of Polyakov lines and color magnetic confinement.

Lorentz-violating SO(3) model: Discussing unitarity, causality, and 't Hooft-Polyakov monopoles

DOE Office of Scientific and Technical Information (OSTI.GOV)

Scarpelli, A.P. Baeta; Grupo de Fisica Teorica Jose Leite Lopes, Petropolis, RJ; Helayeel-Neto, J.A.

2006-05-15

In this paper, we extend the analysis of the Lorentz-violating Quantum Electrodynamics to the non-Abelian case: an SO(3) Yang-Mills Lagrangian with the addition of the non-Abelian Chern-Simons-type term. We consider the spontaneous symmetry breaking of the model and inspect its spectrum in order to check if unitarity and causality are respected. An analysis of the topological structure is also carried out and we show that a 't Hooft-Polyakov solution for monopoles is still present.

Relating quark confinement and chiral symmetry breaking in QCD

NASA Astrophysics Data System (ADS)

Suganuma, Hideo; Doi, Takahiro M.; Redlich, Krzysztof; Sasaki, Chihiro

2017-12-01

We study the relation between quark confinement and chiral symmetry breaking in QCD. Using lattice QCD formalism, we analytically express the various ‘confinement indicators’, such as the Polyakov loop, its fluctuations, the Wilson loop, the inter-quark potential and the string tension, in terms of the Dirac eigenmodes. In the Dirac spectral representation, there appears a power of the Dirac eigenvalue {λ }n such as {λ }n{Nt-1}, which behaves as a reduction factor for small {λ }n. Consequently, since this reduction factor cannot be cancelled, the low-lying Dirac eigenmodes give negligibly small contribution to the confinement quantities, while they are essential for chiral symmetry breaking. These relations indicate that there is no direct one-to-one correspondence between confinement and chiral symmetry breaking in QCD. In other words, there is some independence of quark confinement from chiral symmetry breaking, which can generally lead to different transition temperatures/densities for deconfinement and chiral restoration. We also investigate the Polyakov loop in terms of the eigenmodes of the Wilson, the clover and the domain-wall fermion kernels, and find similar results. The independence of quark confinement from chiral symmetry breaking seems to be natural, because confinement is realized independently of quark masses and heavy quarks are also confined even without the chiral symmetry.

Meson properties at finite temperature in a three flavor nonlocal chiral quark model with Polyakov loop

DOE Office of Scientific and Technical Information (OSTI.GOV)

Contrera, G. A.; CONICET, Rivadavia 1917, 1033 Buenos Aires; Dumm, D. Gomez

2010-03-01

We study the finite temperature behavior of light scalar and pseudoscalar meson properties in the context of a three-flavor nonlocal chiral quark model. The model includes mixing with active strangeness degrees of freedom, and takes care of the effect of gauge interactions by coupling the quarks with the Polyakov loop. We analyze the chiral restoration and deconfinement transitions, as well as the temperature dependence of meson masses, mixing angles and decay constants. The critical temperature is found to be T{sub c{approx_equal}}202 MeV, in better agreement with lattice results than the value recently obtained in the local SU(3) PNJL model. Itmore » is seen that above T{sub c} pseudoscalar meson masses get increased, becoming degenerate with the masses of their chiral partners. The temperatures at which this matching occurs depend on the strange quark composition of the corresponding mesons. The topological susceptibility shows a sharp decrease after the chiral transition, signalling the vanishing of the U(1){sub A} anomaly for large temperatures.« less

Effective model approach to the dense state of QCD matter

NASA Astrophysics Data System (ADS)

Fukushima, Kenji

2011-12-01

The first-principle approach to the dense state of QCD matter, i.e. the lattice-QCD simulation at finite baryon density, is not under theoretical control for the moment. The effective model study based on QCD symmetries is a practical alternative. However the model parameters that are fixed by hadronic properties in the vacuum may have unknown dependence on the baryon chemical potential. We propose a new prescription to constrain the effective model parameters by the matching condition with the thermal Statistical Model. In the transitional region where thermal quantities blow up in the Statistical Model, deconfined quarks and gluons should smoothly take over the relevant degrees of freedom from hadrons and resonances. We use the Polyakov-loop coupled Nambu-Jona-Lasinio (PNJL) model as an effective description in the quark side and show how the matching condition is satisfied by a simple ansäatz on the Polyakov loop potential. Our results favor a phase diagram with the chiral phase transition located at slightly higher temperature than deconfinement which stays close to the chemical freeze-out points.

Effects of Composite Pions on the Chiral Condensate within the PNJL Model at Finite Temperature

NASA Astrophysics Data System (ADS)

Blaschke, D.; Dubinin, A.; Ebert, D.; Friesen, A. V.

2018-05-01

We investigate the effect of composite pions on the behaviour of the chiral condensate at finite temperature within the Polyakov-loop improved NJL model. To this end we treat quark-antiquark correlations in the pion channel (bound states and scattering continuum) within a Beth-Uhlenbeck approach that uses medium-dependent phase shifts. A striking medium effect is the Mott transition which occurs when the binding energy vanishes and the discrete pion bound state merges the continuum. This transition is triggered by the lowering of the continuum edge due to the chiral restoration transition. This in turn also entails a modification of the Polyakov-loop so that the SU(3) center symmetry gets broken at finite temperature and dynamical quarks (and gluons) appear in the system, taking over the role of the dominant degrees of freedom from the pions. At low temperatures our model reproduces the chiral perturbation theory result for the chiral condensate while at high temperatures the PNJL model result is recovered. The new aspect of the current work is a consistent treatment of the chiral restoration transition region within the Beth-Uhlenbeck approach on the basis of mesonic phase shifts for the treatment of the correlations.

Free energy and phase transition of the matrix model on a plane wave

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hadizadeh, Shirin; Ramadanovic, Bojan; Semenoff, Gordon W.

2005-03-15

It has recently been observed that the weakly coupled plane-wave matrix model has a density of states which grows exponentially at high energy. This implies that the model has a phase transition. The transition appears to be of first order. However, its exact nature is sensitive to interactions. In this paper, we analyze the effect of interactions by computing the relevant parts of the effective potential for the Polyakov loop operator in the finite temperature plane-wave matrix model to three-loop order. We show that the phase transition is indeed of first order. We also compute the correction to the Hagedornmore » temperature to order two loops.« less

The AdS/CFT Correspondence: Classical, Quantum, and Thermodynamical Aspects

NASA Astrophysics Data System (ADS)

Young, Donovan

2007-06-01

Certain aspects of the AdS/CFT correspondence are studied in detail. We investigate the one-loop mass shift to certain two-impurity string states in light-cone string field theory on a plane wave background. We find that there exist logarithmic divergences in the sums over intermediate mode numbers which cancel between the cubic Hamiltonian and quartic "contact term". We argue that generically, every order in intermediate state impurities contributes to the mass shift at leading perturbative order. The same mass shift is also computed using an improved 3-string vertex proposed by Dobashi and Yoneya. The result is found to agree with gauge theory at leading order and is close but not quite in agreement at subleading order. We extend the analysis to include discrete light-cone quantization, considering states with up to three units of p+. We study the (apparently) first-order phase transition in the weakly coupled plane-wave matrix model at finite temperature. We analyze the effect of interactions by computing the relevant parts of the effective potential for the Polyakov loop operator to three loop order. We show that the phase transition is indeed of first order. We also compute the 2-loop correction to the Hagedorn temperature. Finally, correlation functions of 1/4 BPS Wilson loops with the infinite family of 1/2 BPS chiral primary operators are computed in N=4 super Yang-Mills theory by summing planar ladder diagrams. The correlation functions are also computed in the strong-coupling limit using string theory; the result is found to agree with the extrapolation of the planar ladders. The result is related to similar correlators of 1/2 BPS loops by a simple re-scaling of the coupling constant, discovered by Drukker for the case of the 1/4 BPS loop VEV.

Gluon dynamics, center symmetry, and the deconfinement phase transition in SU(3) pure Yang-Mills theory

NASA Astrophysics Data System (ADS)

Silva, P. J.; Oliveira, O.

2016-06-01

The correlations between the modulus of the Polyakov loop, its phase θ , and the Landau gauge gluon propagator at finite temperature are investigated in connection with the center symmetry for pure Yang-Mills SU(3) theory. In the deconfined phase, where the center symmetry is spontaneously broken, the phase of the Polyakov loop per configuration is close to θ =0 , ±2 π /3 . We find that the gluon propagator form factors associated with θ ≈0 differ quantitatively and qualitatively from those associated to θ ≈±2 π /3 . This difference between the form factors is a property of the deconfined phase and a sign of the spontaneous breaking of the center symmetry. Furthermore, given that this difference vanishes in the confined phase, it can be used as an order parameter associated to the deconfinement transition. For simulations near the critical temperature Tc, the difference between the propagators associated to θ ≈0 and θ ≈±2 π /3 allows one to classify the configurations as belonging to the confined or deconfined phase. This establishes a selection procedure which has a measurable impact on the gluon form factors. Our results also show that the absence of the selection procedure can be erroneously interpreted as lattice artifacts.

Strings with a confining core in a quark-gluon plasma

DOE Office of Scientific and Technical Information (OSTI.GOV)

Layek, Biswanath; Mishra, Ananta P.; Srivastava, Ajit M.

2005-04-01

We consider the intersection of N different interfaces interpolating between different Z{sub N} vacua of an SU(N) gauge theory using the Polyakov loop order parameter. Topological arguments show that at such a stringlike junction, the order parameter should vanish, implying that the core of this string (i.e. the junction region of all the interfaces) is in the confining phase. Using the effective potential for the Polyakov loop proposed by Pisarski for QCD, we use numerical minimization technique and estimate the energy per unit length of the core of this string to be about 2.7 GeV/fm at a temperature about twicemore » the critical temperature. For the parameters used, the interface tension is obtained to be about 7 GeV/fm{sup 2}. Lattice simulation of pure gauge theories should be able to investigate properties of these strings. For QCD with quarks, it has been discussed in the literature that this Z{sub N} symmetry may still be meaningful, with quark contributions leading to explicit breaking of this Z{sub N} symmetry. With this interpretation, such quark-gluon plasma strings may play important role in the evolution of the quark-gluon plasma phase and in the dynamics of quark-hadron transition.« less

Quark-hadron phase structure of QCD matter from SU(4) Polyakov linear sigma model

NASA Astrophysics Data System (ADS)

Diab, Abdel Magied Abdel Aal; Tawfik, Abdel Nasser

2018-04-01

The SU(4) Polyakov linear sigma model (PLSM) is extended towards characterizing the chiral condensates, σl, σs and σc of light, strange and charm quarks, respectively and the deconfinement order-parameters φ and φ at finite temperatures and densities (chemical potentials). The PLSM is considered to study the QCD equation of state in the presence of the chiral condensate of charm for different finite chemical potentials. The PLSM results are in a good agreement with the recent lattice QCD simulations. We conclude that, the charm condensate is likely not affected by the QCD phase-transition, where the corresponding critical temperature is greater than that of the light and strange quark condensates.

Duality and the Knizhnik-Polyakov-Zamolodchikov relation in Liouville quantum gravity.

PubMed

Duplantier, Bertrand; Sheffield, Scott

2009-04-17

We present a (mathematically rigorous) probabilistic and geometrical proof of the Knizhnik-Polyakov-Zamolodchikov relation between scaling exponents in a Euclidean planar domain D and in Liouville quantum gravity. It uses the properly regularized quantum area measure dmicro_{gamma}=epsilon;{gamma;{2}/2}e;{gammah_{epsilon}(z)}dz, where dz is the Lebesgue measure on D, gamma is a real parameter, 02 is shown to be related to the quantum measure dmu_{gamma;{'}}, gamma;{'}<2, by the fundamental duality gammagamma;{'}=4.

Simulation of Z(3) walls and string production via bubble nucleation in a quark-hadron transition

NASA Astrophysics Data System (ADS)

Gupta, Uma Shankar; Mohapatra, Ranjita K.; Srivastava, Ajit M.; Tiwari, Vivek K.

2010-10-01

We study the dynamics of confinement-deconfinement phase transition in the context of relativistic heavy-ion collisions within the framework of effective models for the Polyakov loop order parameter. We study the formation of Z(3) walls and associated strings in the initial transition from the confining (hadronic) phase to the deconfining [quark-gluon plasma (QGP)] phase via the so-called Kibble mechanism. Essential physics of the Kibble mechanism is contained in a sort of domain structure arising after any phase transition which represents random variation of the order parameter at distances beyond the typical correlation length. We implement this domain structure by using the Polyakov loop effective model with a first order phase transition and confine ourselves with temperature/time ranges so that the first order confinement-deconfinement transition proceeds via bubble nucleation, leading to a well defined domain structure. The formation of Z(3) walls and associated strings results from the coalescence of QGP bubbles expanding in the confining background. We investigate the evolution of the Z(3) wall and string network. We also calculate the energy density fluctuations associated with Z(3) wall network and strings which decay away after the temperature drops below the quark-hadron transition temperature during the expansion of QGP. We discuss evolution of these quantities with changing temperature via Bjorken’s hydrodynamical model and discuss possible experimental signatures resulting from the presence of Z(3) wall network and associate strings.

Simulation of Z(3) walls and string production via bubble nucleation in a quark-hadron transition

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gupta, Uma Shankar; Tiwari, Vivek K.; Mohapatra, Ranjita K.

2010-10-01

We study the dynamics of confinement-deconfinement phase transition in the context of relativistic heavy-ion collisions within the framework of effective models for the Polyakov loop order parameter. We study the formation of Z(3) walls and associated strings in the initial transition from the confining (hadronic) phase to the deconfining [quark-gluon plasma (QGP)] phase via the so-called Kibble mechanism. Essential physics of the Kibble mechanism is contained in a sort of domain structure arising after any phase transition which represents random variation of the order parameter at distances beyond the typical correlation length. We implement this domain structure by using themore » Polyakov loop effective model with a first order phase transition and confine ourselves with temperature/time ranges so that the first order confinement-deconfinement transition proceeds via bubble nucleation, leading to a well defined domain structure. The formation of Z(3) walls and associated strings results from the coalescence of QGP bubbles expanding in the confining background. We investigate the evolution of the Z(3) wall and string network. We also calculate the energy density fluctuations associated with Z(3) wall network and strings which decay away after the temperature drops below the quark-hadron transition temperature during the expansion of QGP. We discuss evolution of these quantities with changing temperature via Bjorken's hydrodynamical model and discuss possible experimental signatures resulting from the presence of Z(3) wall network and associate strings.« less

Three dimensional finite temperature SU(3) gauge theory near the phase transition

NASA Astrophysics Data System (ADS)

Bialas, P.; Daniel, L.; Morel, A.; Petersson, B.

2013-06-01

We have measured the correlation function of Polyakov loops on the lattice in three dimensional SU(3) gauge theory near its finite temperature phase transition. Using a new and powerful application of finite size scaling, we furthermore extend the measurements of the critical couplings to considerably larger values of the lattice sizes, both in the temperature and space directions, than was investigated earlier in this theory. With the help of these measurements we perform a detailed finite size scaling analysis, showing that for the critical exponents of the two dimensional three state Potts model the mass and the susceptibility fall on unique scaling curves. This strongly supports the expectation that the gauge theory is in the same universality class. The Nambu-Goto string model on the other hand predicts that the exponent ν has the mean field value, which is quite different from the value in the abovementioned Potts model. Using our values of the critical couplings we also determine the continuum limit of the value of the critical temperature in terms of the square root of the zero temperature string tension. This value is very near to the prediction of the Nambu-Goto string model in spite of the different critical behaviour.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pisarski, Robert D.; Skokov, Vladimir V.

Previously, a matrix model of the region near the transition temperature, in the “semi”quark gluon plasma, was developed for the theory of SU(3) gluons without quarks. In this paper we develop a chiral matrix model applicable to QCD by including dynamical quarks with 2+1 flavors. This requires adding a nonet of scalar fields, with both parities, and coupling these to quarks through a Yukawa coupling, y. Treating the scalar fields in mean field approximation, the effective Lagrangian is computed by integrating out quarks to one loop order. As is standard, the potential for the scalar fields is chosen to bemore » symmetric under the flavor symmetry of SU (3) L × SU(3) R × Z (3) A , except for a term linear in the current quark mass, m qk . In addition, at a nonzero temperature T it is necessary to add a new term, ~ m qk T 2 . The parameters of the gluon part of the matrix model are identical to those for the pure glue theory without quarks. The parameters in the chiral matrix model are fixed by the values, at zero temperature, of the pion decay constant and the masses of the pions, kaons, η , and η' . The temperature for the chiral crossover at T$χ$ = 155 MeV is determined by adjusting the Yukawa coupling y . We find reasonable agreement with the results of numerical simulations on the lattice for the pressure and related quantities. In the chiral limit, besides the divergence in the chiral susceptibility there is also a milder divergence in the susceptibility between the Polyakov loop and the chiral order parameter, with critical exponent β $-$ 1 . We compute derivatives with respect to a quark chemical potential to determine the susceptibilities for baryon number, the $χ$ 2n . Especially sensitive tests are provided by $χ$ 4 $-$ $χ$ 2 and by $χ$ 6 , which changes in sign about T$χ$ . In conclusion, the behavior of the susceptibilities in the chiral matrix model strongly suggests that as the temperature increases from T$χ$ , that the transition to deconfinement is significantly quicker than indicated by the measurements of the (renormalized) Polyakov loop on the lattice.« less

Chiral matrix model of the semi-QGP in QCD

DOE PAGES

Pisarski, Robert D.; Skokov, Vladimir V.

2016-08-08

Previously, a matrix model of the region near the transition temperature, in the “semi”quark gluon plasma, was developed for the theory of SU(3) gluons without quarks. In this paper we develop a chiral matrix model applicable to QCD by including dynamical quarks with 2+1 flavors. This requires adding a nonet of scalar fields, with both parities, and coupling these to quarks through a Yukawa coupling, y. Treating the scalar fields in mean field approximation, the effective Lagrangian is computed by integrating out quarks to one loop order. As is standard, the potential for the scalar fields is chosen to bemore » symmetric under the flavor symmetry of SU (3) L × SU(3) R × Z (3) A , except for a term linear in the current quark mass, m qk . In addition, at a nonzero temperature T it is necessary to add a new term, ~ m qk T 2 . The parameters of the gluon part of the matrix model are identical to those for the pure glue theory without quarks. The parameters in the chiral matrix model are fixed by the values, at zero temperature, of the pion decay constant and the masses of the pions, kaons, η , and η' . The temperature for the chiral crossover at T$χ$ = 155 MeV is determined by adjusting the Yukawa coupling y . We find reasonable agreement with the results of numerical simulations on the lattice for the pressure and related quantities. In the chiral limit, besides the divergence in the chiral susceptibility there is also a milder divergence in the susceptibility between the Polyakov loop and the chiral order parameter, with critical exponent β $-$ 1 . We compute derivatives with respect to a quark chemical potential to determine the susceptibilities for baryon number, the $χ$ 2n . Especially sensitive tests are provided by $χ$ 4 $-$ $χ$ 2 and by $χ$ 6 , which changes in sign about T$χ$ . In conclusion, the behavior of the susceptibilities in the chiral matrix model strongly suggests that as the temperature increases from T$χ$ , that the transition to deconfinement is significantly quicker than indicated by the measurements of the (renormalized) Polyakov loop on the lattice.« less

Flux tubes in the SU(3) vacuum: London penetration depth and coherence length

NASA Astrophysics Data System (ADS)

Cea, Paolo; Cosmai, Leonardo; Cuteri, Francesca; Papa, Alessandro

2014-05-01

Within the dual superconductor scenario for the QCD confining vacuum, the chromoelectric field generated by a static qq¯ pair can be fitted by a function derived, by dual analogy, from a simple variational model for the magnitude of the normalized order parameter of an isolated Abrikosov vortex. Previous results for the SU(3) vacuum are revisited, but here the transverse chromoelectric field is measured by means of the connected correlator of two Polyakov loops and, in order to reduce noise, the smearing procedure is used instead of cooling. The penetration and coherence lengths of the flux tube are then extracted from the fit and compared with previous results.

An object oriented code for simulating supersymmetric Yang-Mills theories

NASA Astrophysics Data System (ADS)

Catterall, Simon; Joseph, Anosh

2012-06-01

We present SUSY_LATTICE - a C++ program that can be used to simulate certain classes of supersymmetric Yang-Mills (SYM) theories, including the well known N=4 SYM in four dimensions, on a flat Euclidean space-time lattice. Discretization of SYM theories is an old problem in lattice field theory. It has resisted solution until recently when new ideas drawn from orbifold constructions and topological field theories have been brought to bear on the question. The result has been the creation of a new class of lattice gauge theories in which the lattice action is invariant under one or more supersymmetries. The resultant theories are local, free of doublers and also possess exact gauge-invariance. In principle they form the basis for a truly non-perturbative definition of the continuum SYM theories. In the continuum limit they reproduce versions of the SYM theories formulated in terms of twisted fields, which on a flat space-time is just a change of the field variables. In this paper, we briefly review these ideas and then go on to provide the details of the C++ code. We sketch the design of the code, with particular emphasis being placed on SYM theories with N=(2,2) in two dimensions and N=4 in three and four dimensions, making one-to-one comparisons between the essential components of the SYM theories and their corresponding counterparts appearing in the simulation code. The code may be used to compute several quantities associated with the SYM theories such as the Polyakov loop, mean energy, and the width of the scalar eigenvalue distributions. Program summaryProgram title: SUSY_LATTICE Catalogue identifier: AELS_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/AELS_v1_0.html Program obtainable from: CPC Program Library, Queen's University, Belfast, N. Ireland Licensing provisions: Standard CPC license, http://cpc.cs.qub.ac.uk/licence/licence.html No. of lines in distributed program, including test data, etc.: 9315 No. of bytes in distributed program, including test data, etc.: 95 371 Distribution format: tar.gz Programming language: C++ Computer: PCs and Workstations Operating system: Any, tested on Linux machines Classification:: 11.6 Nature of problem: To compute some of the observables of supersymmetric Yang-Mills theories such as supersymmetric action, Polyakov/Wilson loops, scalar eigenvalues and Pfaffian phases. Solution method: We use the Rational Hybrid Monte Carlo algorithm followed by a Leapfrog evolution and a Metropolis test. The input parameters of the model are read in from a parameter file. Restrictions: This code applies only to supersymmetric gauge theories with extended supersymmetry, which undergo the process of maximal twisting. (See Section 2 of the manuscript for details.) Running time: From a few minutes to several hours depending on the amount of statistics needed.

Chiral and deconfinement phase transition in the Hamiltonian approach to QCD in Coulomb gauge

NASA Astrophysics Data System (ADS)

Reinhardt, H.; Vastag, P.

2016-11-01

The chiral and deconfinement phase transitions are investigated within the variational Hamiltonian approach to QCD in Coulomb gauge. The temperature β-1 is introduced by compactifying a spatial dimension. Thereby the whole temperature dependence is encoded in the vacuum state on the spatial manifold R2×S1(β ) . The chiral quark condensate and the dual quark condensate (dressed Polyakov loop) are calculated as a function of the temperature. From their inflection points the pseudocritical temperatures for the chiral and deconfinement crossover transitions are determined. Using the zero-temperature quark and gluon propagators obtained within the variational approach as input, we find 170 and 198 MeV, respectively, for the chiral and deconfinement transition.

Foundations of Space and Time

NASA Astrophysics Data System (ADS)

Murugan, Jeff; Weltman, Amanda; Ellis, George F. R.

2012-07-01

1. The problem with quantum gravity Jeff Murugan, Amanda Weltman and George F. R. Eliis; 2. A dialogue on the nature of gravity Thanu Padmanabhan; 3. Effective theories and modifications of gravity Cliff Burgess; 4. The small scale structure of spacetime Steve Carlip; 5. Ultraviolet divergences in supersymmetric theories Kellog Stelle; 6. Cosmological quantum billiards Axel Kleinschmidt and Hermann Nicolai; 7. Progress in RNS string theory and pure spinors Dimitri Polyakov; 8. Recent trends in superstring phenomenology Massimo Bianchi; 9. Emergent spacetime Robert de Mello Koch and Jeff Murugan; 10. Loop quantum gravity Hanno Sahlmann; 11. Loop quantum gravity and cosmology Martin Bojowald; 12. The microscopic dynamics of quantum space as a group field theory Daniele Oriti; 13. Causal dynamical triangulations and the quest for quantum gravity Jan Ambjørn, J. Jurkiewicz and Renate Loll; 14. Proper time is stochastic time in 2D quantum gravity Jan Ambjorn, Renate Loll, Y. Watabiki, W. Westra and S. Zohren; 15. Logic is to the quantum as geometry is to gravity Rafael Sorkin; 16. Causal sets: discreteness without symmetry breaking Joe Henson; 17. The Big Bang, quantum gravity, and black-hole information loss Roger Penrose; Index.

Hydrodynamics of the Polyakov line in SU(N c) Yang-Mills

DOE PAGES

Liu, Yizhuang; Warchoł, Piotr; Zahed, Ismail

2015-12-08

We discuss a hydrodynamical description of the eigenvalues of the Polyakov line at large but finite N c for Yang-Mills theory in even and odd space-time dimensions. The hydro-static solutions for the eigenvalue densities are shown to interpolate between a uniform distribution in the confined phase and a localized distribution in the de-confined phase. The resulting critical temperatures are in overall agreement with those measured on the lattice over a broad range of N c, and are consistent with the string model results at N c = ∞. The stochastic relaxation of the eigenvalues of the Polyakov line out ofmore » equilibrium is captured by a hydrodynamical instanton. An estimate of the probability of formation of a Z(N c)bubble using a piece-wise sound wave is suggested.« less

Model prediction for temperature dependence of meson pole masses from lattice QCD results on meson screening masses

NASA Astrophysics Data System (ADS)

Ishii, Masahiro; Kouno, Hiroaki; Yahiro, Masanobu

2017-06-01

We propose a practical effective model by introducing temperature (T ) dependence to the coupling strengths of four-quark and six-quark Kobayashi-Maskawa-'t Hooft interactions in the 2 +1 flavor Polyakov-loop extended Nambu-Jona-Lasinio model. The T dependence is determined from lattice QCD (LQCD) data on the renormalized chiral condensate around the pseudocritical temperature Tcχ of chiral crossover and the screening-mass difference between π and a0 mesons in T >1.1 Tcχ where only the U (1 )A-symmetry breaking survives. The model well reproduces LQCD data on screening masses Mξscr(T ) for both pseudoscalar mesons (ξ =π ,K ,η ,η' ) and scalar ones (ξ =a0,κ ,σ ,f0 ), particularly in T ≳Tcχ . Using this effective model, we predict meson pole masses Mξpole(T ) for scalar and pseudoscalar mesons. For η' meson, the prediction is consistent with the experimental value at finite T measured in heavy-ion collisions. We point out that the relation Mξscr(T )-Mξpole(T )≈Mξ' scr(T )-Mξ' pole(T ) is pretty good when ξ and ξ' are the scalar mesons, and show that the relation Mξscr(T )/Mξ' scr(T )≈Mξpole(T )/Mξ' pole(T ) is well satisfied within 20% error when ξ and ξ' are the pseudoscalar mesons and also when ξ and ξ' are the scalar mesons.

SU (2) lattice gauge theory simulations on Fermi GPUs

NASA Astrophysics Data System (ADS)

Cardoso, Nuno; Bicudo, Pedro

2011-05-01

In this work we explore the performance of CUDA in quenched lattice SU (2) simulations. CUDA, NVIDIA Compute Unified Device Architecture, is a hardware and software architecture developed by NVIDIA for computing on the GPU. We present an analysis and performance comparison between the GPU and CPU in single and double precision. Analyses with multiple GPUs and two different architectures (G200 and Fermi architectures) are also presented. In order to obtain a high performance, the code must be optimized for the GPU architecture, i.e., an implementation that exploits the memory hierarchy of the CUDA programming model. We produce codes for the Monte Carlo generation of SU (2) lattice gauge configurations, for the mean plaquette, for the Polyakov Loop at finite T and for the Wilson loop. We also present results for the potential using many configurations (50,000) without smearing and almost 2000 configurations with APE smearing. With two Fermi GPUs we have achieved an excellent performance of 200× the speed over one CPU, in single precision, around 110 Gflops/s. We also find that, using the Fermi architecture, double precision computations for the static quark-antiquark potential are not much slower (less than 2× slower) than single precision computations.

Gauge copies in the Landau-DeWitt gauge: A background invariant restriction

NASA Astrophysics Data System (ADS)

Dudal, David; Vercauteren, David

2018-04-01

The Landau background gauge, also known as the Landau-DeWitt gauge, has found renewed interest during the past decade given its usefulness in accessing the confinement-deconfinement transition via the vacuum expectation value of the Polyakov loop, describable via an appropriate background. In this Letter, we revisit this gauge from the viewpoint of it displaying gauge (Gribov) copies. We generalize the Gribov-Zwanziger effective action in a BRST and background invariant way; this action leads to a restriction on the allowed gauge fluctuations, thereby eliminating the infinitesimal background gauge copies. The explicit background invariance of our action is in contrast with earlier attempts to write down and use an effective Gribov-Zwanziger action. It allows to address certain subtleties arising in these earlier works, such as a spontaneous and thus spurious Lorentz symmetry breaking, something which is now averted.

SU (2) lattice gauge theory simulations on Fermi GPUs

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cardoso, Nuno, E-mail: nunocardoso@cftp.ist.utl.p; Bicudo, Pedro, E-mail: bicudo@ist.utl.p

2011-05-10

In this work we explore the performance of CUDA in quenched lattice SU (2) simulations. CUDA, NVIDIA Compute Unified Device Architecture, is a hardware and software architecture developed by NVIDIA for computing on the GPU. We present an analysis and performance comparison between the GPU and CPU in single and double precision. Analyses with multiple GPUs and two different architectures (G200 and Fermi architectures) are also presented. In order to obtain a high performance, the code must be optimized for the GPU architecture, i.e., an implementation that exploits the memory hierarchy of the CUDA programming model. We produce codes formore » the Monte Carlo generation of SU (2) lattice gauge configurations, for the mean plaquette, for the Polyakov Loop at finite T and for the Wilson loop. We also present results for the potential using many configurations (50,000) without smearing and almost 2000 configurations with APE smearing. With two Fermi GPUs we have achieved an excellent performance of 200x the speed over one CPU, in single precision, around 110 Gflops/s. We also find that, using the Fermi architecture, double precision computations for the static quark-antiquark potential are not much slower (less than 2x slower) than single precision computations.« less

Baryon inhomogeneity generation in the quark-gluon plasma phase

DOE Office of Scientific and Technical Information (OSTI.GOV)

Layek, Biswanath; Mishra, Ananta P.; Srivastava, Ajit M.

2006-05-15

We discuss the possibility of generation of baryon inhomogeneities in a quark-gluon plasma phase due to moving Z(3) interfaces. By modeling the dependence of effective mass of the quarks on the Polyakov loop order parameter, we study the reflection of quarks from collapsing Z(3) interfaces and estimate resulting baryon inhomogeneities in the context of the early universe. We argue that in the context of certain low energy scale inflationary models, it is possible that large Z(3) walls arise at the end of the reheating stage. Collapse of such walls could lead to baryon inhomogeneities which may be separated by largemore » distances near the QCD scale. Importantly, the generation of these inhomogeneities is insensitive to the order, or even the existence, of the quark-hadron phase transition. We also briefly discuss the possibility of formation of quark nuggets in this model, as well as baryon inhomogeneity generation in relativistic heavy-ion collisions.« less

Chiral phase transition of three flavor QCD with nonzero magnetic field using standard staggered fermions

NASA Astrophysics Data System (ADS)

Tomiya, Akio; Ding, Heng-Tong; Mukherjee, Swagato; Schmidt, Christian; Wang, Xiao-Dan

2018-03-01

Lattice simulations for (2+1)-flavor QCD with external magnetic field demon-strated that the quark mass is one of the important parameters responsible for the (inverse) magnetic catalysis. We discuss the dependences of chiral condensates and susceptibilities, the Polyakov loop on the magnetic field and quark mass in three degenerate flavor QCD. The lattice simulations are performed using standard staggered fermions and the plaquette action with spatial sizes Nσ = 16 and 24 and a fixed temporal size Nτ = 4. The value of the quark masses are chosen such that the system undergoes a first order chiral phase transition and crossover with zero magnetic field. We find that in light mass regime, the quark chiral condensate undergoes magnetic catalysis in the whole temperature region and the phase transition tend to become stronger as the magnetic field increases. In crossover regime, deconfinement transition temperature is shifted by the magnetic field when quark mass ma is less than 0:4. The lattice cutoff effects are also discussed.

Gauge-invariant screening masses and static quark free energies in Nf=2 +1 QCD at nonzero baryon density

NASA Astrophysics Data System (ADS)

Andreoli, Michele; Bonati, Claudio; D'Elia, Massimo; Mesiti, Michele; Negro, Francesco; Rucci, Andrea; Sanfilippo, Francesco

2018-03-01

We discuss the extension of gauge-invariant electric and magnetic screening masses in the quark-gluon plasma to the case of a finite baryon density, defining them in terms of a matrix of Polyakov loop correlators. We present lattice results for Nf=2 +1 QCD with physical quark masses, obtained using the imaginary chemical potential approach, which indicate that the screening masses increase as a function of μB. A separate analysis is carried out for the theoretically interesting case μB/T =3 i π , where charge conjugation is not explicitly broken and the usual definition of the screening masses can be used for temperatures below the Roberge-Weiss transition. Finally, we investigate the dependence of the static quark free energy on the baryon chemical potential, showing that it is a decreasing function of μB, which displays a peculiar behavior as the pseudocritical transition temperature at μB=0 is approached.

Moving heavy quarkonium entropy, effective string tension, and the QCD phase diagram

NASA Astrophysics Data System (ADS)

Chen, Xun; Feng, Sheng-Qin; Shi, Ya-Fei; Zhong, Yang

2018-03-01

The entropy and effective string tension of the moving heavy quark-antiquark pair in the strongly coupled plasmas are calculated by using a deformed an anti-de Sitter/Reissner-Nordström black hole metric. A sharp peak of the heavy-quarkonium entropy around the deconfinement transition can be realized in our model, which is consistent with the lattice QCD result. The effective string tension of the heavy quark-antiquark pair is related to the deconfinement phase transition. Thus, we investigate the deconfinement phase transition by analyzing the characteristics of the effective string tension with different temperatures, chemical potentials, and rapidities. It is found that the results of phase diagram calculated through effective string tension are in agreement with results calculated through a Polyakov loop. We argue that a moving system will reach the phase transition point at a lower temperature and chemical potential than a stationary system. It means that the lifetime of the moving quark-gluon plasma become longer than the static one.

Bethe Ansatz solutions for highest states in Script N = 4 SYM and AdS/CFT duality

NASA Astrophysics Data System (ADS)

Beccaria, Matteo; DelDebbio, Luigi

2006-09-01

We consider the operators with highest anomalous dimension Δ in the compact rank-one sectors fraktur sfraktur u(1|1) and fraktur sfraktur u(2) of Script N = 4 super Yang-Mills. We study the flow of Δ from weak to strong 't Hooft coupling λ by solving (i) the all-loop gauge Bethe Ansatz, (ii) the quantum string Bethe Ansatz. The two calculations are carefully compared in the strong coupling limit and exhibit different exponents ν in the leading order expansion Δ ~ λν. We find ν = 1/2 and ν = 1/4 for the gauge or string solution. This strong coupling discrepancy is not unexpected, and it provides an explicit example where the gauge Bethe Ansatz solution cannot be trusted at large λ. Instead, the string solution perfectly reproduces the Gubser-Klebanov-Polyakov law Δ = 2n1/2 λ1/4. In particular, we provide an analytic expression for the integer level n as a function of the U(1) charge in both sectors.

Gravitational form factors and decoupling in 2D

NASA Astrophysics Data System (ADS)

Ribeiro, Tiago G.; Shapiro, Ilya L.; Zanusso, Omar

2018-07-01

We calculate and analyse non-local gravitational form factors induced by quantum matter fields in curved two-dimensional space. The calculations are performed for scalars, spinors and massive vectors by means of the covariant heat kernel method up to the second order in the curvature and confirmed using Feynman diagrams. The analysis of the ultraviolet (UV) limit reveals a generalized "running" form of the Polyakov action for a nonminimal scalar field and the usual Polyakov action in the conformally invariant cases. In the infrared (IR) we establish the gravitational decoupling theorem, which can be seen directly from the form factors or from the physical beta function for fields of any spin.

Gravitational Scattering Amplitudes and Closed String Field Theory in the Proper-Time Gauge

NASA Astrophysics Data System (ADS)

Lee, Taejin

2018-01-01

We construct a covariant closed string field theory by extending recent works on the covariant open string field theory in the proper-time gauge. Rewriting the string scattering amplitudes generated by the closed string field theory in terms of the Polyakov string path integrals, we identify the Fock space representations of the closed string vertices. We show that the Fock space representations of the closed string field theory may be completely factorized into those of the open string field theory. It implies that the well known Kawai-Lewellen-Tye (KLT) relations of the first quantized string theory may be promoted to the second quantized closed string theory. We explicitly calculate the scattering amplitudes of three gravitons by using the closed string field theory in the proper-time gauge.

Yang-Mills correlators across the deconfinement phase transition

NASA Astrophysics Data System (ADS)

Reinosa, U.; Serreau, J.; Tissier, M.; Tresmontant, A.

2017-02-01

We compute the finite temperature ghost and gluon propagators of Yang-Mills theory in the Landau-DeWitt gauge. The background field that enters the definition of the latter is intimately related with the (gauge-invariant) Polyakov loop and serves as an equivalent order parameter for the deconfinement transition. We use an effective gauge-fixed description where the nonperturbative infrared dynamics of the theory is parametrized by a gluon mass which, as argued elsewhere, may originate from the Gribov ambiguity. In this scheme, one can perform consistent perturbative calculations down to infrared momenta, which have been shown to correctly describe the phase diagram of Yang-Mills theories in four dimensions as well as the zero-temperature correlators computed in lattice simulations. In this article, we provide the one-loop expressions of the finite temperature Landau-DeWitt ghost and gluon propagators for a large class of gauge groups and present explicit results for the SU(2) case. These are substantially different from those previously obtained in the Landau gauge, which corresponds to a vanishing background field. The nonanalyticity of the order parameter across the transition is directly imprinted onto the propagators in the various color modes. In the SU(2) case, this leads, for instance, to a cusp in the electric and magnetic gluon susceptibilities as well as similar signatures in the ghost sector. We mention the possibility that such distinctive features of the transition could be measured in lattice simulations in the background field gauge studied here.

Fractional bosonic strings

NASA Astrophysics Data System (ADS)

Diaz, Victor Alfonzo; Giusti, Andrea

2018-03-01

The aim of this paper is to present a simple generalization of bosonic string theory in the framework of the theory of fractional variational problems. Specifically, we present a fractional extension of the Polyakov action, for which we compute the general form of the equations of motion and discuss the connection between the new fractional action and a generalization the Nambu-Goto action. Consequently, we analyze the symmetries of the modified Polyakov action and try to fix the gauge, following the classical procedures. Then we solve the equations of motion in a simplified setting. Finally, we present a Hamiltonian description of the classical fractional bosonic string and introduce the fractional light-cone gauge. It is important to remark that, throughout the whole paper, we thoroughly discuss how to recover the known results as an "integer" limit of the presented model.

A molecular mechanism of P-loop pliability of Rho-kinase investigated by molecular dynamic simulation

NASA Astrophysics Data System (ADS)

Gohda, Keigo; Hakoshima, Toshio

2008-11-01

Rho-kinase is a leading player in the regulation of cytoskeletal events involving smooth muscle contraction and neurite growth-cone collapse and retraction, and is a promising drug target in the treatment of both vascular and neurological disorders. Recent crystal structure of Rho-kinase complexed with a small-molecule inhibitor fasudil has revealed structural details of the ATP-binding site, which represents the target site for the inhibitor, and showed that the conserved phenylalanine on the P-loop occupies the pocket, resulting in an increase of protein-ligand contacts. Thus, the P-loop pliability is considered to play an important role in inhibitor binding affinity and specificity. In this study, we carried out a molecular dynamic simulation for Rho-kinase-fasudil complexes with two different P-loop conformations, i.e., the extended and folded conformations, in order to understand the P-loop pliability and dynamics at atomic level. A PKA-fasudil complex was also used for comparison. In the MD simulation, the flip-flop movement of the P-loop conformation starting either from the extended or folded conformation was not able to be observed. However, a significant conformational change in a long loop region covering over the P-loop, and also alteration of ionic interaction-manner of fasudil with acidic residues in the ATP binding site were shown only in the Rho-kinase-fasudil complex with the extended P-loop conformation, while Rho-kinase with the folded P-loop conformation and PKA complexes did not show large fluctuations, suggesting that the Rho-kinase-fasudil complex with the extended P-loop conformation represents a meta-stable state. The information of the P-loop pliability at atomic level obtained in this study could provide valuable clues to designing potent and/or selective inhibitors for Rho-kinase.

Multiple critical endpoints in magnetized three flavor quark matter

NASA Astrophysics Data System (ADS)

Ferreira, Márcio; Costa, Pedro; Providência, Constança

2018-01-01

The magnetized phase diagram for three-flavor quark matter is studied within the Polyakov extended Nambu-Jona-Lasinio model. The order parameters are analyzed with special emphasis on the strange quark condensate. We show that the presence of an external magnetic field induces several critical endpoints (CEPs) in the strange sector, which arise due to the multiple phase transitions that the strange quark undergoes. The spinodal and binodal regions of the phase transitions are shown to increase with external magnetic field strength. The influence of strong magnetic fields on the isentropic trajectories around the several CEPs is analyzed. A focusing effect is observed on the region towards the CEPs that are related with the strange quark phase transitions. Compared to the chiral transitions, the deconfinement transition turns out to be less sensitive to the external magnetic field and the crossover nature is preserved over the whole phase diagram.

Nucleon properties in the Polyakov quark-meson model

NASA Astrophysics Data System (ADS)

Li, Yingying; Hu, Jinniu; Mao, Hong

2018-05-01

We study the nucleon as a nontopological soliton in a quark medium as well as in a nucleon medium in terms of the Polyakov quark-meson (PQM) model with two flavors at finite temperature and density. The constituent quark masses evolving with the temperature at various baryon chemical potentials are calculated and the equations of motion are solved according to the proper boundary conditions. The PQM model predicts an increasing size of the nucleon and a reduction of the nucleon mass in both hot environment. However, the phase structure is different from each other in quark and nucleon mediums. There is a crossover in the low-density region and a first-order phase transition in the high-density region in quark medium, whereas there exists a crossover characterized by the overlap of the nucleons in nucleon medium.

Extended molecular dynamics of a c-kit promoter quadruplex

PubMed Central

Islam, Barira; Stadlbauer, Petr; Krepl, Miroslav; Koca, Jaroslav; Neidle, Stephen; Haider, Shozeb; Sponer, Jiri

2015-01-01

The 22-mer c-kit promoter sequence folds into a parallel-stranded quadruplex with a unique structure, which has been elucidated by crystallographic and NMR methods and shows a high degree of structural conservation. We have carried out a series of extended (up to 10 μs long, ∼50 μs in total) molecular dynamics simulations to explore conformational stability and loop dynamics of this quadruplex. Unfolding no-salt simulations are consistent with a multi-pathway model of quadruplex folding and identify the single-nucleotide propeller loops as the most fragile part of the quadruplex. Thus, formation of propeller loops represents a peculiar atomistic aspect of quadruplex folding. Unbiased simulations reveal μs-scale transitions in the loops, which emphasizes the need for extended simulations in studies of quadruplex loops. We identify ion binding in the loops which may contribute to quadruplex stability. The long lateral-propeller loop is internally very stable but extensively fluctuates as a rigid entity. It creates a size-adaptable cleft between the loop and the stem, which can facilitate ligand binding. The stability gain by forming the internal network of GA base pairs and stacks of this loop may be dictating which of the many possible quadruplex topologies is observed in the ground state by this promoter quadruplex. PMID:26245347

One-dimensional QCD in thimble regularization

NASA Astrophysics Data System (ADS)

Di Renzo, F.; Eruzzi, G.

2018-01-01

QCD in 0 +1 dimensions is numerically solved via thimble regularization. In the context of this toy model, a general formalism is presented for S U (N ) theories. The sign problem that the theory displays is a genuine one, stemming from a (quark) chemical potential. Three stationary points are present in the original (real) domain of integration, so that contributions from all the thimbles associated to them are to be taken into account: we show how semiclassical computations can provide hints on the regions of parameter space where this is absolutely crucial. Known analytical results for the chiral condensate and the Polyakov loop are correctly reproduced: this is in particular trivial at high values of the number of flavors Nf. In this regime we notice that the single thimble dominance scenario takes place (the dominant thimble is the one associated to the identity). At low values of Nf computations can be more difficult. It is important to stress that this is not at all a consequence of the original sign problem (not even via the residual phase). The latter is always under control, while accidental, delicate cancelations of contributions coming from different thimbles can be in place in (restricted) regions of the parameter space.

Magnetic Roots and the Driving of Extended Coronal Heating

NASA Technical Reports Server (NTRS)

Porter, Jason G.; Falconer, D. A.; Moore, Ronald L.; Harvey, Karen L.; Rabin, Douglas M.; Shimizu, T.

1998-01-01

We report results from a continuation of a previous study, in which we found large bright coronal loops within active regions and extending from active regions that have one end rooted near an island of included magnetic polarity that is a site of enhanced coronal heating and microflares. This suggested that magnetic activity such as microflaring results in enhanced heating in both the compact core field around the island and in the large loops extending from it. We might expect that the intensity variations due to enhanced heating in the compact and extended structures would be correlated. However, although some ex- tended loops do respond to the largest events taking place in the core fields near their feet, they do not show a clear response to most smaller individual events nor to the overall envelope of coronal heating activity in the core fields at their feet as determined from longer-term observations. Thus, while it is clear that the extended loops' heating is being driven from their ends at the magnetic islands, much of this heating is apparently by some form of footpoint activity that is not strongly coupled to the heating in the footpoint core fields. One possibility is that the remote heating in the extended loops is driven by reconnection at the magnetic null over the island, and that this reconnection is driven mainly by core-field activity that produces little coronal heating within the core field itself, perhaps in the manner of the numerical simulations by Karpen, Antiochos, and DeVore.

Fast flux locked loop

DOEpatents

Ganther, Jr., Kenneth R.; Snapp, Lowell D.

2002-09-10

A flux locked loop for providing an electrical feedback signal, the flux locked loop employing radio-frequency components and technology to extend the flux modulation frequency and tracking loop bandwidth. The flux locked loop of the present invention has particularly useful application in read-out electronics for DC SQUID magnetic measurement systems, in which case the electrical signal output by the flux locked loop represents an unknown magnetic flux applied to the DC SQUID.

Intrinsic non-commutativity of closed string theory

DOE PAGES

Freidel, Laurent; Leigh, Robert G.; Minic, Djordje

2017-09-14

We show that the proper interpretation of the cocycle operators appearing in the physical vertex operators of compactified strings is that the closed string target is noncommutative. We track down the appearance of this non-commutativity to the Polyakov action of the at closed string in the presence of translational monodromies (i.e., windings). Here, in view of the unexpected nature of this result, we present detailed calculations from a variety of points of view, including a careful understanding of the consequences of mutual locality in the vertex operator algebra, as well as a detailed analysis of the symplectic structure of themore » Polyakov string. Finally, we also underscore why this non-commutativity was not emphasized previously in the existing literature. This non-commutativity can be thought of as a central extension of the zero-mode operator algebra, an effect set by the string length scale $-$ it is present even in trivial backgrounds. Clearly, this result indicates that the α'→0 limit is more subtle than usually assumed.« less

Intrinsic non-commutativity of closed string theory

DOE Office of Scientific and Technical Information (OSTI.GOV)

Freidel, Laurent; Leigh, Robert G.; Minic, Djordje

We show that the proper interpretation of the cocycle operators appearing in the physical vertex operators of compactified strings is that the closed string target is noncommutative. We track down the appearance of this non-commutativity to the Polyakov action of the at closed string in the presence of translational monodromies (i.e., windings). Here, in view of the unexpected nature of this result, we present detailed calculations from a variety of points of view, including a careful understanding of the consequences of mutual locality in the vertex operator algebra, as well as a detailed analysis of the symplectic structure of themore » Polyakov string. Finally, we also underscore why this non-commutativity was not emphasized previously in the existing literature. This non-commutativity can be thought of as a central extension of the zero-mode operator algebra, an effect set by the string length scale $-$ it is present even in trivial backgrounds. Clearly, this result indicates that the α'→0 limit is more subtle than usually assumed.« less

Srs2 promotes synthesis-dependent strand annealing by disrupting DNA polymerase δ-extending D-loops

PubMed Central

Liu, Jie; Ede, Christopher; Wright, William D; Gore, Steven K; Jenkins, Shirin S; Freudenthal, Bret D; Todd Washington, M; Veaute, Xavier; Heyer, Wolf-Dietrich

2017-01-01

Synthesis-dependent strand annealing (SDSA) is the preferred mode of homologous recombination in somatic cells leading to an obligatory non-crossover outcome, thus avoiding the potential for chromosomal rearrangements and loss of heterozygosity. Genetic analysis identified the Srs2 helicase as a prime candidate to promote SDSA. Here, we demonstrate that Srs2 disrupts D-loops in an ATP-dependent fashion and with a distinct polarity. Specifically, we partly reconstitute the SDSA pathway using Rad51, Rad54, RPA, RFC, DNA Polymerase δ with different forms of PCNA. Consistent with genetic data showing the requirement for SUMO and PCNA binding for the SDSA role of Srs2, Srs2 displays a slight but significant preference to disrupt extending D-loops over unextended D-loops when SUMOylated PCNA is present, compared to unmodified PCNA or monoubiquitinated PCNA. Our data establish a biochemical mechanism for the role of Srs2 in crossover suppression by promoting SDSA through disruption of extended D-loops. DOI: http://dx.doi.org/10.7554/eLife.22195.001 PMID:28535142

Loop amplitudes in an extended gravity theory

NASA Astrophysics Data System (ADS)

Dunbar, David C.; Godwin, John H.; Jehu, Guy R.; Perkins, Warren B.

2018-05-01

We extend the S-matrix of gravity by the addition of the minimal three-point amplitude or equivalently adding R3 terms to the Lagrangian. We demonstrate how Unitarity can be used to simply examine the renormalisability of this theory and determine the R4 counter-terms that arise at one-loop. We find that the combination of R4 terms that arise in the extended theory is complementary to the R4 counter-term associated with supersymmetric Lagrangians.

On a local solvability and stability of the inverse transmission eigenvalue problem

NASA Astrophysics Data System (ADS)

Bondarenko, Natalia; Buterin, Sergey

2017-11-01

We prove a local solvability and stability of the inverse transmission eigenvalue problem posed by McLaughlin and Polyakov (1994 J. Diff. Equ. 107 351-82). In particular, this result establishes the minimality of the data used therein. The proof is constructive.

OPE for super loops

NASA Astrophysics Data System (ADS)

Sever, Amit; Vieira, Pedro; Wang, Tianheng

2011-11-01

We extend the Operator Product Expansion for Null Polygon Wilson loops to the Mason-Skinner-Caron-Huot super loop dual to non MHV gluon amplitudes. We explain how the known tree level amplitudes can be promoted into an infinite amount of data at any loop order in the OPE picture. As an application, we re-derive all one loop NMHV six gluon amplitudes by promoting their tree level expressions. We also present some new all loops predictions for these amplitudes.

Emerging geometry from maximally super-symmetric Yang-Mills theory

NASA Astrophysics Data System (ADS)

Vazquez, Samuel Enrique

In this thesis, we explore the emergence of space-time geometry, and string theory physics from N = 4 supersymmetric Yang-Mills (SYM) theory with gauge group U(N). This is done in the context of the anti-de-Sitter/conformal field theory correspondence (AdS/CFT). The main results of this thesis are the following. First, we study single trace perturbations around generic 1/2 BPS states of the theory. We do this in the large N limit, and at one-loop in the 't-Hooft coupling. We show how these states can be mapped to dynamical lattices with boson statistics and periodic boundary conditions. By dynamical, we mean that the total boson occupation number is not conserved in general. Then, we show how to derive an effective sigma model for these systems which coincides with the Polyakov action of a probe string on a 1/2 BPS geometry (in the fast string limit). Secondly, we study non-supersymmetric perturbations of the vacuum which give rise to bosonic lattices with open boundary conditions. We also do this in the large N limit, and at one-loop in the 't-Hooft coupling. We show that these states are dual to open strings on D3-branes known as "Giant Gravitons". These lattice systems are also dynamical, but in some special cases, we show that we get an integrable spin chain with open boundary conditions. Next, we study single trace perturbations at strong coupling. We do this by taking a "dilute gas" approximation. We derive an all-loop result for the dispersion relation of the "magnons" which coincides with previous conjectures in the literature. What is more, we derive the geometrical picture of the so-called "giant magnon" string solution of Hofman and Maldacena, directly from the field theory. Finally, we explore the question of classical integrability of open strings on D-branes. In particular, we study the case of the giant gravitons, and compare the integrable structures on both sides of the AdS/CFT correspondence.

Extended Impact of Pin1 Catalytic Loop Phosphorylation Revealed by S71E Phosphomimetic.

PubMed

Mahoney, Brendan J; Zhang, Meiling; Zintsmaster, John S; Peng, Jeffrey W

2018-03-02

Pin1 is a two-domain human protein that catalyzes the cis-trans isomerization of phospho-Ser/Thr-Pro (pS/T-P) motifs in numerous cell-cycle regulatory proteins. These pS/T-P motifs bind to Pin1's peptidyl-prolyl isomerase (PPIase) domain in a catalytic pocket, between an extended catalytic loop and the PPIase domain core. Previous studies showed that post-translational phosphorylation of S71 in the catalytic loop decreases substrate binding affinity and isomerase activity. To define the origins for these effects, we investigated a phosphomimetic Pin1 mutant, S71E-Pin1, using solution NMR. We find that S71E perturbs not only its host loop but also the nearby PPIase core. The perturbations identify a local network of hydrogen bonds and salt bridges that is more extended than previously thought, and includes interactions between the catalytic loop and the α2/α3 turn in the PPIase core. Explicit-solvent molecular dynamics simulations and phylogenetic analysis suggest that these interactions act as conserved "latches" between the loop and PPIase core that enhance binding of phosphorylated substrates, as they are absent in PPIases lacking pS/T-P specificity. Our results suggest that S71 is a hub residue within an electrostatic network primed for phosphorylation, and may illustrate a common mechanism of phosphorylation-mediated allostery. Copyright © 2018 Elsevier Ltd. All rights reserved.

Plenoptic camera wavefront sensing with extended sources

NASA Astrophysics Data System (ADS)

Jiang, Pengzhi; Xu, Jieping; Liang, Yonghui; Mao, Hongjun

2016-09-01

The wavefront sensor is used in adaptive optics to detect the atmospheric distortion, which feeds back to the deformable mirror to compensate for this distortion. Different from the Shack-Hartmann sensor that has been widely used with point sources, the plenoptic camera wavefront sensor has been proposed as an alternative wavefront sensor adequate for extended objects in recent years. In this paper, the plenoptic camera wavefront sensing with extended sources is discussed systematically. Simulations are performed to investigate the wavefront measurement error and the closed-loop performance of the plenoptic sensor. The results show that there are an optimal lenslet size and an optimal number of pixels to make the best performance. The RMS of the resulting corrected wavefront in closed-loop adaptive optics system is less than 108 nm (0.2λ) when D/r0 ≤ 10 and the magnitude M ≤ 5. Our investigation indicates that the plenoptic sensor is efficient to operate on extended sources in the closed-loop adaptive optics system.

Modeling the Lac repressor-operator assembly: The influence of DNA looping on Lac repressor conformation

PubMed Central

Swigon, David; Coleman, Bernard D.; Olson, Wilma K.

2006-01-01

Repression of transcription of the Escherichia coli Lac operon by the Lac repressor (LacR) is accompanied by the simultaneous binding of LacR to two operators and the formation of a DNA loop. A recently developed theory of sequence-dependent DNA elasticity enables one to relate the fine structure of the LacR–DNA complex to a wide range of heretofore-unconnected experimental observations. Here, that theory is used to calculate the configuration and free energy of the DNA loop as a function of its length and base-pair sequence, its linking number, and the end conditions imposed by the LacR tetramer. The tetramer can assume two types of conformations. Whereas a rigid V-shaped structure is observed in the crystal, EM images show extended forms in which two dimer subunits are flexibly joined. Upon comparing our computed loop configurations with published experimental observations of permanganate sensitivities, DNase I cutting patterns, and loop stabilities, we conclude that linear DNA segments of short-to-medium chain length (50–180 bp) give rise to loops with the extended form of LacR and that loops formed within negatively supercoiled plasmids induce the V-shaped structure. PMID:16785444

Extending the Universal One-Loop Effective Action: heavy-light coefficients

DOE PAGES

Ellis, Sebastian A. R.; Quevillon, Jérémie; You, Tevong; ...

2017-08-16

The Universal One-Loop Effective Action (UOLEA) is a general expression for the effective action obtained by evaluating in a model-independent way the one-loop expansion of a functional path integral. It can also be used to match UV theories to their low-energy EFTs more efficiently by avoiding redundant steps in the application of functional methods, simplifying the process of obtaining Wilson coefficients of operators up to dimension six. In addition to loops involving only heavy fields, matching may require the inclusion of loops containing both heavy and light particles. Here we use the recently-developed covariant diagram technique to extend the UOLEAmore » to include heavy-light terms which retain the same universal structure as the previously-derived heavy-only terms. As an example of its application, we integrate out a heavy singlet scalar with a linear coupling to a light doublet Higgs. The extension presented here is a first step towards completing the UOLEA to incorporate all possible structures encountered in a covariant derivative expansion of the one-loop path integral.« less

Extending the Universal One-Loop Effective Action: heavy-light coefficients

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ellis, Sebastian A. R.; Quevillon, Jérémie; You, Tevong

The Universal One-Loop Effective Action (UOLEA) is a general expression for the effective action obtained by evaluating in a model-independent way the one-loop expansion of a functional path integral. It can also be used to match UV theories to their low-energy EFTs more efficiently by avoiding redundant steps in the application of functional methods, simplifying the process of obtaining Wilson coefficients of operators up to dimension six. In addition to loops involving only heavy fields, matching may require the inclusion of loops containing both heavy and light particles. Here we use the recently-developed covariant diagram technique to extend the UOLEAmore » to include heavy-light terms which retain the same universal structure as the previously-derived heavy-only terms. As an example of its application, we integrate out a heavy singlet scalar with a linear coupling to a light doublet Higgs. The extension presented here is a first step towards completing the UOLEA to incorporate all possible structures encountered in a covariant derivative expansion of the one-loop path integral.« less

Loop-Mediated Isothermal Amplification (LAMP) Signature Identification Software

DOE Office of Scientific and Technical Information (OSTI.GOV)

Torres, C.

2009-03-17

This is an extendable open-source Loop-mediated isothermal AMPlification (LAMP) signature design program called LAVA (LAMP Assay Versatile Analysis). LAVA was created in response to limitations of existing LAMP signature programs.

Feedback Regulation and Its Efficiency in Biochemical Networks

NASA Astrophysics Data System (ADS)

Kobayashi, Tetsuya J.; Yokota, Ryo; Aihara, Kazuyuki

2016-03-01

Intracellular biochemical networks fluctuate dynamically due to various internal and external sources of fluctuation. Dissecting the fluctuation into biologically relevant components is important for understanding how a cell controls and harnesses noise and how information is transferred over apparently noisy intracellular networks. While substantial theoretical and experimental advancement on the decomposition of fluctuation was achieved for feedforward networks without any loop, we still lack a theoretical basis that can consistently extend such advancement to feedback networks. The main obstacle that hampers is the circulative propagation of fluctuation by feedback loops. In order to define the relevant quantity for the impact of feedback loops for fluctuation, disentanglement of the causally interlocked influences between the components is required. In addition, we also lack an approach that enables us to infer non-perturbatively the influence of the feedback to fluctuation in the same way as the dual reporter system does in the feedforward networks. In this work, we address these problems by extending the work on the fluctuation decomposition and the dual reporter system. For a single-loop feedback network with two components, we define feedback loop gain as the feedback efficiency that is consistent with the fluctuation decomposition for feedforward networks. Then, we clarify the relation of the feedback efficiency with the fluctuation propagation in an open-looped FF network. Finally, by extending the dual reporter system, we propose a conjugate feedback and feedforward system for estimating the feedback efficiency non-perturbatively only from the statistics of the system.

Monopole-antimonopole interaction potential

NASA Astrophysics Data System (ADS)

Saurabh, Ayush; Vachaspati, Tanmay

2017-11-01

We numerically study the interactions of twisted monopole-antimonopole pairs in the 't Hooft-Polyakov model for a range of values of the scalar to vector mass ratio. We also recover the sphaleron solution at maximum twist discovered by Taubes [Commun. Math. Phys. 86, 257 (1982), 10.1007/BF01206014] and map out its energy and size as functions of parameters.

Sunlight, Sea Ice, and the Ice Albedo Feedback in a Changing Arctic Sea Ice Cover

DTIC Science & Technology

2015-09-30

PUBLICATIONS Carmack, E .; I. Polyakov; L. Padman; I. Fer; E . Hunke; J. Hutchings; J. Jackson; D. Kelley; R. Kwok; C. Layton ; D.K. Perovich; O. Persson; B...Heygster, M. Huntemann, P. Schwarz, G. Birnbaum, C. Polashenski, D. Perovich, E . Zege, A. Malinka and A. Prikchach (2015), The melt pond fraction and

Non-Abelian Yang-Mills analogue of classical electromagnetic duality

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chan, Hong-Mo; Faridani, J.; Tsun, T.S.

The classic question of non-Abelian Yang-Mills analogue to electromagnetic duality is examined here in a minimalist fashion at the strictly four-dimensional, classical field, and point charge level. A generalization of the Abelian Hodge star duality is found which, though not yet known to give dual symmetry, reproduces analogues to many dual properties of the Abelian theory. For example, there is a dual potential, but it is a two-indexed tensor {ital T}{sub {mu}{nu}} of the Freedman-Townsend-type. Though not itself functioning as such, {ital T}{sub {mu}{nu}} gives rise to a dual parallel transport {ital {tilde A}}{sub {mu}} for the phase of themore » wave function of the color magnetic charge, this last being a monopole of the Yang-Mills field but a source of the dual field. The standard color (electric) charge itself is found to be a monpole of {ital {tilde A}}{sub {mu}}. At the same time, the gauge symmetry is found doubled from say SU({ital N}) to SU({ital N}){times}SU({ital N}). A novel feature is that all equations of motion, including the standard Yang-Mills and Wong equations, are here derived from a ``universal`` principle, namely, the Wu-Yang criterion for monpoles, where interactions arise purely as a consequence of the topological definition of the monopole charge. The technique used is the loop space formulation of Polyakov.« less

Stability analysis and compensation of a boost regulator with two-loop control

NASA Technical Reports Server (NTRS)

Wester, G. W.

1974-01-01

A useful stability measure has been demonstrated by Wester (1973) for switching regulators with a single feedback loop by applying the Nyquist criterion to the approximate loop gain determined by a time-averaging technique. This approach is extended and applied to the characterization, stability analysis, and compensation design of a switching regulator with two-loop control. The role and relative significance of each control loop is clarified on the basis of a description of circuit operation, and the major and minor loops are identified. In view of the inapplicability of linear feedback theory, describing functions of the feedback loops and power stage are derived, using small-signal analysis. Several phenomena revealed from an analysis of the major loop gain are discussed.

Loop propensity of the sequence YKGQP from staphylococcal nuclease: implications for the folding of nuclease.

PubMed

Patel, Sunita; Sasidhar, Yellamraju U

2007-10-01

Recently we performed molecular dynamics (MD) simulations on the folding of the hairpin peptide DTVKLMYKGQPMTFR from staphylococcal nuclease in explicit water. We found that the peptide folds into a hairpin conformation with native and nonnative hydrogen-bonding patterns. In all the folding events observed in the folding of the hairpin peptide, loop formation involving the region YKGQP was an important event. In order to trace the origins of the loop propensity of the sequence YKGQP, we performed MD simulations on the sequence starting from extended, polyproline II and native type I' turn conformations for a total simulation length of 300 ns, using the GROMOS96 force field under constant volume and temperature (NVT) conditions. The free-energy landscape of the peptide YKGQP shows minima corresponding to loop conformation with Tyr and Pro side-chain association, turn and extended conformational forms, with modest free-energy barriers separating the minima. To elucidate the role of Gly in facilitating loop formation, we also performed MD simulations of the mutated peptide YKAQP (Gly --> Ala mutation) under similar conditions starting from polyproline II conformation for 100 ns. Two minima corresponding to bend/turn and extended conformations were observed in the free-energy landscape for the peptide YKAQP. The free-energy barrier between the minima in the free-energy landscape of the peptide YKAQP was also modest. Loop conformation is largely sampled by the YKGQP peptide, while extended conformation is largely sampled by the YKAQP peptide. We also explain why the YKGQP sequence samples type II turn conformation in these simulations, whereas the sequence as part of the hairpin peptide DTVKLMYKGQPMTFR samples type I' turn conformation both in the X-ray crystal structure and in our earlier simulations on the folding of the hairpin peptide. We discuss the implications of our results to the folding of the staphylococcal nuclease. Copyright (c) 2007 European Peptide Society and John Wiley & Sons, Ltd.

Perturbative Quantum Gravity from Gauge Theory

NASA Astrophysics Data System (ADS)

Carrasco, John Joseph

In this dissertation we present the graphical techniques recently developed in the construction of multi-loop scattering amplitudes using the method of generalized unitarity. We construct the three-loop and four-loop four-point amplitudes of N = 8 supergravity using these methods and the Kawaii, Lewellen and Tye tree-level relations which map tree-level gauge theory amplitudes to tree-level gravity theory amplitudes. We conclude by extending a tree-level duality between color and kinematics, generic to gauge theories, to a loop level conjecture, allowing the easy relation between loop-level gauge and gravity kinematics. We provide non-trivial evidence for this conjecture at three-loops in the particular case of maximal supersymmetry.

Structure-function analyses of human kallikrein-related peptidase 2 establish the 99-loop as master regulator of activity.

PubMed

Skala, Wolfgang; Utzschneider, Daniel T; Magdolen, Viktor; Debela, Mekdes; Guo, Shihui; Craik, Charles S; Brandstetter, Hans; Goettig, Peter

2014-12-05

Human kallikrein-related peptidase 2 (KLK2) is a tryptic serine protease predominantly expressed in prostatic tissue and secreted into prostatic fluid, a major component of seminal fluid. Most likely it activates and complements chymotryptic KLK3 (prostate-specific antigen) in cleaving seminal clotting proteins, resulting in sperm liquefaction. KLK2 belongs to the "classical" KLKs 1-3, which share an extended 99- or kallikrein loop near their non-primed substrate binding site. Here, we report the 1.9 Å crystal structures of two KLK2-small molecule inhibitor complexes. In both structures discontinuous electron density for the 99-loop indicates that this loop is largely disordered. We provide evidence that the 99-loop is responsible for two biochemical peculiarities of KLK2, i.e. reversible inhibition by micromolar Zn(2+) concentrations and permanent inactivation by autocatalytic cleavage. Indeed, several 99-loop mutants of KLK2 displayed an altered susceptibility to Zn(2+), which located the Zn(2+) binding site at the 99-loop/active site interface. In addition, we identified an autolysis site between residues 95e and 95f in the 99-loop, whose elimination prevented the mature enzyme from limited autolysis and irreversible inactivation. An exhaustive comparison of KLK2 with related structures revealed that in the KLK family the 99-, 148-, and 220-loop exist in open and closed conformations, allowing or preventing substrate access, which extends the concept of conformational selection in trypsin-related proteases. Taken together, our novel biochemical and structural data on KLK2 identify its 99-loop as a key player in activity regulation. © 2014 by The American Society for Biochemistry and Molecular Biology, Inc.

Structure-Function Analyses of Human Kallikrein-related Peptidase 2 Establish the 99-Loop as Master Regulator of Activity*

PubMed Central

Skala, Wolfgang; Utzschneider, Daniel T.; Magdolen, Viktor; Debela, Mekdes; Guo, Shihui; Craik, Charles S.; Brandstetter, Hans; Goettig, Peter

2014-01-01

Human kallikrein-related peptidase 2 (KLK2) is a tryptic serine protease predominantly expressed in prostatic tissue and secreted into prostatic fluid, a major component of seminal fluid. Most likely it activates and complements chymotryptic KLK3 (prostate-specific antigen) in cleaving seminal clotting proteins, resulting in sperm liquefaction. KLK2 belongs to the “classical” KLKs 1–3, which share an extended 99- or kallikrein loop near their non-primed substrate binding site. Here, we report the 1.9 Å crystal structures of two KLK2-small molecule inhibitor complexes. In both structures discontinuous electron density for the 99-loop indicates that this loop is largely disordered. We provide evidence that the 99-loop is responsible for two biochemical peculiarities of KLK2, i.e. reversible inhibition by micromolar Zn2+ concentrations and permanent inactivation by autocatalytic cleavage. Indeed, several 99-loop mutants of KLK2 displayed an altered susceptibility to Zn2+, which located the Zn2+ binding site at the 99-loop/active site interface. In addition, we identified an autolysis site between residues 95e and 95f in the 99-loop, whose elimination prevented the mature enzyme from limited autolysis and irreversible inactivation. An exhaustive comparison of KLK2 with related structures revealed that in the KLK family the 99-, 148-, and 220-loop exist in open and closed conformations, allowing or preventing substrate access, which extends the concept of conformational selection in trypsin-related proteases. Taken together, our novel biochemical and structural data on KLK2 identify its 99-loop as a key player in activity regulation. PMID:25326387

Structure of a human monoclonal antibody Fab fragment against gp41 of human immunodeficiency virus type

NASA Technical Reports Server (NTRS)

He, X. M.; Ruker, F.; Casale, E.; Carter, D. C.

1992-01-01

The three-dimensional structure of a human monoclonal antibody (Fab), which binds specifically to a major epitope of the transmembrane protein gp41 of the human immunodeficiency virus type 1, has been determined by crystallographic methods to a resolution of 2.7 A. It has been previously determined that this antibody recognizes the epitope SGKLICTTAVPWNAS, belongs to the subclass IgG1 (kappa), and exhibits antibody-dependent cellular cytotoxicity. The quaternary structure of the Fab is in an extended conformation with an elbow bend angle between the constant and variable domains of 175 degrees. Structurally, four of the hypervariable loops can be classified according to previously recognized canonical structures. The third hypervariable loops of the heavy (H3) and light chain (L3) are structurally distinct. Hypervariable loop H3, residues 102H-109H, is unusually extended from the surface. The complementarity-determining region forms a hydrophobic binding pocket that is created primarily from hypervariable loops L3, H3, and H2.

Structure of a human monoclonal antibody Fab fragment against gp41 of human immunodeficiency virus type 1

NASA Technical Reports Server (NTRS)

He, Xiao M.; Rueker, Florian; Casale, Elena; Carter, Daniel C.

1992-01-01

The three-dimensional structure of a human monoclonal antibody (Fab), which binds specifically to a major epitope of the transmembrane protein gp41 of the human immunodeficiency virus type 1, has been determined by crystallographic methods to a resolution of 2.7 A. It has been previously determined that this antibody recognizes the epitope SGKLICTTAVPWNAS, belongs to the subclass IgG1 (kappa), and exhibits antibody-dependent cellular cytotoxicity. The quaternary structure of the Fab is in an extended conformation with an elbow bend angle between the constant and variable domains of 175 deg. Structurally, four of the hypervariable loops can be classified according to previously recognized canonical structures. The third hypervariable loops of the heavy (H3) and light chain (L3) are structurally distinct. Hypervariable loop H3, residues 102H-109H, is unusually extended from the surface. The complementarity-determining region forms a hydrophobic binding pocket that is created primarily from hypervariable loops L3, H3, and H2.

On the performance of digital phase locked loops in the threshold region

NASA Technical Reports Server (NTRS)

Hurst, G. T.; Gupta, S. C.

1974-01-01

Extended Kalman filter algorithms are used to obtain a digital phase lock loop structure for demodulation of angle modulated signals. It is shown that the error variance equations obtained directly from this structure enable one to predict threshold if one retains higher frequency terms. This is in sharp contrast to the similar analysis of the analog phase lock loop, where the higher frequency terms are filtered out because of the low pass filter in the loop. Results are compared to actual simulation results and threshold region results obtained previously.

On Heating Large Bright Coronal Loops by Magnetic Microexplosions at their Feet

NASA Technical Reports Server (NTRS)

Moore, Ronald L; Falconer, D. A.; Porter, Jason G.

1999-01-01

In previous work, by registering Yohkoh SXT coronal X-ray images with MSFC vector magnetograms, we found that: (1) many of the larger bright coronal loops rooted at one or both ends in an active region are rooted around magnetic islands of included polarity, (2) the core field encasing the neutral line encircling the island is strongly sheared, and (3) this sheared core field is the seat of frequent microflares. This suggests that the coronal heating in these extended bright loops is driven by many small explosive releases of stored magnetic energy from the sheared core field at their feet, some of which magnetic microexplosions also produce the microflare heating in the core fields. In this paper, we show that this scenario is feasible in terms of the energy Abstract: required for the observed coronal heating and the magnetic energy available in the observed sheared core fields. In a representative active region, from the X-ray and vector field data, we estimate the coronal heating consumption by a selected typical large bright loop, the coronal heating consumption by a typical microflare at the foot of this loop, the frequency of microflares at the foot, and the available magnetic energy in the microflaring core field. We find that: (1) the rate of magnetic energy release to power the microflares at the foot (approx. 6 x 10(ext 25)erg/s) is enough to also power the coronal heating in the body of the extended loop (approx. 2 x l0(exp 25 erg/s), and (2) there is enough stored magnetic energy in the sheared core field to sustain the microflaring and extended loop heating for about a day, which is a typical time for buildup of neutral-line magnetic shear in an active region. This work was funded by the Solar Physics Branch of NASA's Office of Space Science through the SR&T Program and the SEC Guest Investigator Program.

Top-quark loops and the muon anomalous magnetic moment

DOE PAGES

Czarnecki, Andrzej; Marciano, William J.

2017-12-07

The current status of electroweak radiative corrections to the muon anomalous magnetic moment is discussed. Asymptotic expansions for some important electroweak two-loop top quark triangle diagrams are illustrated and extended to higher order. Results are compared with the more general integral representation solution for generic fermion triangle loops coupled to pseudoscalar and scalar bosons of arbitrary mass. Furthermore, excellent agreement is found for a broader than expected range of mass parameters.

Quantum Loop Expansion to High Orders, Extended Borel Summation, and Comparison with Exact Results

NASA Astrophysics Data System (ADS)

Noreen, Amna; Olaussen, Kåre

2013-07-01

We compare predictions of the quantum loop expansion to (essentially) infinite orders with (essentially) exact results in a simple quantum mechanical model. We find that there are exponentially small corrections to the loop expansion, which cannot be explained by any obvious “instanton”-type corrections. It is not the mathematical occurrence of exponential corrections but their seeming lack of any physical origin which we find surprising and puzzling.

Meson properties and phase diagrams in a SU(3) nonlocal PNJL model with lattice-QCD-inspired form factors

NASA Astrophysics Data System (ADS)

Carlomagno, J. P.

2018-05-01

We study the features of a nonlocal SU(3) Polyakov-Nambu-Jona-Lasinio model that includes wave-function renormalization. Model parameters are determined from vacuum phenomenology considering lattice-QCD-inspired nonlocal form factors. Within this framework, we analyze the properties of light scalar and pseudoscalar mesons at finite temperature and chemical potential determining characteristics of deconfinement and chiral restoration transitions.

Top3-Rmi1 dissolve Rad51-mediated D loops by a topoisomerase-based mechanism.

PubMed

Fasching, Clare L; Cejka, Petr; Kowalczykowski, Stephen C; Heyer, Wolf-Dietrich

2015-02-19

The displacement loop (D loop) is a DNA strand invasion product formed during homologous recombination. Disruption of nascent D loops prevents recombination, and during synthesis-dependent strand annealing (SDSA), disruption of D loops extended by DNA polymerase ensures a non-crossover outcome. The proteins implicated in D loop disruption are DNA motor proteins/helicases that act by moving DNA junctions. Here we report that D loops can also be disrupted by DNA topoisomerase 3 (Top3), and this disruption depends on Top3's catalytic activity. Yeast Top3 specifically disrupts D loops mediated by yeast Rad51/Rad54; protein-free D loops or D loop mediated by bacterial RecA protein or human RAD51/RAD54 resist dissolution. Also, the human Topoisomerase IIIa-RMI1-RMI2 complex is capable of dissolving D loops. Consistent with genetic data, we suggest that the extreme growth defect and hyper-recombination phenotype of Top3-deficient yeast cells is partially a result of unprocessed D loops. Copyright © 2015 Elsevier Inc. All rights reserved.

Long-range tertiary interactions in single hammerhead ribozymes bias motional sampling toward catalytically active conformations

PubMed Central

McDowell, S. Elizabeth; Jun, Jesse M.; Walter, Nils G.

2010-01-01

Enzymes generally are thought to derive their functional activity from conformational motions. The limited chemical variation in RNA suggests that such structural dynamics may play a particularly important role in RNA function. Minimal hammerhead ribozymes are known to cleave efficiently only in ∼10-fold higher than physiologic concentrations of Mg2+ ions. Extended versions containing native loop–loop interactions, however, show greatly enhanced catalytic activity at physiologically relevant Mg2+ concentrations, for reasons that are still ill-understood. Here, we use Mg2+ titrations, activity assays, ensemble, and single molecule fluorescence resonance energy transfer (FRET) approaches, combined with molecular dynamics (MD) simulations, to ask what influence the spatially distant tertiary loop–loop interactions of an extended hammerhead ribozyme have on its structural dynamics. By comparing hammerhead variants with wild-type, partially disrupted, and fully disrupted loop–loop interaction sequences we find that the tertiary interactions lead to a dynamic motional sampling that increasingly populates catalytically active conformations. At the global level the wild-type tertiary interactions lead to more frequent, if transient, encounters of the loop-carrying stems, whereas at the local level they lead to an enrichment in favorable in-line attack angles at the cleavage site. These results invoke a linkage between RNA structural dynamics and function and suggest that loop–loop interactions in extended hammerhead ribozymes—and Mg2+ ions that bind to minimal ribozymes—may generally allow more frequent access to a catalytically relevant conformation(s), rather than simply locking the ribozyme into a single active state. PMID:20921269

Loop Integrands for Scattering Amplitudes from the Riemann Sphere

NASA Astrophysics Data System (ADS)

Geyer, Yvonne; Mason, Lionel; Monteiro, Ricardo; Tourkine, Piotr

2015-09-01

The scattering equations on the Riemann sphere give rise to remarkable formulas for tree-level gauge theory and gravity amplitudes. Adamo, Casali, and Skinner conjectured a one-loop formula for supergravity amplitudes based on scattering equations on a torus. We use a residue theorem to transform this into a formula on the Riemann sphere. What emerges is a framework for loop integrands on the Riemann sphere that promises to have a wide application, based on off-shell scattering equations that depend on the loop momentum. We present new formulas, checked explicitly at low points, for supergravity and super-Yang-Mills amplitudes and for n -gon integrands at one loop. Finally, we show that the off-shell scattering equations naturally extend to arbitrary loop order, and we give a proposal for the all-loop integrands for supergravity and planar super-Yang-Mills theory.

Dyons near the transition temperature in SU(3) lattice gluodynamics

NASA Astrophysics Data System (ADS)

Bornyakov, V. G.; Ilgenfritz, E.-M.; Martemyanov, B. V.

2018-05-01

We study the topological structure of SU(3) lattice gluodynamics by cluster analysis. This methodological study is meant as preparation for full QCD. The topological charge density is becoming visible in the process of over-improved gradient flow, which is monitored by means of the inverse participation ratio. The flow is stopped at the moment when calorons dissociate into dyons due to the over-improved character of the underlying action. This gives the possibility to simultaneously detect all three dyonic constituents of KvBLL calorons in the gluonic field. The behavior of the average Polyakov loop (PL) under (over-improved) gradient flow could also serve as a diagnostics for the actual phase the configuration is belonging to. Time-like Abelian monopole currents and specific patterns of the local PL are correlated with the topological clusters. The spectrum of reconstructed cluster charges Q cl corresponds to the phases. It is scattered around Q cl ≈ ±1/3 in the confined phase, whereas it is Q cl ≈ ±(0.5 ÷ 0.7) for heavy dyons and | {Q}{{cl}}| < 0.3 for light dyons in the deconfined phase. We estimate the density of heavy and light dyons at three values of temperature. We find that heavy dyons are increasingly suppressed with increasing temperature. The paper is dedicated to the memory of Michael Müller-Preussker who was a member of our research group for more than twenty years.

Loop vertex expansion for higher-order interactions

NASA Astrophysics Data System (ADS)

Rivasseau, Vincent

2018-05-01

This note provides an extension of the constructive loop vertex expansion to stable interactions of arbitrarily high order, opening the way to many applications. We treat in detail the example of the (\\bar{φ } φ )^p field theory in zero dimension. We find that the important feature to extend the loop vertex expansion is not to use an intermediate field representation, but rather to force integration of exactly one particular field per vertex of the initial action.

Extension of loop quantum gravity to f(R) theories.

PubMed

Zhang, Xiangdong; Ma, Yongge

2011-04-29

The four-dimensional metric f(R) theories of gravity are cast into connection-dynamical formalism with real su(2) connections as configuration variables. Through this formalism, the classical metric f(R) theories are quantized by extending the loop quantization scheme of general relativity. Our results imply that the nonperturbative quantization procedure of loop quantum gravity is valid not only for general relativity but also for a rather general class of four-dimensional metric theories of gravity.

Higher-Loop Amplitude Monodromy Relations in String and Gauge Theory.

PubMed

Tourkine, Piotr; Vanhove, Pierre

2016-11-18

The monodromy relations in string theory provide a powerful and elegant formalism to understand some of the deepest properties of tree-level field theory amplitudes, like the color-kinematics duality. This duality has been instrumental in tremendous progress on the computations of loop amplitudes in quantum field theory, but a higher-loop generalization of the monodromy construction was lacking. In this Letter, we extend the monodromy relations to higher loops in open string theory. Our construction, based on a contour deformation argument of the open string diagram integrands, leads to new identities that relate planar and nonplanar topologies in string theory. We write one and two-loop monodromy formulas explicitly at any multiplicity. In the field theory limit, at one-loop we obtain identities that reproduce known results. At two loops, we check our formulas by unitarity in the case of the four-point N=4 super-Yang-Mills amplitude.

Hybrid nodal loop metal: Unconventional magnetoresponse and material realization

NASA Astrophysics Data System (ADS)

Zhang, Xiaoming; Yu, Zhi-Ming; Lu, Yunhao; Sheng, Xian-Lei; Yang, Hui Ying; Yang, Shengyuan A.

2018-03-01

A nodal loop is formed by a band crossing along a one-dimensional closed manifold, with each point on the loop a linear nodal point in the transverse dimensions, and can be classified as type I or type II depending on the band dispersion. Here, we propose a class of nodal loops composed of both type-I and type-II points, which are hence termed as hybrid nodal loops. Based on first-principles calculations, we predict the realization of such loops in the existing electride material Ca2As . For a hybrid loop, the Fermi surface consists of coexisting electron and hole pockets that touch at isolated points for an extended range of Fermi energies, without the need for fine-tuning. This leads to unconventional magnetic responses, including the zero-field magnetic breakdown and the momentum-space Klein tunneling observable in the magnetic quantum oscillations, as well as the peculiar anisotropy in the cyclotron resonance.

On the physical Hilbert space of loop quantum cosmology

DOE Office of Scientific and Technical Information (OSTI.GOV)

Noui, Karim; Perez, Alejandro; Vandersloot, Kevin

2005-02-15

In this paper we present a model of Riemannian loop quantum cosmology with a self-adjoint quantum scalar constraint. The physical Hilbert space is constructed using refined algebraic quantization. When matter is included in the form of a cosmological constant, the model is exactly solvable and we show explicitly that the physical Hilbert space is separable, consisting of a single physical state. We extend the model to the Lorentzian sector and discuss important implications for standard loop quantum cosmology.

Theoretical properties of Omega-loops in the convective zone of the Sun. 3: Extended updrafts

NASA Technical Reports Server (NTRS)

Parker, E. N.

1995-01-01

It was pointed out in an earlier paper that the continuing emergence of Omega-loops at localized sites on the surface of the Sun indicates a continuing updraft at those sites. The updraft evidently extends all the way from the base of the convective zone to somewhat near (approximately 10(exp 9)cm) the surface. We pointed out that such updrafts enhance the convective heat transport to the surface, accounting for a major part of the increased solar brightness or irradiance during times of solar activity. The problem is to work out, as much as possible, the dynamical nature of the extended updrafts, initiated as the wakes of successive rising Omega-loops and driven therafter by the convective forces. The question is, does the updraft take on a long-lived columnar form of its own, or does it never devlop beyond a sequence of rising wakes, resembling beads on a string? The dynamics of a columnar updraft is complicated by both the large Reynolds number and the strong stratication of the atmosphere, and by a total lack of direct observational information. Extended slender updrafts are not a spontaneous occurrence in numerical simulations of thermal convection in a stratified atmosphere, although slender concentrated downdrafts commonly occur. This paper examines several aspects of a columnar updrft in a convective atmosphere under various idealized circumstances to investigate to what extent that state can be maintained against the diminishing vorticity and expansion in the updraft. It appears that the successive passage of Omega-loops from the bottom to the top of the convective zone is an essential feature of the continuing existence of the updraft.

A Robust Inner and Outer Loop Control Method for Trajectory Tracking of a Quadrotor

PubMed Central

Xia, Dunzhu; Cheng, Limei; Yao, Yanhong

2017-01-01

In order to achieve the complicated trajectory tracking of quadrotor, a geometric inner and outer loop control scheme is presented. The outer loop generates the desired rotation matrix for the inner loop. To improve the response speed and robustness, a geometric SMC controller is designed for the inner loop. The outer loop is also designed via sliding mode control (SMC). By Lyapunov theory and cascade theory, the closed-loop system stability is guaranteed. Next, the tracking performance is validated by tracking three representative trajectories. Then, the robustness of the proposed control method is illustrated by trajectory tracking in presence of model uncertainty and disturbances. Subsequently, experiments are carried out to verify the method. In the experiment, ultra wideband (UWB) is used for indoor positioning. Extended Kalman Filter (EKF) is used for fusing inertial measurement unit (IMU) and UWB measurements. The experimental results show the feasibility of the designed controller in practice. The comparative experiments with PD and PD loop demonstrate the robustness of the proposed control method. PMID:28925984

Development of a range-extended electric vehicle powertrain for an integrated energy systems research printed utility vehicle

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chambon, Paul; Curran, Scott; Huff, Shean

Rapid vehicle and powertrain development has become essential to for the design and implementation of vehicles that meet and exceed the fuel efficiency, cost, and performance targets expected by today’s consumer while keeping pace with reduced development cycle and more frequent product releases. Advances in large-scale additive manufacturing have provided the means to bridge hardware-in-the-loop (HIL) experimentation and preproduction mule chassis evaluation, recently. Our paper details the accelerated development of a printed range-extended electric vehicle (REEV) by Oak Ridge National Laboratory, by paralleling hardware-in-the-loop development of the powertrain with rapid chassis prototyping using big area additive manufacturing (BAAM). BAAM’s abilitymore » to accelerate the mule vehicle development from computer-aided design to vehicle build is explored. The use of a hardware-in-the-loop laboratory is described as it is applied to the design of a range-extended electric powertrain to be installed in a printed prototype vehicle. Furthermore, the integration of the powertrain and the opportunities and challenges it presents are described in this work. A comparison of offline simulation, HIL and chassis rolls results is presented to validate the development process. Chassis dynamometer results for battery electric and range extender operation are analyzed to show the benefits of the architecture.« less

Development of a range-extended electric vehicle powertrain for an integrated energy systems research printed utility vehicle

DOE PAGES

Chambon, Paul; Curran, Scott; Huff, Shean; ...

2017-01-29

Rapid vehicle and powertrain development has become essential to for the design and implementation of vehicles that meet and exceed the fuel efficiency, cost, and performance targets expected by today’s consumer while keeping pace with reduced development cycle and more frequent product releases. Advances in large-scale additive manufacturing have provided the means to bridge hardware-in-the-loop (HIL) experimentation and preproduction mule chassis evaluation, recently. Our paper details the accelerated development of a printed range-extended electric vehicle (REEV) by Oak Ridge National Laboratory, by paralleling hardware-in-the-loop development of the powertrain with rapid chassis prototyping using big area additive manufacturing (BAAM). BAAM’s abilitymore » to accelerate the mule vehicle development from computer-aided design to vehicle build is explored. The use of a hardware-in-the-loop laboratory is described as it is applied to the design of a range-extended electric powertrain to be installed in a printed prototype vehicle. Furthermore, the integration of the powertrain and the opportunities and challenges it presents are described in this work. A comparison of offline simulation, HIL and chassis rolls results is presented to validate the development process. Chassis dynamometer results for battery electric and range extender operation are analyzed to show the benefits of the architecture.« less

Loops formed by tidal tails as fossil records of a major merger

NASA Astrophysics Data System (ADS)

Wang, J.; Hammer, F.; Athanassoula, E.; Puech, M.; Yang, Y.; Flores, H.

2012-02-01

Context. Many haloes of nearby disc galaxies contain faint and extended features, including loops, which are often interpreted as relics of satellite infall in the main galaxy's potential well. In most cases, however, the residual nucleus of the satellite is not seen, although it is predicted by numerical simulations. Aims: We test whether such faint and extended features can be associated to gas-rich, major mergers, which may also lead to disc rebuilding and thus be a corner stone for the formation of spiral galaxies. Our goal is to test whether the major merger scenario can provide a good model for a particularly difficult case, that of NGC 5907, and to compare to the scenario of a satellite infall. Methods: Using the TreeSPH code GADGET-2, we model the formation of an almost bulge-less galaxy similar to NGC 5907 (B/T ≲ 0.2) after a gas-rich major merger. First, we trace tidal tail particles captured by the galaxy gravitational potential to verify whether they can form loops similar to those discovered in the galactic haloes. Results: We indeed find that 3:1 major mergers can form features similar to the loops found in many galactic haloes, including in NGC 5907, and can reproduce an extended thin disc, a bulge, as well as the pronounced warp of the gaseous disc. Relatively small bulge fractions can be reproduced by a large gas fraction in the progenitors, as well as appropriate orbital parameters. Conclusions: Even though it remains difficult to fully cover the large volume of free parameters, the present modelling of the loops in NGC 5907 proves that they could well be the result of a major merger. It has many advantages over the satellite infall scenario; e.g., it solves the problem of the visibility of the satellite remnant, and it may explain some additional features in the NGC 5907 halo, as well as some gas properties of this system. For orbital parameters derived from cosmological simulations, the loops in NGC 5907 can be reproduced by major mergers (3:1 to 5:1) and possibly by intermediate mergers (5:1 to 12:1). The major merger scenario thus challenges the minor merger one and could explain many properties that haloes of spiral galaxies have in common, including their red colours and the presence of faint extended features.

Ligand-Dependent Disorder of Loop Observed in Extended-Spectrum SHV-Type beta-Lactamase

DOE Office of Scientific and Technical Information (OSTI.GOV)

J Sampson; W Ke; C Bethel

2011-12-31

Among Gram-negative bacteria, resistance to {beta}-lactams is mediated primarily by {beta}-lactamases (EC 3.2.6.5), periplasmic enzymes that inactivate {beta}-lactam antibiotics. Substitutions at critical amino acid positions in the class A {beta}-lactamase families result in enzymes that can hydrolyze extended-spectrum cephalosporins, thus demonstrating an 'extended-spectrum' {beta}-lactamase (ESBL) phenotype. Using SHV ESBLs with substitutions in the {Omega} loop (R164H and R164S) as target enzymes to understand this enhanced biochemical capability and to serve as a basis for novel {beta}-lactamase inhibitor development, we determined the spectra of activity and crystal structures of these variants. We also studied the inactivation of the R164H and R164Smore » mutants with tazobactam and SA2-13, a unique {beta}-lactamase inhibitor that undergoes a distinctive reaction chemistry in the active site. We noted that the reduced K{sub i} values for the R164H and R164S mutants with SA2-13 are comparable to those with tazobactam (submicromolar). The apo enzyme crystal structures of the R164H and R164S SHV variants revealed an ordered {Omega} loop architecture that became disordered when SA2-13 was bound. Important structural alterations that result from the binding of SA2-13 explain the enhanced susceptibility of these ESBL enzymes to this inhibitor and highlight ligand-dependent {Omega} loop flexibility as a mechanism for accommodating and hydrolyzing {beta}-lactam substrates.« less

Hypervelocity gun. [using both electric and chemical energy for projectile propulsion

NASA Technical Reports Server (NTRS)

Ford, F. C.; Biehl, A. J. (Inventor)

1965-01-01

A velocity amplifier system which uses both electric and chemical energy for projectile propulsion is provided in a compact hypervelocity gun suitable for laboratory use. A relatively heavy layer of a tamping material such as concrete encloses a loop of an electrically conductive material. An explosive charge at least partially surrounding the loop is adapted to collapse the loop upon detonation of the charge. A source of electricity charges the loop through two leads, and an electric switch which is activated by the charge explosive charge, disconnects the leads from the source of electricity and short circuits them. An opening in the tamping material extends to the loop and forms a barrel. The loop, necked down in the opening, forms the sabot on which the projectile is located. When the loop is electrically charged and the explosive detonated, the loop is short circuited and collapsed thus building up a magnetic field which acts as a sabot catcher. The sabot is detached from the loop and the sabot and projectile are accelerated to hypervelocity.

Microflaring in Low-Lying Core Fields and Extended Coronal Heating in the Quiet Sun

NASA Technical Reports Server (NTRS)

Porter, Jason G.; Falconer, D. A.; Moore, Ronald L.

1999-01-01

We have previously reported analyses of Yohkoh SXT data examining the relationship between the heating of extended coronal loops (both within and stemming from active regions) and microflaring in core fields lying along neutral lines near their footpoints (J. G. Porter, D. A. Falconer, and R. L. Moore 1998, in Solar Jets and Coronal Plumes, ed. T. Guyenne, ESA SP-421, and references therein). We found a surprisingly poor correlation of intensity variations in the extended loops with individual microflares in the compact heated areas at their feet, despite considerable circumstancial evidence linking the heating processes in these regions. Now, a study of Fe XII image sequences from SOHO EIT show that similar associations of core field structures with the footpoints of very extended coronal features can be found in the quiet Sun. The morphology is consistent with the finding of Wang et al. (1997, ApJ 484, L75) that polar plumes are rooted at sites of mixed polarity in the magnetic network. We find that the upstairs/downstairs intensity variations often follow the trend, identified in the active region observations, of a weak correspondence. Apparently much of the coronal heating in the extended loops is driven by a type of core field magnetic activity that is "cooler" than the events having the coronal signature of microflares, i.e., activity that results in little heating within the core fields themselves. This work was funded by the Solar Physics Branch of NASA's Office of Space Science through the SR&T Program and the SEC Guest Investigator Program.

Investigation of the factors responsible for burns during MRI.

PubMed

Dempsey, M F; Condon, B; Hadley, D M

2001-04-01

Numerous reported burn injuries have been sustained during clinical MRI procedures. The aim of this study was to investigate the possible factors that may be responsible for such burns. Experiments were performed to investigate three possible mechanisms for causing heating in copper wire during MRI: direct electromagnetic induction in a conductive loop, induction in a resonant conducting loop, and electric field resonant coupling with a wire (the antenna effect). Maximum recorded temperature rises were 0.6 degrees C for the loop, 61.1 degrees C for the resonant loop, and 63.5 degrees C for the resonant antenna. These experimental findings suggest that, contrary to common belief, it is unlikely that direct induction in a conductive loop will result in thermal injury. Burn incidents are more likely to occur due to the formation of resonant conducting loops and from extended wires forming resonant antenna. The characteristics of resonance should be considered when formulating safety guidelines.

THE EFFECT OF THE {sup 14}N(p, {gamma}){sup 15}O REACTION ON THE BLUE LOOPS IN INTERMEDIATE-MASS STARS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Halabi, Ghina M.; El Eid, Mounib F.; Champagne, Arthur

2012-12-10

We present stellar evolutionary sequences of stars in the mass range 5-12 M{sub Sun }, having solar-like initial composition. The stellar models are obtained using updated input physics, including recent rates of thermonuclear reactions. We investigate the effects of a modification of the {sup 14}N(p, {gamma}){sup 15}O reaction rate, as suggested by recent evaluations, on the formation and extension of the blue loops encountered during the evolution of the stars in the above mass range. We find that a reduced {sup 14}N(p, {gamma}){sup 15}O rate, as described in the text, has a striking impact on the physical conditions of burningmore » and mixing during shell hydrogen burning when the blue loops are formed. In particular, we find that the efficiency of shell hydrogen burning is crucial for the formation of an extended blue loop. We show that a significantly reduced {sup 14}N(p, {gamma}){sup 15}O rate affects severely the extension of the blue loops and the time spent by the star in the blue part of the Hertzsprung-Russell diagram in the mass range 5-7 M{sub Sun} if the treatment of convection is based on the Schwarzschild criterion only. In this case, envelope overshooting helps to restore well-extended blue loops as supported by the observations of the Cepheid stars. If core overshooting is included during the core hydrogen and core helium burning phases, the loop formation and its properties depend on how this overshooting is treated for a given stellar mass range, as well as on its efficiency.« less

Transequatorial loops interconnecting McMath regions 12472 and 12474

NASA Technical Reports Server (NTRS)

Svestka, Z.; Krieger, A. S.; Chase, R. C.; Howard, R.

1977-01-01

The paper reviews the life history of one transequatorial loop in a system observed in soft X-rays for at least 1.5 days and which interconnected a newly born active region with an old region. The birth of the selected loop is discussed along with properties of the interconnected active regions, sharpening and brightening of the loop, decay of the loop system, and physical relations between the interconnected regions. It is concluded that: (1) the loop was most probably born via reconnection of magnetic-field lines extending from the two active regions toward the equator, which occurred later than 33 hr after the younger region was born; (2) the fully developed interconnection was composed of several loops, all of which appeared to be rooted in a spotless magnetic hill of preceding northern polarity but were spread over two separate spotty regions of southern polarity in the magnetically complex new region; (3) the loop electron temperature increased from 2.1 million to 3.1 million K in one to three hours when the loop system brightened; and (4) the loops became twisted during the brightening, possibly due to their rise in the corona while remaining rooted in moving magnetic features in the younger region.

Mapping the Structural and Dynamical Features of Multiple p53 DNA Binding Domains: Insights into Loop 1 Intrinsic Dynamics

PubMed Central

Lukman, Suryani; Lane, David P.; Verma, Chandra S.

2013-01-01

The transcription factor p53 regulates cellular integrity in response to stress. p53 is mutated in more than half of cancerous cells, with a majority of the mutations localized to the DNA binding domain (DBD). In order to map the structural and dynamical features of the DBD, we carried out multiple copy molecular dynamics simulations (totaling 0.8 μs). Simulations show the loop 1 to be the most dynamic element among the DNA-contacting loops (loops 1-3). Loop 1 occupies two major conformational states: extended and recessed; the former but not the latter displays correlations in atomic fluctuations with those of loop 2 (~24 Å apart). Since loop 1 binds to the major groove whereas loop 2 binds to the minor groove of DNA, our results begin to provide some insight into the possible mechanism underpinning the cooperative nature of DBD binding to DNA. We propose (1) a novel mechanism underlying the dynamics of loop 1 and the possible tread-milling of p53 on DNA and (2) possible mutations on loop 1 residues to restore the transcriptional activity of an oncogenic mutation at a distant site. PMID:24324553

X-ray characteristics of the Lupus Loop and SN 1006 supernova remnants

DOE Office of Scientific and Technical Information (OSTI.GOV)

Toor, A.

1980-01-01

The spatial extent of the Lupus Loop and spectra for the Lupus Loop and SN1006 supernova remnants have been determined with a rocket-borne payload. The Lupus Loop is an extended source of soft X-rays (approx. 300' diam) that shows a correlation between its brightest x-ray and radio-emission regions. Its spectrum is characterized by a temperature of 350 eV. Thus, the Lupus Loop appears similar to Vela X and Cygnus Loop, although much weaker. Emission from SN1006 is spatially unresolved and exhibits a harder spectrum than that of the Lupus Loop. All spectral data (0.2 to 10 keV) from our observationmore » and previous observations are satisfactorily fit with a power law (index = 2.15). This spectral dependence suggests the possibility that a rotating neutron star is the underlying source of the radiated energy although such an interpretation appears inconsistent with the remnant's morphology.« less

CD-loop Extension in Zika Virus Envelope Protein Key for Stability and Pathogenesis.

PubMed

Gallichotte, Emily N; Dinnon, Kenneth H; Lim, Xin-Ni; Ng, Thiam-Seng; Lim, Elisa X Y; Menachery, Vineet D; Lok, Shee-Mei; Baric, Ralph S

2017-12-05

With severe disease manifestations including microcephaly, congenital malformation, and Guillain-Barré syndrome, Zika virus (ZIKV) remains a persistent global public health threat. Despite antigenic similarities with dengue viruses, structural studies have suggested the extended CD-loop and hydrogen-bonding interaction network within the ZIKV envelope protein contribute to stability differences between the viral families. This enhanced stability may lead to the augmented infection, disease manifestation, and persistence in body fluids seen following ZIKV infection. To examine the role of these motifs in infection, we generated a series of ZIKV recombinant viruses that disrupted the hydrogen-bonding network (350A, 351A, and 350A/351A) or the CD-loop extension (Δ346). Our results demonstrate a key role for the ZIKV extended CD-loop in cell-type-dependent replication, virion stability, and in vivo pathogenesis. Importantly, the Δ346 mutant maintains similar antigenicity to wild-type virus, opening the possibility for its use as a live-attenuated vaccine platform for ZIKV and other clinically relevant flaviviruses. © The Author(s) 2017. Published by Oxford University Press for the Infectious Diseases Society of America. All rights reserved. For permissions, e-mail: journals.permissions@oup.com.

Open-loop-feedback control of serum drug concentrations: pharmacokinetic approaches to drug therapy.

PubMed

Jelliffe, R W

1983-01-01

Recent developments to optimize open-loop-feedback control of drug dosage regimens, generally applicable to pharmacokinetically oriented therapy with many drugs, involve computation of patient-individualized strategies for obtaining desired serum drug concentrations. Analyses of past therapy are performed by least squares, extended least squares, and maximum a posteriori probability Bayesian methods of fitting pharmacokinetic models to serum level data. Future possibilities for truly optimal open-loop-feedback therapy with full Bayesian methods, and conceivably for optimal closed-loop therapy in such data-poor clinical situations, are also discussed. Implementation of these various therapeutic strategies, using automated, locally controlled infusion devices, has also been achieved in prototype form.

Functions of Replication Protein A as a Sensor of R Loops and a Regulator of RNaseH1

PubMed Central

Nguyen, Hai Dang; Yadav, Tribhuwan; Giri, Sumanprava; Saez, Borja; Graubert, Timothy A.; Zou, Lee

2017-01-01

R loop, a transcription intermediate containing RNA:DNA hybrids and displaced single-stranded DNA (ssDNA), has emerged as a major source of genomic instability. RNaseH1, which cleaves the RNA in RNA:DNA hybrids, plays an important role in R loop suppression. Here, we show that replication protein A (RPA), a ssDNA-binding protein, interacts with RNaseH1 and colocalizes with both RNaseH1 and R loops in cells. In vitro, purified RPA directly enhances the association of RNaseH1 with RNA:DNA hybrids and stimulates the activity of RNaseH1 on R loops. An RPA binding-defective RNaseH1 mutant is not efficiently stimulated by RPA in vitro, fails to accumulate at R loops in cells, and loses the ability to suppress R loops and associated genomic instability. Thus, in addition to sensing DNA damage and replication stress, RPA is a sensor of R loops and a regulator of RNaseH1, extending the versatile role of RPA in suppression of genomic instability. PMID:28257700

Analysis of the bacterial luciferase mobile loop by replica-exchange molecular dynamics.

PubMed

Campbell, Zachary T; Baldwin, Thomas O; Miyashita, Osamu

2010-12-15

Bacterial luciferase contains an extended 29-residue mobile loop. Movements of this loop are governed by binding of either flavin mononucleotide (FMNH2) or polyvalent anions. To understand this process, loop dynamics were investigated using replica-exchange molecular dynamics that yielded conformational ensembles in either the presence or absence of FMNH2. The resulting data were analyzed using clustering and network analysis. We observed the closed conformations that are visited only in the simulations with the ligand. Yet the mobile loop is intrinsically flexible, and FMNH2 binding modifies the relative populations of conformations. This model provides unique information regarding the function of a crystallographically disordered segment of the loop near the binding site. Structures at or near the fringe of this network were compatible with flavin binding or release. Finally, we demonstrate that the crystallographically observed conformation of the mobile loop bound to oxidized flavin was influenced by crystal packing. Thus, our study has revealed what we believe are novel conformations of the mobile loop and additional context for experimentally determined structures. Copyright © 2010 Biophysical Society. Published by Elsevier Inc. All rights reserved.

Efforts to Reduce International Space Station Crew Maintenance Time in the Management of the Extravehicular Mobility Unit Transport Loop Water Quality

NASA Technical Reports Server (NTRS)

Etter,David; Rector, Tony; Boyle, robert; Zande, Chris Vande

2012-01-01

The EMU (Extravehicular Mobility Unit) contains a semi-closed-loop re-circulating water circuit (Transport Loop) to absorb heat into a LCVG (Liquid Coolant and Ventilation Garment) worn by the astronaut. A second, single-pass water circuit (Feed-water Loop) provides water to a cooling device (Sublimator) containing porous plates, and that water sublimates through the porous plates to space vacuum. The cooling effect from the sublimation of this water translates to a cooling of the LCVG water that circulates through the Sublimator. The quality of the EMU Transport Loop water is maintained through the use of a water processing kit (ALCLR - Airlock Cooling Loop Remediation) that is used to periodically clean and disinfect the water circuit. Opportunities to reduce crew time associated with ALCLR operations include a detailed review of the historical water quality data for evidence to support an extension to the implementation cycle. Furthermore, an EMU returned after 2-years of use on the ISS (International Space Station) is being used as a test bed to evaluate the results of extended and repeated ALCLR implementation cycles. Finally, design, use and on-orbit location enhancements to the ALCLR kit components are being considered to allow the implementation cycle to occur in parallel with other EMU maintenance and check-out activities, and to extend the life of the ALCLR kit components. These efforts are undertaken to reduce the crew-time and logistics burdens for the EMU, while ensuring the long-term health of the EMU water circuits for a post- Shuttle 6-year service life.

Efforts to Reduce International Space Station Crew Maintenance for the Management of the Extravehicular Mobility Unit Transport Loop Water Quality

NASA Technical Reports Server (NTRS)

Steele, John W.; Etter, David; Rector, Tony; Boyle, Robert; Vandezande, Christopher

2013-01-01

The EMU (Extravehicular Mobility Unit) contains a semi-closed-loop re-circulating water circuit (Transport Loop) to absorb heat into a LCVG (Liquid Coolant and Ventilation Garment) worn by the astronaut. A second, single-pass water circuit (Feed-water Loop) provides water to a cooling device (Sublimator) containing porous plates, and that water sublimates through the porous plates to space vacuum. The cooling effect from the sublimation of this water translates to a cooling of the LCVG water that circulates through the Sublimator. The quality of the EMU Transport Loop water is maintained through the use of a water processing kit (ALCLR Airlock Cooling Loop Remediation) that is used to periodically clean and disinfect the water circuit. Opportunities to reduce crew time associated with on-orbit ALCLR operations include a detailed review of the historical water quality data for evidence to support an extension to the implementation cycle. Furthermore, an EMU returned after 2-years of use on the ISS (International Space Station) is being used as a test bed to evaluate the results of extended and repeated ALCLR implementation cycles. Finally, design, use and on-orbit location enhancements to the ALCLR kit components are being considered to allow the implementation cycle to occur in parallel with other EMU maintenance and check-out activities, and to extend the life of the ALCLR kit components. These efforts are undertaken to reduce the crew-time and logistics burdens for the EMU, while ensuring the long-term health of the EMU water circuits for a post-Shuttle 6-year service life.

Schramm-Loewner evolution and Liouville quantum gravity.

PubMed

Duplantier, Bertrand; Sheffield, Scott

2011-09-23

We show that when two boundary arcs of a Liouville quantum gravity random surface are conformally welded to each other (in a boundary length-preserving way) the resulting interface is a random curve called the Schramm-Loewner evolution. We also develop a theory of quantum fractal measures (consistent with the Knizhnik-Polyakov-Zamolochikov relation) and analyze their evolution under conformal welding maps related to Schramm-Loewner evolution. As an application, we construct quantum length and boundary intersection measures on the Schramm-Loewner evolution curve itself.

A reconfigurable visual-programming library for real-time closed-loop cellular electrophysiology

PubMed Central

Biró, István; Giugliano, Michele

2015-01-01

Most of the software platforms for cellular electrophysiology are limited in terms of flexibility, hardware support, ease of use, or re-configuration and adaptation for non-expert users. Moreover, advanced experimental protocols requiring real-time closed-loop operation to investigate excitability, plasticity, dynamics, are largely inaccessible to users without moderate to substantial computer proficiency. Here we present an approach based on MATLAB/Simulink, exploiting the benefits of LEGO-like visual programming and configuration, combined to a small, but easily extendible library of functional software components. We provide and validate several examples, implementing conventional and more sophisticated experimental protocols such as dynamic-clamp or the combined use of intracellular and extracellular methods, involving closed-loop real-time control. The functionality of each of these examples is demonstrated with relevant experiments. These can be used as a starting point to create and support a larger variety of electrophysiological tools and methods, hopefully extending the range of default techniques and protocols currently employed in experimental labs across the world. PMID:26157385

Observational Signatures of Magnetic Reconnection in the Extended Corona

NASA Technical Reports Server (NTRS)

Savage, Sabrina; West, Matthew J.; Seaton, Daniel B.; Kobelski, Adam

2016-01-01

Observational signatures of reconnection have been studied extensively in the lower corona for decades, successfully providing insight into energy release mechanisms in the region above post-flare arcade loops and below 1.5 solar radii. During large eruptive events, however, energy release continues to occur well beyond the presence of reconnection signatures at these low heights. Supra-Arcade Downflows (SADs) and Supra-Arcade Downflowing Loops (SADLs) are particularly useful measures of continual reconnection in the corona as they may indicate the presence and path of retracting post-reconnection loops. SADs and SADLs have been faintly observed up to 18 hours beyond the passage of coronas mass ejections through the SOHO/LASCO field of view, but a recent event from 2014 October 14 associated with giant arches provides very clear observations of these downflows for days after the initial eruption. We report on this unique event and compare these findings with observational signatures of magnetic reconnection in the extended corona for more typical eruptions.

Observational Signatures of Magnetic Reconnection in the Extended Corona

NASA Technical Reports Server (NTRS)

Savage, Sabrina; West, Matthew J.; Seaton, Danial B.; Kobelski, Adam

2016-01-01

Observational signatures of reconnection have been studied extensively in the lower corona for decades, successfully providing insight into energy release mechanisms in the region above post-flare arcade loops and below 1.5 solar radii. During large eruptive events, however, energy release continues to occur well beyond the presence of reconnection signatures at these low heights. Supra-Arcade Downflows (SADs) and Supra-Arcade Downflowing Loops (SADLs) are particularly useful measures of continual reconnection in the corona as they may indicate the presence and path of retracting post-reconnection loops. SADs and SADLs have been faintly observed up to 18 hours beyond the passage of corona mass ejections through the SOHO/LASCO field of view, but a recent event from 2014 October 14 associated with giant arches provides very clear observations of these downflows for days after the initial eruption. We report on this unique event and compare these findings with observational signatures of magnetic reconnection in the extended corona for more typical eruptions.

Observational Signatures of Magnetic Reconnection in the Extended Corona

NASA Technical Reports Server (NTRS)

Savage, Sabrina; West, Matthew J.; Seaton, Daniel B.; Kobelski, Adam

2017-01-01

Observational signatures of reconnection have been studied extensively in the lower corona for decades, successfully providing insight into energy release mechanisms in the region above post-flare arcade loops and below 1.5 solar radii. During large eruptive events, however, energy release continues to occur well beyond the presence of reconnection signatures at these low heights. Supra-Arcade Downflows (SADs) and Supra-Arcade Downflowing Loops (SADLs) are particularly useful measures of continual reconnection in the corona as they may indicate the presence and path of retracting post-reconnection loops. SADs and SADLs have been faintly observed up to 18 hours beyond the passage of corona mass ejections through the SOHO/LASCO field of view, but a recent event from 2014 October 14 associated with giant arches provides very clear observations of these downflows for days after the initial eruption. We report on this unique event and compare these findings with observational signatures of magnetic reconnection in the extended corona for more typical eruptions.

Nonlocal impacts of the Loop Current on cross-slope near-bottom flow in the northeastern Gulf of Mexico

NASA Astrophysics Data System (ADS)

Nguyen, Thanh-Tam; Morey, Steven L.; Dukhovskoy, Dmitry S.; Chassignet, Eric P.

2015-04-01

Cross-slope near-bottom motions near De Soto Canyon in the northeastern Gulf of Mexico are analyzed from a multidecadal ocean model simulation to characterize upwelling and downwelling, important mechanisms for exchange between the deep ocean and shelf in the vicinity of the 2010 BP Macondo well oil spill. Across the continental slope, large-scale depression and offshore movement of isopycnals (downwelling) occur more frequently when the Loop Current impinges upon the West Florida Shelf slope farther south. Upwelling and onshore movement of isopycnals occurs with roughly the same likelihood regardless of Loop Current impingement on the slope. The remote influence of Loop Current on the De Soto Canyon region downwelling is a consequence of a high-pressure anomaly that extends along the continental slope emanating from the location of Loop Current impact.

An Assessment of Magnetic Conditions for Strong Coronal Heating in Solar Active Regions by Comparing Observed Loops with Computed Potential Field Lines

NASA Technical Reports Server (NTRS)

Gary, G. A.; Moore, R. L.; Porter, J. G.; Falconer, D. A.

1999-01-01

We report further results on the magnetic origins of coronal heating found from registering coronal images with photospheric vector magnetograms. For two complementary active regions, we use computed potential field lines to examine the global non-potentiality of bright extended coronal loops and the three-dimensional structure of the magnetic field at their feet, and assess the role of these magnetic conditions in the strong coronal heating in these loops. The two active regions are complementary, in that one is globally potential and the other is globally nonpotential, while each is predominantly bipolar, and each has an island of included polarity in its trailing polarity domain. We find the following: (1) The brightest main-arch loops of the globally potential active region are brighter than the brightest main- arch loops of the globally strongly nonpotential active region. (2) In each active region, only a few of the mainarch magnetic loops are strongly heated, and these are all rooted near the island. (3) The end of each main-arch bright loop apparently bifurcates above the island, so that it embraces the island and the magnetic null above the island. (4) At any one time, there are other main-arch magnetic loops that embrace the island in the same manner as do the bright loops but that are not selected for strong coronal heating. (5) There is continual microflaring in sheared core fields around the island, but the main-arch bright loops show little response to these microflares. From these observational and modeling results we draw the following conclusions: (1) The heating of the main-arch bright loops arises mainly from conditions at the island end of these loops and not from their global non-potentiality. (2) There is, at most, only a loose coupling between the coronal heating in the bright loops of the main arch and the coronal heating in the sheared core fields at their feet, although in both the heating is driven by conditions/events in and around the island. (3) The main-arch bright loops are likely to be heated via reconnection driven at the magnetic null over the island. The details of how and where (along the null line) the reconnection is driven determine which of the split-end loops are selected for strong heating. (4) The null does not appear to be directly involved in the heating of the sheared core fields or in the heating of an extended loop rooted in the island. Rather, these all appear to be heated by microflares in the sheared core field.

Entrainment and Control of Bacterial Populations: An in Silico Study over a Spatially Extended Agent Based Model.

PubMed

Mina, Petros; Tsaneva-Atanasova, Krasimira; Bernardo, Mario di

2016-07-15

We extend a spatially explicit agent based model (ABM) developed previously to investigate entrainment and control of the emergent behavior of a population of synchronized oscillating cells in a microfluidic chamber. Unlike most of the work in models of control of cellular systems which focus on temporal changes, we model individual cells with spatial dependencies which may contribute to certain behavioral responses. We use the model to investigate the response of both open loop and closed loop strategies, such as proportional control (P-control), proportional-integral control (PI-control) and proportional-integral-derivative control (PID-control), to heterogeinities and growth in the cell population, variations of the control parameters and spatial effects such as diffusion in the spatially explicit setting of a microfluidic chamber setup. We show that, as expected from the theory of phase locking in dynamical systems, open loop control can only entrain the cell population in a subset of forcing periods, with a wide variety of dynamical behaviors obtained outside these regions of entrainment. Closed-loop control is shown instead to guarantee entrainment in a much wider region of control parameter space although presenting limitations when the population size increases over a certain threshold. In silico tracking experiments are also performed to validate the ability of classical control approaches to achieve other reference behaviors such as a desired constant output or a linearly varying one. All simulations are carried out in BSim, an advanced agent-based simulator of microbial population which is here extended ad hoc to include the effects of control strategies acting onto the population.

Extending the Soar Cognitive Architecture

DTIC Science & Technology

2007-07-01

the first corticostriatal loop, communicating with areas in prefrontal cortex may decide that the medium term intention goal is to satisfy hunger ...decided upon, perhaps rising from a chair. The medium term goal of hunger satiation remains - repeatedly selected by its corticostriatal loop when a...decision between hunger and another medium term goal is required. The actions needed to fulfill that goal are executed in sequence until the goal has

A Closed-Loop Hardware Simulation of Decentralized Satellite Formation Control

NASA Technical Reports Server (NTRS)

Ebimuma, Takuji; Lightsey, E. Glenn; Baur, Frank (Technical Monitor)

2002-01-01

In recent years, there has been significant interest in the use of formation flying spacecraft for a variety of earth and space science missions. Formation flying may provide smaller and cheaper satellites that, working together, have more capability than larger and more expensive satellites. Several decentralized architectures have been proposed for autonomous establishment and maintenance of satellite formations. In such architectures, each satellite cooperatively maintains the shape of the formation without a central supervisor, and processing only local measurement information. The Global Positioning System (GPS) sensors are ideally suited to provide such local position and velocity measurements to the individual satellites. An investigation of the feasibility of a decentralized approach to satellite formation flying was originally presented by Carpenter. He extended a decentralized linear-quadratic-Gaussian (LQG) framework proposed by Speyer in a fashion similar to an extended Kalman filter (EKE) which processed GPS position fix solutions. The new decentralized LQG architecture was demonstrated in a numerical simulation for a realistic scenario that is similar to missions that have been proposed by NASA and the U.S. Air Force. Another decentralized architecture was proposed by Park et al. using carrier differential-phase GPS (CDGPS). Recently, Busse et al demonstrated the decentralized CDGPS architecture in a hardware-in-the-loop simulation on the Formation Flying TestBed (FFTB) at Goddard Space Flight Center (GSFC), which features two Spirent Cox 16 channel GPS signal generator. Although representing a step forward by utilizing GPS signal simulators for a spacecraft formation flying simulation, only an open-loop performance, in which no maneuvers were executed based on the real-time state estimates, was considered. In this research, hardware experimentation has been extended to include closed-loop integrated guidance and navigation of multiple spacecraft formations using GPS receivers and real-time vehicle telemetry. A hardware closed-loop simulation has been performed using the decentralized LQG architecture proposed by Carpenter in the GPS test facility at the Center for Space Research (CSR). This is the first presentation using this type of hardware for demonstration of closed-loop spacecraft formation flying.

Strand displacement synthesis by yeast DNA polymerase ε

PubMed Central

Ganai, Rais A.; Zhang, Xiao-Ping; Heyer, Wolf-Dietrich; Johansson, Erik

2016-01-01

DNA polymerase ε (Pol ε) is a replicative DNA polymerase with an associated 3′–5′ exonuclease activity. Here, we explored the capacity of Pol ε to perform strand displacement synthesis, a process that influences many DNA transactions in vivo. We found that Pol ε is unable to carry out extended strand displacement synthesis unless its 3′–5′ exonuclease activity is removed. However, the wild-type Pol ε holoenzyme efficiently displaced one nucleotide when encountering double-stranded DNA after filling a gap or nicked DNA. A flap, mimicking a D-loop or a hairpin structure, on the 5′ end of the blocking primer inhibited Pol ε from synthesizing DNA up to the fork junction. This inhibition was observed for Pol ε but not with Pol δ, RB69 gp43 or Pol η. Neither was Pol ε able to extend a D-loop in reconstitution experiments. Finally, we show that the observed strand displacement synthesis by exonuclease-deficient Pol ε is distributive. Our results suggest that Pol ε is unable to extend the invading strand in D-loops during homologous recombination or to add more than two nucleotides during long-patch base excision repair. Our results support the hypothesis that Pol ε participates in short-patch base excision repair and ribonucleotide excision repair. PMID:27325747

Processing of double-R-loops in (CAG)·(CTG) and C9orf72 (GGGGCC)·(GGCCCC) repeats causes instability

PubMed Central

Reddy, Kaalak; Schmidt, Monika H.M.; Geist, Jaimie M.; Thakkar, Neha P.; Panigrahi, Gagan B.; Wang, Yuh-Hwa; Pearson, Christopher E.

2014-01-01

R-loops, transcriptionally-induced RNA:DNA hybrids, occurring at repeat tracts (CTG)n, (CAG)n, (CGG)n, (CCG)n and (GAA)n, are associated with diseases including myotonic dystrophy, Huntington's disease, fragile X and Friedreich's ataxia. Many of these repeats are bidirectionally transcribed, allowing for single- and double-R-loop configurations, where either or both DNA strands may be RNA-bound. R-loops can trigger repeat instability at (CTG)·(CAG) repeats, but the mechanism of this is unclear. We demonstrate R-loop-mediated instability through processing of R-loops by HeLa and human neuron-like cell extracts. Double-R-loops induced greater instability than single-R-loops. Pre-treatment with RNase H only partially suppressed instability, supporting a model in which R-loops directly generate instability by aberrant processing, or via slipped-DNA formation upon RNA removal and its subsequent aberrant processing. Slipped-DNAs were observed to form following removal of the RNA from R-loops. Since transcriptionally-induced R-loops can occur in the absence of DNA replication, R-loop processing may be a source of repeat instability in the brain. Double-R-loop formation and processing to instability was extended to the expanded C9orf72 (GGGGCC)·(GGCCCC) repeats, known to cause amyotrophic lateral sclerosis and frontotemporal dementia, providing the first suggestion through which these repeats may become unstable. These findings provide a mechanistic basis for R-loop-mediated instability at disease-associated repeats. PMID:25147206

CONFINEMENT OF HIGH TEMPERATURE PLASMA

DOEpatents

Koenig, H.R.

1963-05-01

The confinement of a high temperature plasma in a stellarator in which the magnetic confinement has tended to shift the plasma from the center of the curved, U-shaped end loops is described. Magnetic means are provided for counteracting this tendency of the plasma to be shifted away from the center of the end loops, and in one embodiment this magnetic means is a longitudinally extending magnetic field such as is provided by two sets of parallel conductors bent to follow the U-shaped curvature of the end loops and energized oppositely on the inside and outside of this curvature. (AEC)

The QCD form factor of heavy quarks at NNLO

NASA Astrophysics Data System (ADS)

Gluza, J.; Mitov, A.; Moch, S.; Riemann, T.

2009-07-01

We present an analytical calculation of the two-loop QCD corrections to the electromagnetic form factor of heavy quarks. The two-loop contributions to the form factor are reduced to linear combinations of master integrals, which are computed through higher orders in the parameter of dimensional regularization epsilon = (4-D)/2. Our result includes all terms of order epsilon at two loops and extends the previous literature. We apply the exponentiation of the heavy-quark form factor to derive new improved three-loop expansions in the high-energy limit. We also discuss the implications for predictions of massive n-parton amplitudes based on massless results in the limit, where the quark mass is small compared to all kinematical invariants.

Experimental validation of a predicted feedback loop in the multi-oscillator clock of Arabidopsis thaliana

PubMed Central

Locke, James C W; Kozma-Bognár, László; Gould, Peter D; Fehér, Balázs; Kevei, Éva; Nagy, Ferenc; Turner, Matthew S; Hall, Anthony; Millar, Andrew J

2006-01-01

Our computational model of the circadian clock comprised the feedback loop between LATE ELONGATED HYPOCOTYL (LHY), CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) and TIMING OF CAB EXPRESSION 1 (TOC1), and a predicted, interlocking feedback loop involving TOC1 and a hypothetical component Y. Experiments based on model predictions suggested GIGANTEA (GI) as a candidate for Y. We now extend the model to include a recently demonstrated feedback loop between the TOC1 homologues PSEUDO-RESPONSE REGULATOR 7 (PRR7), PRR9 and LHY and CCA1. This three-loop network explains the rhythmic phenotype of toc1 mutant alleles. Model predictions fit closely to new data on the gi;lhy;cca1 mutant, which confirm that GI is a major contributor to Y function. Analysis of the three-loop network suggests that the plant clock consists of morning and evening oscillators, coupled intracellularly, which may be analogous to coupled, morning and evening clock cells in Drosophila and the mouse. PMID:17102804

Static and Impulsive Models of Solar Active Regions

NASA Technical Reports Server (NTRS)

Patsourakos, S.; Klimchuk, James A.

2008-01-01

The physical modeling of active regions (ARs) and of the global coronal is receiving increasing interest lately. Recent attempts to model ARs using static equilibrium models were quite successful in reproducing AR images of hot soft X-ray (SXR) loops. They however failed to predict the bright EUV warm loops permeating ARs: the synthetic images were dominated by intense footpoint emission. We demonstrate that this failure is due to the very weak dependence of loop temperature on loop length which cannot simultaneously account for both hot and warm loops in the same AR. We then consider time-dependent AR models based on nanoflare heating. We demonstrate that such models can simultaneously reproduce EUV and SXR loops in ARs. Moreover, they predict radial intensity variations consistent with the localized core and extended emissions in SXR and EUV AR observations respectively. We finally show how the AR morphology can be used as a gauge of the properties (duration, energy, spatial dependence, repetition time) of the impulsive heating.

Characterization of a native hammerhead ribozyme derived from schistosomes

PubMed Central

OSBORNE, EDITH M.; SCHAAK, JANELL E.; DEROSE, VICTORIA J.

2005-01-01

A recent re-examination of the role of the helices surrounding the conserved core of the hammerhead ribozyme has identified putative loop–loop interactions between stems I and II in native hammerhead sequences. These extended hammerhead sequences are more active at low concentrations of divalent cations than are minimal hammerheads. The loop–loop interactions are proposed to stabilize a more active conformation of the conserved core. Here, a kinetic and thermodynamic characterization of an extended hammerhead sequence derived from Schistosoma mansoni is performed. Biphasic kinetics are observed, suggesting the presence of at least two conformers, one cleaving with a fast rate and the other with a slow rate. Replacing loop II with a poly(U) sequence designed to eliminate the interaction between the two loops results in greatly diminished activity, suggesting that the loop–loop interactions do aid in forming a more active conformation. Previous studies with minimal hammerheads have shown deleterious effects of Rp-phosphorothioate substitutions at the cleavage site and 5′ to A9, both of which could be rescued with Cd2+. Here, phosphorothioate modifications at the cleavage site and 5′ to A9 were made in the schistosome-derived sequence. In Mg2+, both phosphorothioate substitutions decreased the overall fraction cleaved without significantly affecting the observed rate of cleavage. The addition of Cd2+ rescued cleavage in both cases, suggesting that these are still putative metal binding sites in this native sequence. PMID:15659358

Thumb-loops up for catalysis: a structure/function investigation of a functional loop movement in a GH11 xylanase

PubMed Central

Paës, Gabriel; Cortés, Juan; Siméon, Thierry; O'Donohue, Michael J.; Tran, Vinh

2012-01-01

Dynamics is a key feature of enzyme catalysis. Unfortunately, current experimental and computational techniques do not yet provide a comprehensive understanding and description of functional macromolecular motions. In this work, we have extended a novel computational technique, which combines molecular modeling methods and robotics algorithms, to investigate functional motions of protein loops. This new approach has been applied to study the functional importance of the so-called thumb-loop in the glycoside hydrolase family 11 xylanase from Thermobacillus xylanilyticus (Tx-xyl). The results obtained provide new insight into the role of the loop in the glycosylation/deglycosylation catalytic cycle, and underline the key importance of the nature of the residue located at the tip of the thumb-loop. The effect of mutations predicted in silico has been validated by in vitro site-directed mutagenesis experiments. Overall, we propose a comprehensive model of Tx-xyl catalysis in terms of substrate and product dynamics by identifying the action of the thumb-loop motion during catalysis. PMID:24688637

Mini-filament Eruption as the Initiation of a Jet along Coronal Loops

NASA Astrophysics Data System (ADS)

Hong, Junchao; Jiang, Yunchun; Yang, Jiayan; Yang, Bo; Xu, Zhe; Xiang, Yongyuan

2016-10-01

Minifilament eruptions (MFEs) and coronal jets are different types of solar small-scale explosive events. We report an MFE observed at the New Vacuum Solar Telescope (NVST). As seen in the NVST Hα images, during the rising phase, the minifilament erupts outward orthogonally to its length, accompanied with a flare-like brightening at the bottom. Afterward, dark materials are found to possibly extend along the axis of the expanded filament body. The MFE is analogous to large filament eruptions. However, a simultaneous observation of the Solar Dynamics Observatory shows that a jet is initiated and flows out along nearby coronal loops during the rising phase of the MFE. Meanwhile, small hot loops, which connect the original eruptive site of the minifilament to the footpoints of the coronal loops, are formed successively. A differential emission measure analysis demonstrates that, on the top of the new small loops, a hot cusp structure exists. We conjecture that the magnetic fields of the MFE interact with magnetic fields of the coronal loops. This interaction is interpreted as magnetic reconnection that produces the jet and the small hot loops.

Implementation of a vector-based tracking loop receiver in a pseudolite navigation system.

PubMed

So, Hyoungmin; Lee, Taikjin; Jeon, Sanghoon; Kim, Chongwon; Kee, Changdon; Kim, Taehee; Lee, Sanguk

2010-01-01

We propose a vector tracking loop (VTL) algorithm for an asynchronous pseudolite navigation system. It was implemented in a software receiver and experiments in an indoor navigation system were conducted. Test results show that the VTL successfully tracks signals against the near-far problem, one of the major limitations in pseudolite navigation systems, and could improve positioning availability by extending pseudolite navigation coverage.

Maximum-likelihood-based extended-source spatial acquisition and tracking for planetary optical communications

NASA Astrophysics Data System (ADS)

Tsou, Haiping; Yan, Tsun-Yee

1999-04-01

This paper describes an extended-source spatial acquisition and tracking scheme for planetary optical communications. This scheme uses the Sun-lit Earth image as the beacon signal, which can be computed according to the current Sun-Earth-Probe angle from a pre-stored Earth image or a received snapshot taken by other Earth-orbiting satellite. Onboard the spacecraft, the reference image is correlated in the transform domain with the received image obtained from a detector array, which is assumed to have each of its pixels corrupted by an independent additive white Gaussian noise. The coordinate of the ground station is acquired and tracked, respectively, by an open-loop acquisition algorithm and a closed-loop tracking algorithm derived from the maximum likelihood criterion. As shown in the paper, the optimal spatial acquisition requires solving two nonlinear equations, or iteratively solving their linearized variants, to estimate the coordinate when translation in the relative positions of onboard and ground transceivers is considered. Similar assumption of linearization leads to the closed-loop spatial tracking algorithm in which the loop feedback signals can be derived from the weighted transform-domain correlation. Numerical results using a sample Sun-lit Earth image demonstrate that sub-pixel resolutions can be achieved by this scheme in a high disturbance environment.

AdS/CFT in Fractional Dimension and Higher-Spins at One Loop

NASA Astrophysics Data System (ADS)

Skvortsov, Evgeny; Tran, Tung

2017-08-01

Large-$N$, $\\epsilon$-expansion or the conformal bootstrap allow one to make sense of some of conformal field theories in non-integer dimension, which suggests that AdS/CFT may also extend to fractional dimensions. It was shown recently that the sphere free energy and the $a$-anomaly coefficient of the free scalar field can be reproduced as a one-loop effect in the dual higher-spin theory in a number of integer dimensions. We extend this result to all integer and also to fractional dimensions. Upon changing the boundary conditions in the higher-spin theory the sphere free energy of the large-$N$ Wilson-Fisher CFT can also be reproduced from the higher-spin side.

Can Flare Loops Contribute to the White-light Emission of Stellar Superflares?

NASA Astrophysics Data System (ADS)

Heinzel, P.; Shibata, K.

2018-06-01

Since the discovery of stellar superflares by the Kepler satellite, these extremely energetic events have been studied in analogy to solar flares. Their white-light (WL) continuum emission has been interpreted as being produced by heated ribbons. In this paper, we compute the WL emission from overlying flare loops depending on their density and temperature and show that, under conditions expected during superflares, the continuum brightening due to extended loop arcades can significantly contribute to stellar flux detected by Kepler. This requires electron densities in the loops of 1012‑1013 cm‑3 or higher. We show that such densities, exceeding those typically present in solar-flare loops, can be reached on M-dwarf and solar-type superflare stars with large starspots and much stronger magnetic fields. Quite importantly, the WL radiation of loops is not very sensitive to their temperature and thus both cool as well as hot loops may contribute. We show that the WL intensity emergent from optically thin loops is lower than the blackbody radiation from flare ribbons, but the contribution of loops to total stellar flux can be quite important due to their significant emitting areas. This new scenario for interpreting superflare emission suggests that the observed WL flux is due to a mixture of the ribbon and loop radiation and can be even loop-dominated during the gradual phase of superflares.

A New Method for Setting Calculation Sequence of Directional Relay Protection in Multi-Loop Networks

NASA Astrophysics Data System (ADS)

Haijun, Xiong; Qi, Zhang

2016-08-01

Workload of relay protection setting calculation in multi-loop networks may be reduced effectively by optimization setting calculation sequences. A new method of setting calculation sequences of directional distance relay protection in multi-loop networks based on minimum broken nodes cost vector (MBNCV) was proposed to solve the problem experienced in current methods. Existing methods based on minimum breakpoint set (MBPS) lead to more break edges when untying the loops in dependent relationships of relays leading to possibly more iterative calculation workloads in setting calculations. A model driven approach based on behavior trees (BT) was presented to improve adaptability of similar problems. After extending the BT model by adding real-time system characters, timed BT was derived and the dependency relationship in multi-loop networks was then modeled. The model was translated into communication sequence process (CSP) models and an optimization setting calculation sequence in multi-loop networks was finally calculated by tools. A 5-nodes multi-loop network was applied as an example to demonstrate effectiveness of the modeling and calculation method. Several examples were then calculated with results indicating the method effectively reduces the number of forced broken edges for protection setting calculation in multi-loop networks.

Observations of loops and prominences

NASA Technical Reports Server (NTRS)

Strong, Keith T.

1994-01-01

We review recent observations by the Yohkoh-SXT (Soft X-ray Telescope) in collaboration with other spacecraft and ground-based observatories of coronal loops and prominences. These new results point to problems that SoHO will be able to address. With a unique combination of rapid-cadence digital imaging (greater than or equal to 32 s full-disk and greater than or equal to 2 s partial-frame images), high spatial resolution (greater than or equal to 2.5 arcsec pixels), high sensitivity (EM less than or equal to 10(exp 42) cm(exp -3)), a low-scatter mirror, and large dynamic range, SXT can observe a vast range of targets on the Sun. Over the first 21 months of Yohkoh operations SXT has taken over one million images of the corona and so is building up an invaluable long-term database on the large-scale corona and loop geometry. The most striking thing about the SXT images is the range of loop sizes and shapes. The active regions are a bright tangle of magnetic field lines, surrounded by a network of large-scale quiet-Sun loops stretching over distances in excess of 105 km. The cross-section of most loops seems to be constant. Loops displaying significant Gamma's are the exception, not the rule, implying the presence of widespread currents in the corona. All magnetic structures show changes. Time scales range from seconds to months. The question of how these structures are formed, become filled with hot plasma, and are maintained is still open. While we see the propagation of brightenings along the length of active-region loops and in X-ray jets with velocities of several hundred km/s, much higher velocities are seen in the quiet Sun. In XBP flares, for example, velocities of over 1000 km/s are common. Active-region loops seem to be in constant motion, moving slowly outward, carrying plasma with them. During flares, loops often produce localized brightenings at the base and later at the apex of the loop. Quiescent filaments and prominences have been observed regularly. Their coronal manifestation seems to be an extended arcade of loops overlying the filament. Reliable alignment of the ground-based data with the X-ray images make it possible to make a detailed intercomparison of the hot and cold plasma structures over extended periods. Hence we are able to follow the long-term evolution of these structures and see how they become destabilized and erupt.

Device for removing foreign objects from anatomic organs

NASA Technical Reports Server (NTRS)

Angulo, Earl D. (Inventor)

1992-01-01

A device is disclosed for removing foreign objects from anatomic organs such as the ear canal or throat. It has a housing shaped like a flashlight, an electrical power source such as a battery or AC power from a wall socket, and a tip extending from the housing. The tip has at least one wire loop made from a shape-memory-effect alloy, such as Nitinol, switchably connected to the electrical power source such that when electric current flows through the wire loop the wire loop heats up and returns to a previously programmed shape such as a curet or tweezers so as to facilitate removal of the foreign object.

Strand displacement synthesis by yeast DNA polymerase ε.

PubMed

Ganai, Rais A; Zhang, Xiao-Ping; Heyer, Wolf-Dietrich; Johansson, Erik

2016-09-30

DNA polymerase ε (Pol ε) is a replicative DNA polymerase with an associated 3'-5' exonuclease activity. Here, we explored the capacity of Pol ε to perform strand displacement synthesis, a process that influences many DNA transactions in vivo We found that Pol ε is unable to carry out extended strand displacement synthesis unless its 3'-5' exonuclease activity is removed. However, the wild-type Pol ε holoenzyme efficiently displaced one nucleotide when encountering double-stranded DNA after filling a gap or nicked DNA. A flap, mimicking a D-loop or a hairpin structure, on the 5' end of the blocking primer inhibited Pol ε from synthesizing DNA up to the fork junction. This inhibition was observed for Pol ε but not with Pol δ, RB69 gp43 or Pol η. Neither was Pol ε able to extend a D-loop in reconstitution experiments. Finally, we show that the observed strand displacement synthesis by exonuclease-deficient Pol ε is distributive. Our results suggest that Pol ε is unable to extend the invading strand in D-loops during homologous recombination or to add more than two nucleotides during long-patch base excision repair. Our results support the hypothesis that Pol ε participates in short-patch base excision repair and ribonucleotide excision repair. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

On Faraday's law in the presence of extended conductors

NASA Astrophysics Data System (ADS)

Bilbao, Luis

2018-06-01

The use of Faraday's Law of induction for calculating the induced currents in an extended conducting body is discussed. In a general case with arbitrary geometry, the solution to the problem of a moving metal object in the presence of a magnetic field is difficult and implies solving Maxwell's equations in a time-dependent situation. In many cases, including cases with good conductors (but not superconductors) Ampère's Law can be neglected and a simpler solution based solely in Faraday's law can be obtained. The integral form of Faraday's Law along any loop in the conducting body is equivalent to a Kirkhhoff's voltage law of a circuit. Therefore, a numerical solution can be obtained by solving a linear system of equations corresponding to a discrete number of loops in the body.

Slanted snaking of localized Faraday waves

NASA Astrophysics Data System (ADS)

Pradenas, Bastián; Araya, Isidora; Clerc, Marcel G.; Falcón, Claudio; Gandhi, Punit; Knobloch, Edgar

2017-06-01

We report on an experimental, theoretical, and numerical study of slanted snaking of spatially localized parametrically excited waves on the surface of a water-surfactant mixture in a Hele-Shaw cell. We demonstrate experimentally the presence of a hysteretic transition to spatially extended parametrically excited surface waves when the acceleration amplitude is varied, as well as the presence of spatially localized waves exhibiting slanted snaking. The latter extend outside the hysteresis loop. We attribute this behavior to the presence of a conserved quantity, the liquid volume trapped within the meniscus, and introduce a universal model based on symmetry arguments, which couples the wave amplitude with such a conserved quantity. The model captures both the observed slanted snaking and the presence of localized waves outside the hysteresis loop, as demonstrated by numerical integration of the model equations.

On Heating the Sun's Corona by Magnetic Explosions: Feasibility in Active Regions and prospects for Quiet Regions and Coronal Holes

NASA Technical Reports Server (NTRS)

Moore, Ronald L.; Falconer, D. A.; Porter, Jason G.; Suess, Steven T.

1999-01-01

We build a case for the persistent strong coronal heating in active regions and the pervasive quasi-steady heating of the corona in quiet regions and coronal holes being driven in basically the same way as the intense transient heating in solar flares: by explosions of sheared magnetic fields in the cores of initially closed bipoles. We begin by summarizing the observational case for exploding sheared core fields being the drivers of a wide variety of flare events, with and without coronal mass ejections. We conclude that the arrangement of an event's flare heating, whether there is a coronal mass ejection, and the time and place of the ejection relative to the flare heating are all largely determined by four elements of the form and action of the magnetic field: (1) the arrangement of the impacted, interacting bipoles participating in the event, (2) which of these bipoles are active (have sheared core fields that explode) and which are passive (are heated by injection from impacted active bipoles), (3) which core field explodes first, and (4) which core-field explosions are confined within the closed field of their bipoles and which ejectively open their bipoles. We then apply this magnetic-configuration framework for flare heating to the strong coronal heating observed by the Yohkoh Soft X-ray Telescope in an active region with strongly sheared core fields observed by the MSFC vector magnetograph. All of the strong coronal heating is in continually microflaring sheared core fields or in extended loops rooted against the active core fields. Thus, the strong heating occurs in field configurations consistent with the heating being driven by frequent core-field explosions that are smaller but similar to those in confined flares and flaring arches. From analysis of the thermal and magnetic energetics of two selected core-field microflares and a bright extended loop, we find that (1) it is energetically feasible for the sheared core fields to drive all of the coronal heating in the active region via a staccato of magnetic microexplosions, (2) the microflares at the feet of the extended loop behave as the flares at the feet of flaring arches in that more coronal heating is driven within the active bipole than in the extended loop, (3) the filling factor of the X-ray plasma in the core field microflares and in the extended loop is approximately 0.1, and (4) to release enough magnetic energy for a typical microflare (10^27 - 10^28 erg), a microflaring strand of sheared core field need expand and/or untwist by only a few percent at most. Finally, we point out that (1) the field configurations for strong coronal heating in our example active region (i.e., neutral-line core fields, many embedded in the feet of extended loops) are present in abundance in the magnetic network in quiet regions and coronal holes, and (2) it is known that many network bipoles do microflare and that many produce detectable coronal heating. We therefore propose that exploding sheared core fields are the drivers of most of the heating and dynamics of the solar atmosphere, ranging from the largest and most powerful coronal mass ejections and flares, to the vigorous microflaring and coronal heating in active regions, to the multitude of fine-scale explosive events in the magnetic network. The low-lysing exploding core fields in the network drive microflares, spicules, global coronal heating, and ,consequently, the solar wind.

Functional structure and dynamics of the human nervous system

NASA Technical Reports Server (NTRS)

Lawrence, J. A.

1981-01-01

The status of an effort to define the directions needed to take in extending pilot models is reported. These models are needed to perform closed-loop (man-in-the-loop) feedback flight control system designs and to develop cockpit display requirements. The approach taken is to develop a hypothetical working model of the human nervous system by reviewing the current literature in neurology and psychology and to develop a computer model of this hypothetical working model.

Post-flare loops embedded in a hot coronal fan-like structure

NASA Technical Reports Server (NTRS)

Svestka, Z.; Farnik, F.; Hudson, H. S.; Hick, P.

1997-01-01

Limb events were demonstrated on the sun in which rising post-flare loops were embedded in hot structures looking in soft X-rays like fans of rays, formed during the flare and extending high into the corona. One of these structures is analyzed and it is suggested that these fans of rays represent temporary ministreamers, along which mass flows into interplanetary space. This suggestion is supported by maps of solar wind density constructed from scintillation measurements.

Deletion of L4 domains reveals insights into the importance of ribosomal protein extensions in eukaryotic ribosome assembly.

PubMed

Gamalinda, Michael; Woolford, John L

2014-11-01

Numerous ribosomal proteins have a striking bipartite architecture: a globular body positioned on the ribosomal exterior and an internal loop buried deep into the rRNA core. In eukaryotes, a significant number of conserved r-proteins have evolved extra amino- or carboxy-terminal tail sequences, which thread across the solvent-exposed surface. The biological importance of these extended domains remains to be established. In this study, we have investigated the universally conserved internal loop and the eukaryote-specific extensions of yeast L4. We show that in contrast to findings with bacterial L4, deleting the internal loop of yeast L4 causes severely impaired growth and reduced levels of large ribosomal subunits. We further report that while depleting the entire L4 protein blocks early assembly steps in yeast, deletion of only its extended internal loop affects later steps in assembly, revealing a second role for L4 during ribosome biogenesis. Surprisingly, deletion of the entire eukaryote-specific carboxy-terminal tail of L4 has no effect on viability, production of 60S subunits, or translation. These unexpected observations provide impetus to further investigate the functions of ribosomal protein extensions, especially eukaryote-specific examples, in ribosome assembly and function. © 2014 Gamalinda and Woolford; Published by Cold Spring Harbor Laboratory Press for the RNA Society.

Circulating heat exchangers for oscillating wave engines and refrigerators

DOEpatents

Swift, Gregory W.; Backhaus, Scott N.

2003-10-28

An oscillating-wave engine or refrigerator having a regenerator or a stack in which oscillating flow of a working gas occurs in a direction defined by an axis of a trunk of the engine or refrigerator, incorporates an improved heat exchanger. First and second connections branch from the trunk at locations along the axis in selected proximity to one end of the regenerator or stack, where the trunk extends in two directions from the locations of the connections. A circulating heat exchanger loop is connected to the first and second connections. At least one fluidic diode within the circulating heat exchanger loop produces a superimposed steady flow component and oscillating flow component of the working gas within the circulating heat exchanger loop. A local process fluid is in thermal contact with an outside portion of the circulating heat exchanger loop.

PNA binding to the non-template DNA strand interferes with transcription, suggesting a blockage mechanism mediated by R-loop formation.

PubMed

Belotserkovskii, Boris P; Hanawalt, Philip C

2015-11-01

Peptide Nucleic Acids (PNAs) are artificial DNA mimics with superior nucleic acid binding capabilities. T7 RNA polymerase (T7 RNAP) transcription upon encountering PNA bound to the non-template DNA strand was studied in vitro. A characteristic pattern of blockage signals was observed, extending downstream from the PNA binding site, similar to that produced by G-rich homopurine-homopyrimidine (hPu-hPy) sequences and likely caused by R-loop formation. Since blocked transcription complexes in association with stable R-loops may interfere with replication and in some cases trigger apoptosis, targeted R-loop formation might be employed to inactivate selected cells, such as those in tumors, based upon their unique complement of expressed genes. © 2014 The Authors. Molecular Carcinogenesis published by Wiley Periodicals, Inc.

Cosmic strings and the microwave sky. I - Anisotropy from moving strings

NASA Technical Reports Server (NTRS)

Stebbins, Albert

1988-01-01

A method is developed for calculating the component of the microwave anisotropy around cosmic string loops due to their rapidly changing gravitational fields. The method is only valid for impact parameters from the string much smaller than the horizon size at the time the photon passes the string. The method makes it possible to calculate the temperature pattern around arbitrary string configurations numerically in terms of one-dimensional integrals. This method is applied to temperature jump across a string, confirming and extending previous work. It is also applied to cusps and kinks on strings, and to determining the temperature pattern far from a strong loop. The temperature pattern around a few loop configurations is explicitly calculated. Comparisons with the work of Brandenberger et al. (1986) indicates that they have overestimated the MBR anisotropy from gravitational radiation emitted from loops.

Visualization Tools for Lattice QCD - Final Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Massimo Di Pierro

2012-03-15

Our research project is about the development of visualization tools for Lattice QCD. We developed various tools by extending existing libraries, adding new algorithms, exposing new APIs, and creating web interfaces (including the new NERSC gauge connection web site). Our tools cover the full stack of operations from automating download of data, to generating VTK files (topological charge, plaquette, Polyakov lines, quark and meson propagators, currents), to turning the VTK files into images, movies, and web pages. Some of the tools have their own web interfaces. Some Lattice QCD visualization have been created in the past but, to our knowledge,more » our tools are the only ones of their kind since they are general purpose, customizable, and relatively easy to use. We believe they will be valuable to physicists working in the field. They can be used to better teach Lattice QCD concepts to new graduate students; they can be used to observe the changes in topological charge density and detect possible sources of bias in computations; they can be used to observe the convergence of the algorithms at a local level and determine possible problems; they can be used to probe heavy-light mesons with currents and determine their spatial distribution; they can be used to detect corrupted gauge configurations. There are some indirect results of this grant that will benefit a broader audience than Lattice QCD physicists.« less

Exploring the Dynamics of Propeller Loops in Human Telomeric DNA Quadruplexes Using Atomistic Simulations.

PubMed

Islam, Barira; Stadlbauer, Petr; Gil-Ley, Alejandro; Pérez-Hernández, Guillermo; Haider, Shozeb; Neidle, Stephen; Bussi, Giovanni; Banas, Pavel; Otyepka, Michal; Sponer, Jiri

2017-06-13

We have carried out a series of extended unbiased molecular dynamics (MD) simulations (up to 10 μs long, ∼162 μs in total) complemented by replica-exchange with the collective variable tempering (RECT) approach for several human telomeric DNA G-quadruplex (GQ) topologies with TTA propeller loops. We used different AMBER DNA force-field variants and also processed simulations by Markov State Model (MSM) analysis. The slow conformational transitions in the propeller loops took place on a scale of a few μs, emphasizing the need for long simulations in studies of GQ dynamics. The propeller loops sampled similar ensembles for all GQ topologies and for all force-field dihedral-potential variants. The outcomes of standard and RECT simulations were consistent and captured similar spectrum of loop conformations. However, the most common crystallographic loop conformation was very unstable with all force-field versions. Although the loss of canonical γ-trans state of the first propeller loop nucleotide could be related to the indispensable bsc0 α/γ dihedral potential, even supporting this particular dihedral by a bias was insufficient to populate the experimentally dominant loop conformation. In conclusion, while our simulations were capable of providing a reasonable albeit not converged sampling of the TTA propeller loop conformational space, the force-field description still remained far from satisfactory.

Exploring the Dynamics of Propeller Loops in Human Telomeric DNA Quadruplexes Using Atomistic Simulations

PubMed Central

2017-01-01

We have carried out a series of extended unbiased molecular dynamics (MD) simulations (up to 10 μs long, ∼162 μs in total) complemented by replica-exchange with the collective variable tempering (RECT) approach for several human telomeric DNA G-quadruplex (GQ) topologies with TTA propeller loops. We used different AMBER DNA force-field variants and also processed simulations by Markov State Model (MSM) analysis. The slow conformational transitions in the propeller loops took place on a scale of a few μs, emphasizing the need for long simulations in studies of GQ dynamics. The propeller loops sampled similar ensembles for all GQ topologies and for all force-field dihedral-potential variants. The outcomes of standard and RECT simulations were consistent and captured similar spectrum of loop conformations. However, the most common crystallographic loop conformation was very unstable with all force-field versions. Although the loss of canonical γ-trans state of the first propeller loop nucleotide could be related to the indispensable bsc0 α/γ dihedral potential, even supporting this particular dihedral by a bias was insufficient to populate the experimentally dominant loop conformation. In conclusion, while our simulations were capable of providing a reasonable albeit not converged sampling of the TTA propeller loop conformational space, the force-field description still remained far from satisfactory. PMID:28475322

Commanding Constellations (Pipeline Architecture)

NASA Technical Reports Server (NTRS)

Ray, Tim; Condron, Jeff

2003-01-01

Providing ground command software for constellations of spacecraft is a challenging problem. Reliable command delivery requires a feedback loop; for a constellation there will likely be an independent feedback loop for each constellation member. Each command must be sent via the proper Ground Station, which may change from one contact to the next (and may be different for different members). Dynamic configuration of the ground command software is usually required (e.g. directives to configure each member's feedback loop and assign the appropriate Ground Station). For testing purposes, there must be a way to insert command data at any level in the protocol stack. The Pipeline architecture described in this paper can support all these capabilities with a sequence of software modules (the pipeline), and a single self-identifying message format (for all types of command data and configuration directives). The Pipeline architecture is quite simple, yet it can solve some complex problems. The resulting solutions are conceptually simple, and therefore, reliable. They are also modular, and therefore, easy to distribute and extend. We first used the Pipeline architecture to design a CCSDS (Consultative Committee for Space Data Systems) Ground Telecommand system (to command one spacecraft at a time with a fixed Ground Station interface). This pipeline was later extended to include gateways to any of several Ground Stations. The resulting pipeline was then extended to handle a small constellation of spacecraft. The use of the Pipeline architecture allowed us to easily handle the increasing complexity. This paper will describe the Pipeline architecture, show how it was used to solve each of the above commanding situations, and how it can easily be extended to handle larger constellations.

Short communication: evidence of HIV type 1 clade C env clones containing low V3 loop charge obtained from an AIDS patient in India that uses CXCR6 and CCR8 for entry in addition to CCR5.

PubMed

Gharu, Lavina; Ringe, Rajesh; Satyakumar, Anupindi; Patil, Ajit; Bhattacharya, Jayanta

2011-02-01

Abstract HIV-1 clade C is the major subtype circulating in India and preferentially uses CCR5 during the entire disease course. We have recently shown that env clones from an Indian patient; NARI-VB105 uses multiple coreceptors for entry and was presented with an unusual V3 loop sequence giving rise to high net V3 loop positive charges. Here we show that env clones belonging to subtype C obtained from an AIDS patient, NARI-VB52, use CXCR6 and CCR8 in addition to CCR5 for entry. However, unlike the NARI-105 patient, the env clones contained a low V3 loop net charge of +3 with a conserved GPGQ motif typical of CCR5 using subtype C strains, indicating that residues outside the V3 loop contributed to extended coreceptor use in this particular patient.

Limit cycles in piecewise-affine gene network models with multiple interaction loops

NASA Astrophysics Data System (ADS)

Farcot, Etienne; Gouzé, Jean-Luc

2010-01-01

In this article, we consider piecewise affine differential equations modelling gene networks. We work with arbitrary decay rates, and under a local hypothesis expressed as an alignment condition of successive focal points. The interaction graph of the system may be rather complex (multiple intricate loops of any sign, multiple thresholds, etc.). Our main result is an alternative theorem showing that if a sequence of region is periodically visited by trajectories, then under our hypotheses, there exists either a unique stable periodic solution, or the origin attracts all trajectories in this sequence of regions. This result extends greatly our previous work on a single negative feedback loop. We give several examples and simulations illustrating different cases.

Surface NMR imaging with simultaneously energized transmission loops

NASA Astrophysics Data System (ADS)

Irons, T. P.; Kass, A.; Parsekian, A.

2016-12-01

Surface nuclear magnetic resonance (sNMR) is a unique geophysical technique which allows for the direct detection of liquid-phase water. In saturated media the sNMR response also provides estimates of hydrologic properties including porosity and permeability. The most common survey deployment consists of a single coincident loop performing both transmission and receiving. Because the sNMR method is relatively slow, tomography using coincident loops is time-intensive. Surveys using multiple receiver loops (but a single transmitter) provide additional sensitivity; however, they still require iterating transmission over the loops, and do not decrease survey acquisition time. In medical rotating frame imaging, arrays of transmitters are employed in order to decrease acquisition time, whilst optimizing image resolving power-a concept which we extend to earth's field imaging. Using simultaneously energized transmission loops decreases survey time linearly with the number of channels. To demonstrate the efficacy and benefits of multiple transmission loops, we deployed simultaneous sNMR transmission arrays using minimally coupled loops and a specially modified instrument at the Red Buttes Hydrogeophysics Experiment Site-a well-characterized location near Laramie, Wyoming. The proposed survey proved capable of acquiring multiple-channel imaging data with comparable noise levels to figure-eight configurations. Finally, the channels can be combined after acquisition or inverted simultaneously to provide composite datasets and images. This capability leverages the improved near surface resolving power of small loops but retains sensitivity to deep media through the use of synthetic aperature receivers. As such, simultaneously acquired loop arrays provide a great deal of flexibility.

Unresolved fine-scale structure in solar coronal loop-tops

DOE Office of Scientific and Technical Information (OSTI.GOV)

Scullion, E.; Van der Voort, L. Rouppe; Wedemeyer, S.

2014-12-10

New and advanced space-based observing facilities continue to lower the resolution limit and detect solar coronal loops in greater detail. We continue to discover even finer substructures within coronal loop cross-sections, in order to understand the nature of the solar corona. Here, we push this lower limit further to search for the finest coronal loop substructures, through taking advantage of the resolving power of the Swedish 1 m Solar Telescope/CRisp Imaging Spectro-Polarimeter (CRISP), together with co-observations from the Solar Dynamics Observatory/Atmospheric Image Assembly (AIA). High-resolution imaging of the chromospheric Hα 656.28 nm spectral line core and wings can, under certainmore » circumstances, allow one to deduce the topology of the local magnetic environment of the solar atmosphere where its observed. Here, we study post-flare coronal loops, which become filled with evaporated chromosphere that rapidly condenses into chromospheric clumps of plasma (detectable in Hα) known as a coronal rain, to investigate their fine-scale structure. We identify, through analysis of three data sets, large-scale catastrophic cooling in coronal loop-tops and the existence of multi-thermal, multi-stranded substructures. Many cool strands even extend fully intact from loop-top to footpoint. We discover that coronal loop fine-scale strands can appear bunched with as many as eight parallel strands within an AIA coronal loop cross-section. The strand number density versus cross-sectional width distribution, as detected by CRISP within AIA-defined coronal loops, most likely peaks at well below 100 km, and currently, 69% of the substructure strands are statistically unresolved in AIA coronal loops.« less

System having unmodulated flux locked loop for measuring magnetic fields

DOEpatents

Ganther, Jr., Kenneth R.; Snapp, Lowell D [Blue Springs, MO

2006-08-15

A system (10) for measuring magnetic fields, wherein the system (10) comprises an unmodulated or direct-feedback flux locked loop (12) connected by first and second unbalanced RF coaxial transmission lines (16a, 16b) to a superconducting quantum interference device (14). The FLL (12) operates for the most part in a room-temperature or non-cryogenic environment, while the SQUID (14) operates in a cryogenic environment, with the first and second lines (16a, 16b) extending between these two operating environments.

Connected, disconnected and strange quark contributions to HVP

NASA Astrophysics Data System (ADS)

Bijnens, Johan; Relefors, Johan

2016-11-01

We calculate all neutral vector two-point functions in Chiral Perturbation Theory (ChPT) to two-loop order and use these to estimate the ratio of disconnected to connected contributions as well as contributions involving the strange quark. We extend the ratio of -1/10 derived earlier in two flavour ChPT at one-loop order to a large part of the higher order contributions and discuss corrections to it. Our final estimate of the ratio disconnected to connected is negative and a few % in magnitude.

Frequency-Domain Channel Estimation and Equalization for Single Carrier Underwater Acoustic Communications

DTIC Science & Technology

2007-01-01

synchronization ; vm(k) white Gaussian noise with average power σ2. If the Doppler shift f m,k is significant, then it causes the received signal ym(k) to be time ...intersymbol interference (ISI) to extend over 20-300 symbols at a data rate of 2-10 kilosymbols per second. Another obstacle is the time -varying Doppler... synchronization that employs a phase-locked loop (PLL) or delay-locked loop (DLL). However, the DFE and PLL/DLL have to interact in a nonlinear fashion

Black hole state counting in loop quantum gravity: a number-theoretical approach.

PubMed

Agulló, Iván; Barbero G, J Fernando; Díaz-Polo, Jacobo; Fernández-Borja, Enrique; Villaseñor, Eduardo J S

2008-05-30

We give an efficient method, combining number-theoretic and combinatorial ideas, to exactly compute black hole entropy in the framework of loop quantum gravity. Along the way we provide a complete characterization of the relevant sector of the spectrum of the area operator, including degeneracies, and explicitly determine the number of solutions to the projection constraint. We use a computer implementation of the proposed algorithm to confirm and extend previous results on the detailed structure of the black hole degeneracy spectrum.

Structure of the kinase domain of Gilgamesh from Drosophila melanogaster

PubMed Central

Han, Ni; Chen, CuiCui; Shi, Zhubing; Cheng, Dianlin

2014-01-01

The CK1 family kinases regulate multiple cellular aspects and play important roles in Wnt/Wingless and Hedgehog signalling. The kinase domain of Drosophila Gilgamesh isoform I (Gilgamesh-I), a homologue of human CK1-γ, was purified and crystallized. Crystals of methylated Gilgamesh-I kinase domain with a D210A mutation diffracted to 2.85 Å resolution and belonged to space group P43212, with unit-cell parameters a = b = 52.025, c = 291.727 Å. The structure of Gilgamesh-I kinase domain, which was determined by molecular replacement, has conserved catalytic elements and an active conformation. Structural comparison indicates that an extended loop between the α1 helix and the β4 strand exists in the Gilgamesh-I kinase domain. This extended loop may regulate the activity and function of Gilgamesh-I. PMID:24699734

Structure-function analysis of the auxilin J-domain reveals an extended Hsc70 interaction interface.

PubMed

Jiang, Jianwen; Taylor, Alexander B; Prasad, Kondury; Ishikawa-Brush, Yumiko; Hart, P John; Lafer, Eileen M; Sousa, Rui

2003-05-20

J-domains are widespread protein interaction modules involved in recruiting and stimulating the activity of Hsp70 family chaperones. We have determined the crystal structure of the J-domain of auxilin, a protein which is involved in uncoating clathrin-coated vesicles. Comparison to the known structures of J-domains from four other proteins reveals that the auxilin J-domain is the most divergent of all J-domain structures described to date. In addition to the canonical J-domain features described previously, the auxilin J-domain contains an extra N-terminal helix and a long loop inserted between helices I and II. The latter loop extends the positively charged surface which forms the Hsc70 binding site, and is shown by directed mutagenesis and surface plasmon resonance to contain side chains important for binding to Hsc70.

Miniature Fourier transform spectrometer with a dual closed-loop controlled electrothermal micromirror.

PubMed

Han, Fengtian; Wang, Wei; Zhang, Xiaoyang; Xie, Huikai

2016-10-03

A large piston-displacement electrothermal micromirror with closed-loop control of both piston scan and tilting of the mirror plate is demonstrated for use in a miniature Fourier transform spectrometer. Constant scan velocity in an ultra large piston scan range has been demonstrated by the proposed closed-loop piston control scheme which can be easily implemented without considerably increasing system complexity. The experimental results show that the usable linear scan range generated by the micromirror has been extended up to 505 μm. The measured spectral resolution in a compact spectrometer reaches 20 cm^-1, or 0.57 nm at 532 nm wavelength. Compared to other presented systems, this microspectrometer will benefit from the closed-loop thermal actuator approach utilizing both the piston servo and tilt control to provide more consistent spectral response, improved spectral resolution and enhanced robustness to disturbances.

Canonical structure of general relativity with a limiting curvature and its relation to loop quantum gravity

NASA Astrophysics Data System (ADS)

Bodendorfer, N.; Schäfer, A.; Schliemann, J.

2018-04-01

Chamseddine and Mukhanov recently proposed a modified version of general relativity that implements the idea of a limiting curvature. In the spatially flat, homogeneous, and isotropic sector, their theory turns out to agree with the effective dynamics of the simplest version of loop quantum gravity if one identifies their limiting curvature with a multiple of the Planck curvature. At the same time, it extends to full general relativity without any symmetry assumptions and thus provides an ideal toy model for full loop quantum gravity in the form of a generally covariant effective action known to all orders. In this paper, we study the canonical structure of this theory and point out some interesting lessons for loop quantum gravity. We also highlight in detail how the two theories are connected in the spatially flat, homogeneous, and isotropic sector.

LARGE-SCALE CONTRACTION AND SUBSEQUENT DISRUPTION OF CORONAL LOOPS DURING VARIOUS PHASES OF THE M6.2 FLARE ASSOCIATED WITH THE CONFINED FLUX ROPE ERUPTION

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kushwaha, Upendra; Joshi, Bhuwan; Moon, Yong-Jae

We investigate evolutionary phases of an M6.2 flare and the associated confined eruption of a prominence. The pre-flare phase exhibits spectacular large-scale contraction of overlying extreme ultraviolet (EUV) coronal loops during which the loop system was subjected to an altitude decrease of ∼20 Mm (40% of the initial height) for an extended span of ∼30 minutes. This contraction phase is accompanied by sequential EUV brightenings associated with hard X-ray (HXR; up to 25 keV) and microwave (MW) sources from low-lying loops in the core region which together with X-ray spectra indicate strong localized heating in the source region before themore » filament activation. With the onset of the flare’s impulsive phase, we detect HXR and MW sources that exhibit intricate temporal and spatial evolution in relation to the fast rise of the prominence. Following the flare maximum, the filament eruption slowed down and subsequently became confined within the large overlying active region loops. During the confinement process of the erupting prominence, we detect MW emission from the extended coronal region with multiple emission centroids, which likely represent emission from hot blobs of plasma formed after the collapse of the expanding flux rope and entailing prominence material. RHESSI spectroscopy reveals high plasma temperature (∼30 MK) and substantial non-thermal characteristics (δ ∼ 5) during the impulsive phase of the flare. The time evolution of thermal energy exhibits a good correspondence with the variations in cumulative non-thermal energy, which suggests that the energy of accelerated particles is efficiently converted to hot flare plasma, implying an effective validation of the Neupert effect.« less

Structure of GlnK1 with bound effectors indicates regulatory mechanism for ammonia uptake.

PubMed

Yildiz, Ozkan; Kalthoff, Christoph; Raunser, Stefan; Kühlbrandt, Werner

2007-01-24

A binary complex of the ammonia channel Amt1 from Methanococcus jannaschii and its cognate P(II) signalling protein GlnK1 has been produced and characterized. Complex formation is prevented specifically by the effector molecules Mg-ATP and 2-ketoglutarate. Single-particle electron microscopy of the complex shows that GlnK1 binds on the cytoplasmic side of Amt1. Three high-resolution X-ray structures of GlnK1 indicate that the functionally important T-loop has an extended, flexible conformation in the absence of Mg-ATP, but assumes a compact, tightly folded conformation upon Mg-ATP binding, which in turn creates a 2-ketoglutarate-binding site. We propose a regulatory mechanism by which nitrogen uptake is controlled by the binding of both effector molecules to GlnK1. At normal effector levels, a 2-ketoglutarate molecule binding at the apex of the compact T-loop would prevent complex formation, ensuring uninhibited ammonia uptake. At low levels of Mg-ATP, the extended loops would seal the ammonia channels in the complex. Binding of both effector molecules to P(II) signalling proteins may thus represent an effective feedback mechanism for regulating ammonium uptake through the membrane.

Sliding mode based trajectory linearization control for hypersonic reentry vehicle via extended disturbance observer.

PubMed

Xingling, Shao; Honglun, Wang

2014-11-01

This paper proposes a novel hybrid control framework by combing observer-based sliding mode control (SMC) with trajectory linearization control (TLC) for hypersonic reentry vehicle (HRV) attitude tracking problem. First, fewer control consumption is achieved using nonlinear tracking differentiator (TD) in the attitude loop. Second, a novel SMC that employs extended disturbance observer (EDO) to counteract the effect of uncertainties using a new sliding surface which includes the estimation error is integrated to address the tracking error stabilization issues in the attitude and angular rate loop, respectively. In addition, new results associated with EDO are examined in terms of dynamic response and noise-tolerant performance, as well as estimation accuracy. The key feature of the proposed compound control approach is that chattering free tracking performance with high accuracy can be ensured for HRV in the presence of multiple uncertainties under control constraints. Based on finite time convergence stability theory, the stability of the resulting closed-loop system is well established. Also, comparisons and extensive simulation results are presented to demonstrate the effectiveness of the control strategy. Copyright © 2014 ISA. Published by Elsevier Ltd. All rights reserved.

AdS/CFT duality at strong coupling

NASA Astrophysics Data System (ADS)

Beccaria, M.; Ortix, C.

2007-08-01

We study the strong-coupling limit of the AdS/CFT correspondence in the framework of a recently proposed fermionic formulation of the Bethe ansatz equations governing the gauge theory anomalous dimensions. We give examples of states that do not follow the Gubser-Klebanov-Polyakov law at a large ’t Hooft coupling λ, in contrast to recent results on the quantum string Bethe equations that are valid in that regime. This result indicates that the fermionic construction cannot be trusted at large λ, although it remains an efficient tool for computing the weak-coupling expansion of anomalous dimensions.

MINI-FILAMENT ERUPTION AS THE INITIATION OF A JET ALONG CORONAL LOOPS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hong, Junchao; Jiang, Yunchun; Yang, Jiayan

Minifilament eruptions (MFEs) and coronal jets are different types of solar small-scale explosive events. We report an MFE observed at the New Vacuum Solar Telescope (NVST). As seen in the NVST H α images, during the rising phase, the minifilament erupts outward orthogonally to its length, accompanied with a flare-like brightening at the bottom. Afterward, dark materials are found to possibly extend along the axis of the expanded filament body. The MFE is analogous to large filament eruptions. However, a simultaneous observation of the Solar Dynamics Observatory shows that a jet is initiated and flows out along nearby coronal loopsmore » during the rising phase of the MFE. Meanwhile, small hot loops, which connect the original eruptive site of the minifilament to the footpoints of the coronal loops, are formed successively. A differential emission measure analysis demonstrates that, on the top of the new small loops, a hot cusp structure exists. We conjecture that the magnetic fields of the MFE interact with magnetic fields of the coronal loops. This interaction is interpreted as magnetic reconnection that produces the jet and the small hot loops.« less

Immirzi parameter without Immirzi ambiguity: Conformal loop quantization of scalar-tensor gravity

NASA Astrophysics Data System (ADS)

Veraguth, Olivier J.; Wang, Charles H.-T.

2017-10-01

Conformal loop quantum gravity provides an approach to loop quantization through an underlying conformal structure i.e. conformally equivalent class of metrics. The property that general relativity itself has no conformal invariance is reinstated with a constrained scalar field setting the physical scale. Conformally equivalent metrics have recently been shown to be amenable to loop quantization including matter coupling. It has been suggested that conformal geometry may provide an extended symmetry to allow a reformulated Immirzi parameter necessary for loop quantization to behave like an arbitrary group parameter that requires no further fixing as its present standard form does. Here, we find that this can be naturally realized via conformal frame transformations in scalar-tensor gravity. Such a theory generally incorporates a dynamical scalar gravitational field and reduces to general relativity when the scalar field becomes a pure gauge. In particular, we introduce a conformal Einstein frame in which loop quantization is implemented. We then discuss how different Immirzi parameters under this description may be related by conformal frame transformations and yet share the same quantization having, for example, the same area gaps, modulated by the scalar gravitational field.

Pulsatile desynchronizing delayed feedback for closed-loop deep brain stimulation

PubMed Central

Lysyansky, Borys; Rosenblum, Michael; Pikovsky, Arkady; Tass, Peter A.

2017-01-01

High-frequency (HF) deep brain stimulation (DBS) is the gold standard for the treatment of medically refractory movement disorders like Parkinson’s disease, essential tremor, and dystonia, with a significant potential for application to other neurological diseases. The standard setup of HF DBS utilizes an open-loop stimulation protocol, where a permanent HF electrical pulse train is administered to the brain target areas irrespectively of the ongoing neuronal dynamics. Recent experimental and clinical studies demonstrate that a closed-loop, adaptive DBS might be superior to the open-loop setup. We here combine the notion of the adaptive high-frequency stimulation approach, that aims at delivering stimulation adapted to the extent of appropriately detected biomarkers, with specifically desynchronizing stimulation protocols. To this end, we extend the delayed feedback stimulation methods, which are intrinsically closed-loop techniques and specifically designed to desynchronize abnormal neuronal synchronization, to pulsatile electrical brain stimulation. We show that permanent pulsatile high-frequency stimulation subjected to an amplitude modulation by linear or nonlinear delayed feedback methods can effectively and robustly desynchronize a STN-GPe network of model neurons and suggest this approach for desynchronizing closed-loop DBS. PMID:28273176

DOE Office of Scientific and Technical Information (OSTI.GOV)

Miyashita, Takenori, E-mail: takenori@med.kagawa-u.ac.jp; Burford, James L.; Hong, Young-Kwon

Highlights: •We newly developed the whole-mount imaging method of the tympanic membrane. •Lymphatic vessel loops were localized around the malleus handle and annulus tympanicus. •In regeneration, abundant lymphatic vessels were observed in the pars tensa. •Site-specific lymphatic vessels may play an important role in the tympanic membrane. -- Abstract: We clarified the localization of lymphatic vessels in the tympanic membrane and proliferation of lymphatic vessels during regeneration after perforation of the tympanic membrane by using whole-mount imaging of the tympanic membrane of Prox1 GFP mice. In the pars tensa, lymphatic vessel loops surrounded the malleus handle and annulus tympanicus. Apartmore » from these locations, lymphatic vessel loops were not observed in the pars tensa in the normal tympanic membrane. Lymphatic vessel loops surrounding the malleus handle were connected to the lymphatic vessel loops in the pars flaccida and around the tensor tympani muscle. Many lymphatic vessel loops were detected in the pars flaccida. After perforation of the tympanic membrane, abundant lymphatic regeneration was observed in the pars tensa, and these regenerated lymphatic vessels extended from the lymphatic vessels surrounding the malleus at day 7. These results suggest that site-specific lymphatic vessels play an important role in the tympanic membrane.« less

Conformation of receptor-bound visual arrestin.

PubMed

Kim, Miyeon; Vishnivetskiy, Sergey A; Van Eps, Ned; Alexander, Nathan S; Cleghorn, Whitney M; Zhan, Xuanzhi; Hanson, Susan M; Morizumi, Takefumi; Ernst, Oliver P; Meiler, Jens; Gurevich, Vsevolod V; Hubbell, Wayne L

2012-11-06

Arrestin-1 (visual arrestin) binds to light-activated phosphorylated rhodopsin (P-Rh*) to terminate G-protein signaling. To map conformational changes upon binding to the receptor, pairs of spin labels were introduced in arrestin-1 and double electron-electron resonance was used to monitor interspin distance changes upon P-Rh* binding. The results indicate that the relative position of the N and C domains remains largely unchanged, contrary to expectations of a "clam-shell" model. A loop implicated in P-Rh* binding that connects β-strands V and VI (the "finger loop," residues 67-79) moves toward the expected location of P-Rh* in the complex, but does not assume a fully extended conformation. A striking and unexpected movement of a loop containing residue 139 away from the adjacent finger loop is observed, which appears to facilitate P-Rh* binding. This change is accompanied by smaller movements of distal loops containing residues 157 and 344 at the tips of the N and C domains, which correspond to "plastic" regions of arrestin-1 that have distinct conformations in monomers of the crystal tetramer. Remarkably, the loops containing residues 139, 157, and 344 appear to have high flexibility in both free arrestin-1 and the P-Rh*complex.

Apparatus and methods for a human extender

DOEpatents

Jansen, John F.

2001-01-01

A human extender controller for interface between a human operator and a physical object through a physical plant. The human extender controller uses an inner-feedback loop to increase the equivalent damping of the operating system to stabilize the system when it contacts with the environment and reduces the impact of the environment variation by utilizing a high feedback gain, determined by a root locus sketch. Because the stability of the human extender controller of the present invention is greatly enhanced over that of the prior art, the present invention is able to achieve a force reflection ratio 500 to 1 and capable of handling loads above the two (2) ton range.

Imaging spectroscopy of type U and J solar radio bursts with LOFAR

NASA Astrophysics Data System (ADS)

Reid, Hamish A. S.; Kontar, Eduard P.

2017-10-01

Context. Radio U-bursts and J-bursts are signatures of electron beams propagating along magnetic loops confined to the corona. The more commonly observed type III radio bursts are signatures of electron beams propagating along magnetic loops that extend into interplanetary space. Given the prevalence of solar magnetic flux to be closed in the corona, why type III bursts are more frequently observed than U-bursts or J-bursts is an outstanding question. Aims: We use Low-Frequency Array (LOFAR) imaging spectroscopy between 30-80 MHz of low-frequency U-bursts and J-bursts, for the first time, to understand why electron beams travelling along coronal loops produce radio emission less often. Radio burst observations provide information not only about the exciting electron beams but also about the structure of large coronal loops with densities that are too low for standard extreme ultraviolet (EUV) or X-ray analysis. Methods: We analysed LOFAR images of a sequence of two J-bursts and one U-burst. The different radio source positions were used to model the spatial structure of the guiding magnetic flux tube and then deduce the energy range of the exciting electron beams without the assumption of a standard density model. We also estimated the electron density along the magnetic flux rope and compared it to coronal models. Results: The radio sources infer a magnetic loop that is 1 solar radius in altitude with the highest frequency sources starting around 0.6 solar radii. Electron velocities were found between 0.13 c and 0.24 c with the front of the electron beam travelling faster than the back of the electron beam. The velocities correspond to energy ranges within the beam from 0.7-11 keV to 0.7-43 keV. The density along the loop is higher than typical coronal density models and the density gradient is smaller. Conclusions: We found that a more restrictive range of accelerated beam and background plasma parameters can result in U-bursts or J-bursts, causing type III bursts to be more frequently observed. The large instability distances required before Langmuir waves are produced by some electron beams, and the small magnitude of the background density gradients makes closed loops less facilitative for radio emission than loops that extend into interplanetary space.

Thermal Control System for a Small, Extended Duration Lunar Surface Science Platform

NASA Technical Reports Server (NTRS)

Bugby, D.; Farmer, J.; OConnor, B.; Wirzburger, M.; Abel, E.; Stouffer, C.

2010-01-01

The presentation slides include: Introduction: lunar mission definition, Problem: requirements/methodology, Concept: thermal switching options, Analysis: system evaluation, Plans: dual-radiator LHP (loop heat pipe) test bed, and Conclusions: from this study.

A novel guidance law using fast terminal sliding mode control with impact angle constraints.

PubMed

Sun, Lianghua; Wang, Weihong; Yi, Ran; Xiong, Shaofeng

2016-09-01

This paper is concerned with the question of, for a missile interception with impact angle constraints, how to design a guidance law. Firstly, missile interception with impact angle constraints is modeled; secondly, a novel guidance law using fast terminal sliding mode control based on extended state observer is proposed to optimize the trajectory and time of interception; finally, for stationary targets, constant velocity targets and maneuvering targets, the guidance law and the stability of the closed loop system is analyzed and the stability of the closed loop system is analyzed, respectively. Simulation results show that when missile and target are on a collision course, the novel guidance law using fast terminal sliding mode control with extended state observer has more optimized trajectory and effectively reduces the time of interception which has a great significance in modern warfare. Copyright © 2016 ISA. Published by Elsevier Ltd. All rights reserved.

Digital accumulators in phase and frequency tracking loops

NASA Technical Reports Server (NTRS)

Hinedi, Sami; Statman, Joseph I.

1990-01-01

Results on the effects of digital accumulators in phase and frequency tracking loops are presented. Digital accumulators or summers are used extensively in digital signal processing to perform averaging or to reduce processing rates to acceptable levels. For tracking the Doppler of high-dynamic targets at low carrier-to-noise ratios, it is shown through simulation and experiment that digital accumulators can contribute an additional loss in operating threshold. This loss was not considered in any previous study and needs to be accounted for in performance prediction analysis. Simulation and measurement results are used to characterize the loss due to the digital summers for three different tracking loops: a digital phase-locked loop, a cross-product automatic frequency tracking loop, and an extended Kalman filter. The tracking algorithms are compared with respect to their frequency error performance and their ability to maintain lock during severe maneuvers at various carrier-to-noise ratios. It is shown that failure to account for the effect of accumulators can result in an inaccurate performance prediction, the extent of which depends highly on the algorithm used.

Bright Loops at 171

NASA Technical Reports Server (NTRS)

2007-01-01

STEREO was able to capture bright loops in exquisite detail as they were arcing above an active region (May 26, 2007) over an 18 hour period. What we are actually seeing are charged particles spinning along magnetic field lines that extend above the Sun's surface. Active regions are areas of intense magnetic activity and often the source of solar storms. In fact, the clip ends with a flourish in which a small coronal mass ejection (CME) blows out into space. This is from the STEREO Ahead spacecraft at the 171 Angstroms wavelength in extreme ultraviolet light.

Improvements in deep-space tracking by use of third-order loops.

NASA Technical Reports Server (NTRS)

Tausworth, R. C.; Crow, R. B.

1972-01-01

Third-order phase-locked receivers have not yet found wide application in deep-space communications systems because the second-order systems now used have performed adequately on past spacecraft missions. However, a survey of the doppler profiles for future missions shows that an unaided second-order loop may be unable to perform within reasonable error bounds. This article discusses the characteristics of a simple third-order extension to present second-order systems that not only extends doppler-tracking capability, but widens the pull-in range and decreases pull-in time as well.

Foliage Penetration Radar: History and Developed Technology

DTIC Science & Technology

1974-05-01

26 M-FOPEN Antenna Mast with Delta- Loop Antennas 44 27 AB-577/GRC Antenna Mast Used to Extend the Range of the Man-Portable Radar 45 28 Base Station...Ground Control Unit 47 29 Base Station Tov.er with Delta- Loop Antennas 48 30 Test Configuration for the AN/fPS-5 Comparison Test and Tactical Exercise...00 UNDERGROW 1H TRANSMTTTING ANTENN . HEIG IT: 2 m 5(6- 13 m ) \\\\7 \\ Seo \\................ $A1 U, -< o\\ 31 I~ ~ A ,M\\;’ I10 31 ’•...GJ, FIGURE 3

Soft X-ray emission from the Lupus Loop and Sn 1006 supernova remnants

NASA Technical Reports Server (NTRS)

Winkler, P. F., Jr.; Hearn, D. R.; Richardson, J. A.; Behnken, J. M.

1979-01-01

X-ray maps of the Lupus region have been obtained in a raster scan observation from SAS 3. These show the Lupus Loop to be a faint extended source of soft X-rays with a temperature about 2.5 million K. The most prominent feature of the region is the A.D. 1006 supernova remnant, which is unexpectedly bright at 0.2-1.0 keV. One speculative interpretation of the low-energy flux from SN 1006 is as blackbody radiation from a hot neutron star.

Refined counting of necklaces in one-loop N=4 SYM

NASA Astrophysics Data System (ADS)

Suzuki, Ryo

2017-06-01

We compute the grand partition function of N=4 SYM at one-loop in the SU(2) sector with general chemical potentials, extending the results of Pólya's theorem. We make use of finite group theory, applicable to all orders of perturbative 1 /N c expansion. We show that only the planar terms contribute to the grand partition function, which is therefore equal to the grand partition function of an ensemble of {XXX}_{1/2} spin chains. We discuss how Hagedorn temperature changes on the complex plane of chemical potentials.

Multiloop Manual Control of Dynamic Systems

NASA Technical Reports Server (NTRS)

Hess, R. A.; Mcnally, B. D.

1984-01-01

Human interaction with a simple, multiloop dynamic system in which the human's activity was systematically varied by changing the levels of automation was studied. The control loop structure resulting from the task definition parallels that for any multiloop manual control system, is considered a sterotype. Simple models of the human in the task, and upon extending a technique for describing the manner in which the human subjectively quantifies his opinion of task difficulty were developed. A man in the loop simulation which provides data to support and direct the analytical effort is presented.

Optical feedback technique extends frequency response of photoconductors

NASA Technical Reports Server (NTRS)

Katzberg, S. J.

1975-01-01

Feedback circuit consists of high-gain light-to-voltage converter with frequency-limited nonlinear photoconductor inside feedback loop. Feedback element is visible light-emitting diode with light-out versus current-in characteristic that is linear over several decades.

Intersection of calorie restriction and magnesium in the suppression of genome-destabilizing RNA–DNA hybrids

PubMed Central

Abraham, Karan J.; Chan, Janet N.Y.; Salvi, Jayesh S.; Ho, Brandon; Hall, Amanda; Vidya, Elva; Guo, Ru; Killackey, Samuel A.; Liu, Nancy; Lee, Jeffrey E.; Brown, Grant W.; Mekhail, Karim

2016-01-01

Dietary calorie restriction is a broadly acting intervention that extends the lifespan of various organisms from yeast to mammals. On another front, magnesium (Mg2+) is an essential biological metal critical to fundamental cellular processes and is commonly used as both a dietary supplement and treatment for some clinical conditions. If connections exist between calorie restriction and Mg2+ is unknown. Here, we show that Mg2+, acting alone or in response to dietary calorie restriction, allows eukaryotic cells to combat genome-destabilizing and lifespan-shortening accumulations of RNA–DNA hybrids, or R-loops. In an R-loop accumulation model of Pbp1-deficient Saccharomyces cerevisiae, magnesium ions guided by cell membrane Mg2+ transporters Alr1/2 act via Mg2+-sensitive R-loop suppressors Rnh1/201 and Pif1 to restore R-loop suppression, ribosomal DNA stability and cellular lifespan. Similarly, human cells deficient in ATXN2, the human ortholog of Pbp1, exhibit nuclear R-loop accumulations repressible by Mg2+ in a process that is dependent on the TRPM7 Mg2+ transporter and the RNaseH1 R-loop suppressor. Thus, we identify Mg2+ as a biochemical signal of beneficial calorie restriction, reveal an R-loop suppressing function for human ATXN2 and propose that practical magnesium supplementation regimens can be used to combat R-loop accumulation linked to the dysfunction of disease-linked human genes. PMID:27574117

Coronal loop seismology using damping of standing kink oscillations by mode coupling

NASA Astrophysics Data System (ADS)

Pascoe, D. J.; Goddard, C. R.; Nisticò, G.; Anfinogentov, S.; Nakariakov, V. M.

2016-05-01

Context. Kink oscillations of solar coronal loops are frequently observed to be strongly damped. The damping can be explained by mode coupling on the condition that loops have a finite inhomogeneous layer between the higher density core and lower density background. The damping rate depends on the loop density contrast ratio and inhomogeneous layer width. Aims: The theoretical description for mode coupling of kink waves has been extended to include the initial Gaussian damping regime in addition to the exponential asymptotic state. Observation of these damping regimes would provide information about the structuring of the coronal loop and so provide a seismological tool. Methods: We consider three examples of standing kink oscillations observed by the Atmospheric Imaging Assembly (AIA) of the Solar Dynamics Observatory (SDO) for which the general damping profile (Gaussian and exponential regimes) can be fitted. Determining the Gaussian and exponential damping times allows us to perform seismological inversions for the loop density contrast ratio and the inhomogeneous layer width normalised to the loop radius. The layer width and loop minor radius are found separately by comparing the observed loop intensity profile with forward modelling based on our seismological results. Results: The seismological method which allows the density contrast ratio and inhomogeneous layer width to be simultaneously determined from the kink mode damping profile has been applied to observational data for the first time. This allows the internal and external Alfvén speeds to be calculated, and estimates for the magnetic field strength can be dramatically improved using the given plasma density. Conclusions: The kink mode damping rate can be used as a powerful diagnostic tool to determine the coronal loop density profile. This information can be used for further calculations such as the magnetic field strength or phase mixing rate.

Analytic Result for the Two-loop Six-point NMHV Amplitude in N = 4 Super Yang-Mills Theory

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dixon, Lance J.; /SLAC; Drummond, James M.

2012-02-15

We provide a simple analytic formula for the two-loop six-point ratio function of planar N = 4 super Yang-Mills theory. This result extends the analytic knowledge of multi-loop six-point amplitudes beyond those with maximal helicity violation. We make a natural ansatz for the symbols of the relevant functions appearing in the two-loop amplitude, and impose various consistency conditions, including symmetry, the absence of spurious poles, the correct collinear behavior, and agreement with the operator product expansion for light-like (super) Wilson loops. This information reduces the ansatz to a small number of relatively simple functions. In order to fix these parametersmore » uniquely, we utilize an explicit representation of the amplitude in terms of loop integrals that can be evaluated analytically in various kinematic limits. The final compact analytic result is expressed in terms of classical polylogarithms, whose arguments are rational functions of the dual conformal cross-ratios, plus precisely two functions that are not of this type. One of the functions, the loop integral {Omega}{sup (2)}, also plays a key role in a new representation of the remainder function R{sub 6}{sup (2)} in the maximally helicity violating sector. Another interesting feature at two loops is the appearance of a new (parity odd) x (parity odd) sector of the amplitude, which is absent at one loop, and which is uniquely determined in a natural way in terms of the more familiar (parity even) x (parity even) part. The second non-polylogarithmic function, the loop integral {tilde {Omega}}{sup (2)}, characterizes this sector. Both {Omega}{sup (2)} and {tilde {Omega}}{sup (2)} can be expressed as one-dimensional integrals over classical polylogarithms with rational arguments.« less

Sliding mode control for a two-joint coupling nonlinear system based on extended state observer.

PubMed

Zhao, Ling; Cheng, Haiyan; Wang, Tao

2018-02-01

A two-joint coupling nonlinear system driven by pneumatic artificial muscles is introduced in this paper. A sliding mode controller with extended state observer is proposed to cope with nonlinearities and disturbances for the two-joint coupling nonlinear system. In addition, convergence of the extended state observer is presented and stability analysis of the closed-loop system is also demonstrated with the sliding mode controller. Lastly, some experiments are carried out to show the reality effectiveness of the proposed method. Copyright © 2018 ISA. Published by Elsevier Ltd. All rights reserved.

Optimal cooperative control synthesis of active displays

NASA Technical Reports Server (NTRS)

Garg, S.; Schmidt, D. K.

1985-01-01

A technique is developed that is intended to provide a systematic approach to synthesizing display augmentation for optimal manual control in complex, closed-loop tasks. A cooperative control synthesis technique, previously developed to design pilot-optimal control augmentation for the plant, is extended to incorporate the simultaneous design of performance enhancing displays. The technique utilizes an optimal control model of the man in the loop. It is applied to the design of a quickening control law for a display and a simple K/s(2) plant, and then to an F-15 type aircraft in a multi-channel task. Utilizing the closed loop modeling and analysis procedures, the results from the display design algorithm are evaluated and an analytical validation is performed. Experimental validation is recommended for future efforts.

Partition functions with spin in AdS2 via quasinormal mode methods

DOE PAGES

Keeler, Cynthia; Lisbão, Pedro; Ng, Gim Seng

2016-10-12

We extend the results of [1], computing one loop partition functions for massive fields with spin half in AdS 2 using the quasinormal mode method proposed by Denef, Hartnoll, and Sachdev [2]. We find the finite representations of SO(2,1) for spin zero and spin half, consisting of a highest weight state |hi and descendants with non-unitary values of h. These finite representations capture the poles and zeroes of the one loop determinants. Together with the asymptotic behavior of the partition functions (which can be easily computed using a large mass heat kernel expansion), these are sufficient to determine the fullmore » answer for the one loop determinants. We also discuss extensions to higher dimensional AdS 2n and higher spins.« less

Phase-locked loop based on nanoelectromechanical resonant-body field effect transistor

NASA Astrophysics Data System (ADS)

Bartsch, S. T.; Rusu, A.; Ionescu, A. M.

2012-10-01

We demonstrate the room-temperature operation of a silicon nanoelectromechanical resonant-body field effect transistor (RB-FET) embedded into phase-locked loop (PLL). The very-high frequency resonator uses on-chip electrostatic actuation and transistor-based displacement detection. The heterodyne frequency down-conversion based on resistive FET mixing provides a loop feedback signal with high signal-to-noise ratio. We identify key parameters for PLL operation, and analyze the performance of the RB-FET at the system level. Used as resonant mass detector, the experimental frequency stability in the ppm-range translates into sub atto-gram (10-18 g) sensitivity in high vacuum. The feedback and control system are generic and may be extended to other mechanical resonators with transistor properties, such as graphene membranes and carbon nanotubes.

Flat microwave spectra seen at X-class flares

NASA Technical Reports Server (NTRS)

Lee, Jeongwoo W.; Gary, Dale E.; Zirin, H.

1994-01-01

We report peculiar spectral activity of four large microwave bursts as obtained from the Solar Arrays at the Owens Valey Radio Observatory during observations of X-class flares on 24 May 1990 and 7, 8, 22 March 1991. Main observational points that we newly uncovered are: (1) flat flux spectra over 1-18 GHz in large amounts of flux ranging from 10(exp 2) to 10(exp 4) s.f.u. at the maximum phase, (2) a common evolutionary pattern in which the spectral region of dominant flux shifts from high frequencies at the initial rise to low frequencies at the decaying phase, and (3) unusual time profiles that are impulsive at high frequencies but more extended at lower frequencies. We carry out the model calculations of microwave spectra under assumptions of gyrosynchrotron mechanism and a dipole field configuration to reproduce the observational characteristics. Our results are summarized as follows. First, a flat microwave spectrum reaching up to 10(exp 2) - 10(exp 4) s.f.u. may occur in a case where a magnetic loop is extended to an angular size of approximately (0.7-7.0) x 10(exp -7) sterad and contains a huge number (N(E greater than 10 keV) approx. 10(exp 36) - 10(exp 38)) of nonthermal electrons with power-law index approx. 3-3.5 over the entire volume. Second, the observed spectral activity could adequately be accounted for by the shrinking of the region of nonthermal electrons to the loop top and by the softening of the power-law spectrum of electrons in a time scale ranging 3-45 min depending on the event. Third, the extended microwave activity at lower frequencies is probably due to electrons trapped in the loop top where magnetic fields are low. Finally, we clarify the physical distinction between these large, extended microwave bursts and the gradual/post-microwave bursts often seen in weak events, both of which are characterized by long-period activity and broadband spectra.

Conformation of receptor-bound visual arrestin

PubMed Central

Kim, Miyeon; Vishnivetskiy, Sergey A.; Van Eps, Ned; Alexander, Nathan S.; Cleghorn, Whitney M.; Zhan, Xuanzhi; Hanson, Susan M.; Morizumi, Takefumi; Ernst, Oliver P.; Meiler, Jens; Gurevich, Vsevolod V.; Hubbell, Wayne L.

2012-01-01

Arrestin-1 (visual arrestin) binds to light-activated phosphorylated rhodopsin (P-Rh*) to terminate G-protein signaling. To map conformational changes upon binding to the receptor, pairs of spin labels were introduced in arrestin-1 and double electron–electron resonance was used to monitor interspin distance changes upon P-Rh* binding. The results indicate that the relative position of the N and C domains remains largely unchanged, contrary to expectations of a “clam-shell” model. A loop implicated in P-Rh* binding that connects β-strands V and VI (the “finger loop,” residues 67–79) moves toward the expected location of P-Rh* in the complex, but does not assume a fully extended conformation. A striking and unexpected movement of a loop containing residue 139 away from the adjacent finger loop is observed, which appears to facilitate P-Rh* binding. This change is accompanied by smaller movements of distal loops containing residues 157 and 344 at the tips of the N and C domains, which correspond to “plastic” regions of arrestin-1 that have distinct conformations in monomers of the crystal tetramer. Remarkably, the loops containing residues 139, 157, and 344 appear to have high flexibility in both free arrestin-1 and the P-Rh*complex. PMID:23091036

Diagonal dominance for the multivariable Nyquist array using function minimization

NASA Technical Reports Server (NTRS)

Leininger, G. G.

1977-01-01

A new technique for the design of multivariable control systems using the multivariable Nyquist array method was developed. A conjugate direction function minimization algorithm is utilized to achieve a diagonal dominant condition over the extended frequency range of the control system. The minimization is performed on the ratio of the moduli of the off-diagonal terms to the moduli of the diagonal terms of either the inverse or direct open loop transfer function matrix. Several new feedback design concepts were also developed, including: (1) dominance control parameters for each control loop; (2) compensator normalization to evaluate open loop conditions for alternative design configurations; and (3) an interaction index to determine the degree and type of system interaction when all feedback loops are closed simultaneously. This new design capability was implemented on an IBM 360/75 in a batch mode but can be easily adapted to an interactive computer facility. The method was applied to the Pratt and Whitney F100 turbofan engine.

Electronic security device

DOEpatents

Eschbach, E.A.; LeBlanc, E.J.; Griffin, J.W.

1992-03-17

The present invention relates to a security device having a control box containing an electronic system and a communications loop over which the system transmits a signal. The device is constructed so that the communications loop can extend from the control box across the boundary of a portal such as a door into a sealed enclosure into which access is restricted whereby the loop must be damaged or moved in order for an entry to be made into the enclosure. The device is adapted for detecting unauthorized entries into such enclosures such as rooms or containers and for recording the time at which such entries occur for later reference. Additionally, the device detects attempts to tamper or interfere with the operation of the device itself and records the time at which such events take place. In the preferred embodiment, the security device includes a microprocessor-based electronic system and a detection module capable of registering changes in the voltage and phase of the signal transmitted over the loop. 11 figs.

Electronic security device

DOEpatents

Eschbach, Eugene A.; LeBlanc, Edward J.; Griffin, Jeffrey W.

1992-01-01

The present invention relates to a security device having a control box (12) containing an electronic system (50) and a communications loop (14) over which the system transmits a signal. The device is constructed so that the communications loop can extend from the control box across the boundary of a portal such as a door into a sealed enclosure into which access is restricted whereby the loop must be damaged or moved in order for an entry to be made into the enclosure. The device is adapted for detecting unauthorized entries into such enclosures such as rooms or containers and for recording the time at which such entries occur for later reference. Additionally, the device detects attempts to tamper or interfere with the operation of the device itself and records the time at which such events take place. In the preferred embodiment, the security device includes a microprocessor-based electronic system (50) and a detection module (72) capable of registering changes in the voltage and phase of the signal transmitted over the loop.

Prediction of Long Loops with Embedded Secondary Structure using the Protein Local Optimization Program

PubMed Central

Miller, Edward B.; Murrett, Colleen S.; Zhu, Kai; Zhao, Suwen; Goldfeld, Dahlia A.; Bylund, Joseph H.; Friesner, Richard A.

2013-01-01

Robust homology modeling to atomic-level accuracy requires in the general case successful prediction of protein loops containing small segments of secondary structure. Further, as loop prediction advances to success with larger loops, the exclusion of loops containing secondary structure becomes awkward. Here, we extend the applicability of the Protein Local Optimization Program (PLOP) to loops up to 17 residues in length that contain either helical or hairpin segments. In general, PLOP hierarchically samples conformational space and ranks candidate loops with a high-quality molecular mechanics force field. For loops identified to possess α-helical segments, we employ an alternative dihedral library composed of (ϕ,ψ) angles commonly found in helices. The alternative library is searched over a user-specified range of residues that define the helical bounds. The source of these helical bounds can be from popular secondary structure prediction software or from analysis of past loop predictions where a propensity to form a helix is observed. Due to the maturity of our energy model, the lowest energy loop across all experiments can be selected with an accuracy of sub-Ångström RMSD in 80% of cases, 1.0 to 1.5 Å RMSD in 14% of cases, and poorer than 1.5 Å RMSD in 6% of cases. The effectiveness of our current methods in predicting hairpin-containing loops is explored with hairpins up to 13 residues in length and again reaching an accuracy of sub-Ångström RMSD in 83% of cases, 1.0 to 1.5 Å RMSD in 10% of cases, and poorer than 1.5 Å RMSD in 7% of cases. Finally, we explore the effect of an imprecise surrounding environment, in which side chains, but not the backbone, are initially in perturbed geometries. In these cases, loops perturbed to 3Å RMSD from the native environment were restored to their native conformation with sub-Ångström RMSD. PMID:23814507

Extending Automatic Parallelization to Optimize High-Level Abstractions for Multicore

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liao, C; Quinlan, D J; Willcock, J J

2008-12-12

Automatic introduction of OpenMP for sequential applications has attracted significant attention recently because of the proliferation of multicore processors and the simplicity of using OpenMP to express parallelism for shared-memory systems. However, most previous research has only focused on C and Fortran applications operating on primitive data types. C++ applications using high-level abstractions, such as STL containers and complex user-defined types, are largely ignored due to the lack of research compilers that are readily able to recognize high-level object-oriented abstractions and leverage their associated semantics. In this paper, we automatically parallelize C++ applications using ROSE, a multiple-language source-to-source compiler infrastructuremore » which preserves the high-level abstractions and gives us access to their semantics. Several representative parallelization candidate kernels are used to explore semantic-aware parallelization strategies for high-level abstractions, combined with extended compiler analyses. Those kernels include an array-base computation loop, a loop with task-level parallelism, and a domain-specific tree traversal. Our work extends the applicability of automatic parallelization to modern applications using high-level abstractions and exposes more opportunities to take advantage of multicore processors.« less

Exact asymmetric Skyrmion in anisotropic ferromagnet and its helimagnetic application

NASA Astrophysics Data System (ADS)

Kundu, Anjan

2016-08-01

Topological Skyrmions as intricate spin textures were observed experimentally in helimagnets on 2d plane. Theoretical foundation of such solitonic states to appear in pure ferromagnetic model, as exact solutions expressed through any analytic function, was made long ago by Belavin and Polyakov (BP). We propose an innovative generalization of the BP solution for an anisotropic ferromagnet, based on a physically motivated geometric (in-)equality, which takes the exact Skyrmion to a new class of functions beyond analyticity. The possibility of stabilizing such metastable states in helimagnets is discussed with the construction of individual Skyrmion, Skyrmion crystal and lattice with asymmetry, likely to be detected in precision experiments.

Non-AdS holography in 3-dimensional higher spin gravity — General recipe and example

NASA Astrophysics Data System (ADS)

Afshar, H.; Gary, M.; Grumiller, D.; Rashkov, R.; Riegler, M.

2012-11-01

We present the general algorithm to establish the classical and quantum asymptotic symmetry algebra for non-AdS higher spin gravity and implement it for the specific example of spin-3 gravity in the non-principal embedding with Lobachevsky ( {{{{H}}^2}× {R}} ) boundary conditions. The asymptotic symmetry algebra for this example consists of a quantum W_3^{(2) } (Polyakov-Bershadsky) and an affine û(1) algebra. We show that unitary representations of the quantum W_3^{(2) } algebra exist only for two values of its central charge, the trivial c = 0 "theory" and the simple c = 1 theory.

The physician-cosmonaut tasks in stabilizing the crew members health and increasing an effectiveness of their preparation for returning to Earth

NASA Astrophysics Data System (ADS)

Polyakov, V. V.

During a final 4-month stage of I-year space flight of cosmonauts Titov and Manarov, a physician, Valery Polyakov was included on a crew for the purpose of evaluating their health, correcting physical status to prepare for the spacecraft reentry and landing operations. The complex program of scientific investigations and experiments performed by a physician included an evaluation of adaptation reactions of the human body at different stages of space mission using clinicophysiological and biochemical methods; testing of alternative regimes of exercises and new countermeasures to prevent an unfavorable effect of long-term weightlessness.

Closed-loop control of gimbal-less MEMS mirrors for increased bandwidth in LiDAR applications

NASA Astrophysics Data System (ADS)

Milanović, Veljko; Kasturi, Abhishek; Yang, James; Hu, Frank

2017-05-01

In 2016, we presented a low SWaP wirelessly controlled MEMS mirror-based LiDAR prototype which utilized an OEM laser rangefinder for distance measurement [1]. The MEMS mirror was run in open loop based on its exceptionally fast design and high repeatability performance. However, to further extend the bandwidth and incorporate necessary eyesafety features, we recently focused on providing mirror position feedback and running the system in closed loop control. Multiple configurations of optical position sensors, mounted on both the front- and the back-side of the MEMS mirror, have been developed and will be presented. In all cases, they include a light source (LED or laser) and a 2D photosensor. The most compact version is mounted on the backside of the MEMS mirror ceramic package and can "view" the mirror's backside through openings in the mirror's PCB and its ceramic carrier. This version increases the overall size of the MEMS mirror submodule from 12mm x 12mm x 4mm to 15mm x 15mm x 7mm. The sensors also include optical and electronic filtering to reduce effects of any interference from the application laser illumination. With relatively simple FPGA-based PID control running at the sample rate of 100 kHz, we could configure the overall response of the system to fully utilize the MEMS mirror's native bandwidth which extends well beyond its first resonance. When compared to the simple open loop method of suppressing overshoot and ringing which significantly limits bandwidth utilization, running the mirrors in closed loop control increased the bandwidth to nearly 3.7 times. A 2.0mm diameter integrated MEMS mirror with a resonant frequency of 1300 Hz was limited to 500Hz bandwidth in open loop driving but was increased to 3kHz bandwidth with the closed loop controller. With that bandwidth it is capable of very sharply defined uniform-velocity scans (sawtooth or triangle waveforms) which are highly desired in scanned mirror LiDAR systems. A 2.4mm diameter mirror with +/-12° of scan angle achieves over 1.3kHz of flat response, allowing sharp triangle waveforms even at 300Hz (600 uniform velocity lines per second). The same methodology is demonstrated with larger, bonded mirrors. Here closed loop control is more challenging due to the additional resonance and a more complex system dynamic. Nevertheless, results are similar - a 5mm diameter mirror bandwidth was increased from 150Hz to 500Hz.

Back-stepping active disturbance rejection control design for integrated missile guidance and control system via reduced-order ESO.

PubMed

Xingling, Shao; Honglun, Wang

2015-07-01

This paper proposes a novel composite integrated guidance and control (IGC) law for missile intercepting against unknown maneuvering target with multiple uncertainties and control constraint. First, by using back-stepping technique, the proposed IGC law design is separated into guidance loop and control loop. The unknown target maneuvers and variations of aerodynamics parameters in guidance and control loop are viewed as uncertainties, which are estimated and compensated by designed model-assisted reduced-order extended state observer (ESO). Second, based on the principle of active disturbance rejection control (ADRC), enhanced feedback linearization (FL) based control law is implemented for the IGC model using the estimates generated by reduced-order ESO. In addition, performance analysis and comparisons between ESO and reduced-order ESO are examined. Nonlinear tracking differentiator is employed to construct the derivative of virtual control command in the control loop. Third, the closed-loop stability for the considered system is established. Finally, the effectiveness of the proposed IGC law in enhanced interception performance such as smooth interception course, improved robustness against multiple uncertainties as well as reduced control consumption during initial phase are demonstrated through simulations. Copyright © 2015 ISA. Published by Elsevier Ltd. All rights reserved.

The Atlantic Multidecadal Variability in surface and deep ocean temperature and salinity fields from unperturbed climate simulations

NASA Astrophysics Data System (ADS)

Zanchettin, D.; Jungclaus, J. H.

2013-12-01

Large multidecadal fluctuations in basin-average sea-surface temperature (SST) are a known feature of observed, reconstructed and simulated variability in the North Atlantic Ocean. This phenomenon is often referred to as Multidecadal Atlantic Variability or AMV. Historical AMV fluctuations are associated with analog basin-scale changes in sea-surface salinity, so that warming corresponds to salinification and cooling to freshening [Polyakov et al., 2005]. The surface imprint of the AMV further corresponds to same-sign fluctuations in the shallow ocean and with opposite-sign fluctuations in the deep ocean for both temperature and salinity [Polyakov et al., 2005]. This out-of-phase behavior reflects the thermohaline overturning circulation shaping North Atlantic's low-frequency variability. Several processes contribute to the AMV, involving both ocean-atmosphere coupled processes and deep ocean circulation [e.g., Grossmann and Klotzbach, 2009]. In particular, recirculation in the North Atlantic subpolar gyre region of salinity anomalies from Arctic freshwater export may trigger multidecadal variability in the Atlantic meridional overturning circulation, and therefore may be part of the AMV [Jungclaus et al., 2005; Dima and Lohmann, 2007]. With this contribution, we aim to improve the physical interpretation of the AMV by investigating spatial and temporal patterns of temperature and salinity fields in the shallow and deep ocean. We focus on two unperturbed millennial-scale simulations performed with the Max Planck Institute Earth system model in its paleo (MPI-ESM-P) and low-resolution (MPI-ESM-LR) configurations, which provide reference control climates for assessments of pre-industrial and historical climate simulations. The two model configurations only differ for the presence, in MPI-ESM-LR, of an active module for dynamical vegetation. We use spatial-average indices and empirical orthogonal functions/principal components to track the horizontal and vertical propagation of temperature and salinity anomalies related to the AMV. In particular, we discuss the potential predictability of multidecadal fluctuations in North Atlantic SSTs based on indices derived from the sea-surface salinity field. We show how the two simulations provide AMV realizations with some distinguishable characteristics, e.g., the typical fluctuations' frequencies and the linkage with the North Atlantic meridional overturning and gyre circulations. We further show how information gained by investigating different definitions of the AMV [Zanchettin et al., 2013] helps designing numerical sensitivity studies for understanding the mechanism(s) behind this phenomenon, concerning both its origin and global impacts. References Dima, M., and G. Lohmann [2007], J. Clim., 20, 2706-2719, doi:10.1175/JCLI4174.1 Jungclaus, J.H., et al. [2005], J. Clim., 18, 4013- 4031, doi:10.1175/JCLI3462.1 Polyakov, I. V., et al. [2005], J. Clim., 18:4562-4581 Grossmann, I., and P. J. Klotzbach [2009], J. Geophys. Res., 114, D24107, doi:10.1029/2009JD012728 Zanchettin D., et al. [2013], Clim. Dyn., doi:10.1007/s00382-013-1669-0

Promoter-Terminator Gene Loops Affect Alternative 3'-End Processing in Yeast.

PubMed

Lamas-Maceiras, Mónica; Singh, Badri Nath; Hampsey, Michael; Freire-Picos, María A

2016-04-22

Many eukaryotic genes undergo alternative 3'-end poly(A)-site selection producing transcript isoforms with 3'-UTRs of different lengths and post-transcriptional fates. Gene loops are dynamic structures that juxtapose the 3'-ends of genes with their promoters. Several functions have been attributed to looping, including memory of recent transcriptional activity and polarity of transcription initiation. In this study, we investigated the relationship between gene loops and alternative poly(A)-site. Using the KlCYC1 gene of the yeast Kluyveromyces lactis, which includes a single promoter and two poly(A) sites separated by 394 nucleotides, we demonstrate in two yeast species the formation of alternative gene loops (L1 and L2) that juxtapose the KlCYC1 promoter with either proximal or distal 3'-end processing sites, resulting in the synthesis of short and long forms of KlCYC1 mRNA. Furthermore, synthesis of short and long mRNAs and formation of the L1 and L2 loops are growth phase-dependent. Chromatin immunoprecipitation experiments revealed that the Ssu72 RNA polymerase II carboxyl-terminal domain phosphatase, a critical determinant of looping, peaks in early log phase at the proximal poly(A) site, but as growth phase advances, it extends to the distal site. These results define a cause-and-effect relationship between gene loops and alternative poly(A) site selection that responds to different physiological signals manifested by RNA polymerase II carboxyl-terminal domain phosphorylation status. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

Undersize solute element effects on defect structure development in copper under electron irradiation

NASA Astrophysics Data System (ADS)

Satoh, Y.; Yoshiie, T.; Arai, S.

2018-03-01

We conducted systematic experiments of defect structure development in Cu base binary alloys under 1000 kV electron irradiation at temperatures higher than 300 K, using in situ observations with high voltage electron microscopy. This report describes the effects of undersize elements: Co (-3.78%), Ni (-8.45%) and Be (-26.45%). The volume size factors are given in parentheses. The amounts of the respective elements were 2, 0.3, 0.05 at.%, or less. In Cu-Ni and Cu-Co and in the reference Cu, temperature dependence of the number density of interstitial-type dislocation loops had a down peak (i.e. loops hardly formed) at approximately 373 K, attributed to unexpected impurity atoms. Above the down-peak temperature, the addition of Co or Ni increased the loop number density through continuous nucleation of loops, extended the loop formation to higher temperatures, and decreased the apparent activation energy of loop growth rate. The addition of Be for 0.3 at.% or more delayed loop formation after formation of stacking fault tetrahedra (SFTs) around 300 K. The apparent mobility of self-interstitial atoms is expected to be smaller than that of vacancies because of strong binding with Be. Loop formation at temperatures higher than 373 K was enhanced by Be for 0.3 or 2 at.%, although it was suppressed greatly for 0.05 at.% or less. All undersize atoms increased the stability of SFTs under irradiation. Mechanisms of those effects were discussed and were briefly compared with earlier results found for oversize elements in Cu.

A Mutation within the Extended X Loop Abolished Substrate-induced ATPase Activity of the Human Liver ATP-binding Cassette (ABC) Transporter MDR3*

PubMed Central

Kluth, Marianne; Stindt, Jan; Dröge, Carola; Linnemann, Doris; Kubitz, Ralf; Schmitt, Lutz

2015-01-01

The human multidrug resistance protein 3 (MDR3/ABCB4) belongs to the ubiquitous family of ATP-binding cassette (ABC) transporters and is located in the canalicular membrane of hepatocytes. There it flops the phospholipids of the phosphatidylcholine (PC) family from the inner to the outer leaflet. Here, we report the characterization of wild type MDR3 and the Q1174E mutant, which was identified previously in a patient with progressive familial intrahepatic cholestasis type 3 (PFIC-3). We expressed different variants of MDR3 in the yeast Pichia pastoris, purified the proteins via tandem affinity chromatography, and determined MDR3-specific ATPase activity in the presence or absence of phospholipids. The ATPase activity of wild type MDR3 was stimulated 2-fold by liver PC or 1,2-dioleoyl-sn-glycero-3-phosphatidylethanolamine lipids. Furthermore, the cross-linking of MDR3 with a thiol-reactive fluorophore blocked ATP hydrolysis and exhibited no PC stimulation. Similarly, phosphatidylethanolamine, phosphatidylserine, and sphingomyelin lipids did not induce an increase of wild type MDR3 ATPase activity. The phosphate analogues beryllium fluoride and aluminum fluoride led to complete inhibition of ATPase activity, whereas orthovanadate inhibited exclusively the PC-stimulated ATPase activity of MDR3. The Q1174E mutation is located in the nucleotide-binding domain in direct proximity of the leucine of the ABC signature motif and extended the X loop, which is found in ABC exporters. Our data on the Q1174E mutant demonstrated basal ATPase activity, but PC lipids were incapable of stimulating ATPase activity highlighting the role of the extended X loop in the cross-talk of the nucleotide-binding domain and the transmembrane domain. PMID:25533467

FY 2017-Progress Report on the Design and Construction of the Sodium Loop SMT-3

DOE Office of Scientific and Technical Information (OSTI.GOV)

Natesan, K.; Momozaki, Y.

This report provides an update on the design of a forced-convection sodium loop to be used for the evaluation of sodium compatibility of advanced Alloy 709 with emphasis on long term exposures of tensile, creep, fatigue, creep fatigue, and fracture toughness ASTM-size specimens in support of ASME Code qualification and NRC licensing. The report is a deliverable (Level 4) in FY17 (M4AT-17AN1602094), under the Work Package AT-17AN160209, “Sodium Compatibility” performed by Argonne National Laboratory (ANL), as part of the Advanced Materials Program for the Advanced Reactor Technology. This work package enables the development of advanced structural materials by providing corrosion,more » microstructure, and mechanical property data from the standpoint of sodium compatibility of advanced structural alloys. The first sodium loop (SMT-1) with a single tank was constructed in 2011 at ANL and has been in operation for exposure of subsize sheet specimens of advanced alloys at a single temperature. The second sodium loop with dual tanks (SMT-2) was constructed in 2013 and has been in operation for the exposure of subsize sheet specimens of advanced alloys at two different temperatures. The current loop (SMT-3) has been designed to incorporate sufficient chamber capacity to expose a large number of ASTM-size specimens to evaluate the sodium effects on tensile, creep, fatigue, creep-fatigue, and fracture toughness properties, in support of ASME Code Qualification and USNRC Licensing. The design of individual components for the third sodium loop SMT-3 is almost complete. The design also has been sent to an outside vendor for piping analysis to be in compliance with ASME Code. A purchase order has been placed with an outside vendor for the fabrication of major components such as the specimen exposure tanks. However, we have contracted with another vendor to establish the piping design in compliance with ASME design codes. The piping design was completed in FY2017 and the information is being transmitted to the tank fabricator. The SMT-3 loop will be located in Building 206 adjacent to the currently operating SMT-2 loop. In addition, we have demolished the aged power supply system in Building 206 and installed a new transformer, wiring, and power panels for the new loop. Procurement of some of the long lead items such as valves, EM pumps, EM flowmeters, etc. is in progress and will continue in FY 2018. The construction of components such as cold trap, economizers, piping arrangement etc. will be performed in the central shops at ANL. About 150 liters of sodium for the loop will be procured in early FY2018. The loop system is designed to circulate sodium through the sample tanks and the associated loop without an operator for an extended period of time. With the three sodium loops (with single-tank, dual-tank and four–tanks), materials can be tested at different sodium temperatures, and large tensile, creep, fatigue, creep-fatigue, and fracture toughness specimens can be exposed to sodium for extended periods of time and generate data on mechanical properties in support of ASME Code Qualification and USNRC Licensing of advanced Alloy 709 for use as a structural material in SFRs.« less

Giant Hα Nebula Surrounding the Starburst Merger NGC 6240

NASA Astrophysics Data System (ADS)

Yoshida, Michitoshi; Yagi, Masafumi; Ohyama, Youichi; Komiyama, Yutaka; Kashikawa, Nobunari; Tanaka, Hisashi; Okamura, Sadanori

2016-03-01

We revealed the detailed structure of a vastly extended Hα-emitting nebula (“Hα nebula”) surrounding the starburst/merging galaxy NGC 6240 by deep narrow-band imaging observations with the Subaru Suprime-Cam. The extent of the nebula is ˜90 kpc in diameter and the total Hα luminosity amounts to LHα ≈ 1.6 × 1042 erg s-1. The volume filling factor and the mass of the warm ionized gas are ˜10-4-10-5 and ˜5 × 108 M⊙, respectively. The nebula has a complicated structure, which includes numerous filaments, loops, bubbles, and knots. We found that there is a tight spatial correlation between the Hα nebula and the extended soft-X-ray-emitting gas, both in large and small scales. The overall morphology of the nebula is dominated by filamentary structures radially extending from the center of the galaxy. A large-scale bipolar bubble extends along the minor axis of the main stellar disk. The morphology strongly suggests that the nebula was formed by intense outflows—superwinds—driven by starbursts. We also found three bright knots embedded in a looped filament of ionized gas that show head-tail morphologies in both emission-line and continuum, suggesting close interactions between the outflows and star-forming regions. Based on the morphology and surface brightness distribution of the Hα nebula, we propose the scenario that three major episodes of starburst/superwind activities, which were initiated ˜102 Myr ago, formed the extended ionized gas nebula of NGC 6240. Based on data collected at the Subaru Telescope, which is operated by the National Astronomical Observatory of Japan.

Thermal phase transition with full 2-loop effective potential

NASA Astrophysics Data System (ADS)

Laine, M.; Meyer, M.; Nardini, G.

2017-07-01

Theories with extended Higgs sectors constructed in view of cosmological ramifications (gravitational wave signal, baryogenesis, dark matter) are often faced with conflicting requirements for their couplings; in particular those influencing the strength of a phase transition may be large. Large couplings compromise perturbative studies, as well as the high-temperature expansion that is invoked in dimensionally reduced lattice investigations. With the example of the inert doublet extension of the Standard Model (IDM), we show how a resummed 2-loop effective potential can be computed without a high-T expansion, and use the result to scrutinize its accuracy. With the exception of Tc, which is sensitive to contributions from heavy modes, the high-T expansion is found to perform well. 2-loop corrections weaken the transition in IDM, but they are moderate, whereby a strong transition remains an option.

Dynamics of knotted flexible loops settling under a constant force in a viscous fluid

NASA Astrophysics Data System (ADS)

Gruziel, Magdalena; Thyagarajan, Krishnan; Dietler, Giovanni; Szymczak, Piotr; Ekiel-Jezewska, Maria

2017-11-01

Sedimenting chains of metal beads knotted to a topology of a torus knot tend to stabilize in the form of extended, flat, tightly interwound loops. In this configuration they perform an oscillatory motion of the loops swirling periodically around each other. Stokesian dynamics simulations of elastic fibers confirm the long-lasting character of the traveling wave-like swirling motion and show also the accompanying rotation of the system. Moreover, the periodic motion shows striking resemblance to the stable solutions for the evolution of vortices of torus knot topology. Using the results of the simulations we study the dependence of the frequencies and sedimentation velocities on the length of the fiber. We also notice the dependence of the knot dynamics on the bending stiffness of the fiber and the knot rank. NCN-2015/19/D/ST8/03199.

Loop-Extended Symbolic Execution on Binary Programs

DTIC Science & Technology

2009-03-02

1434. Based on its speci- fication [35], one valid message format contains 2 fields: a header byte of value 4, followed by a string giving a database ...potentially become expensive. For instance the polyhedron technique [16] requires costly conversion operations on a multi-dimensional abstract representation

The Extended-Image Tracking Technique Based on the Maximum Likelihood Estimation

NASA Technical Reports Server (NTRS)

Tsou, Haiping; Yan, Tsun-Yee

2000-01-01

This paper describes an extended-image tracking technique based on the maximum likelihood estimation. The target image is assume to have a known profile covering more than one element of a focal plane detector array. It is assumed that the relative position between the imager and the target is changing with time and the received target image has each of its pixels disturbed by an independent additive white Gaussian noise. When a rotation-invariant movement between imager and target is considered, the maximum likelihood based image tracking technique described in this paper is a closed-loop structure capable of providing iterative update of the movement estimate by calculating the loop feedback signals from a weighted correlation between the currently received target image and the previously estimated reference image in the transform domain. The movement estimate is then used to direct the imager to closely follow the moving target. This image tracking technique has many potential applications, including free-space optical communications and astronomy where accurate and stabilized optical pointing is essential.

Radiation-induced segregation on defect clusters in single-phase concentrated solid-solution alloys

DOE PAGES

Lu, Chenyang; Yang, Taini; Jin, Ke; ...

2017-01-12

A group of single-phase concentrated solid-solution alloys (SP-CSAs), including NiFe, NiCoFe, NiCoFeCr, as well as a high entropy alloy NiCoFeCrMn, was irradiated with 3 MeV Ni 2+ ions at 773 K to a fluence of 5 10 16 ions/cm 2 for the study of radiation response with increasing compositional complexity. Advanced transmission electron microscopy (TEM) with electron energy loss spectroscopy (EELS) was used to characterize the dislocation loop distribution and radiation-induced segregation (RIS) on defect clusters in the SP-CSAs. The results show that a higher fraction of faulted loops exists in the more compositionally complex alloys, which indicate that increasingmore » compositional complexity can extend the incubation period and delay loop growth. The RIS behaviors of each element in the SP-CSAs were observed as follows: Ni and Co tend to enrich, but Cr, Fe and Mn prefer to deplete near the defect clusters. RIS level can be significantly suppressed by increasing compositional complexity due to the sluggish atom diffusion. According to molecular static (MS) simulations, disk like segregations may form near the faulted dislocation loops in the SP-CSAs. Segregated elements tend to distribute around the whole faulted loop as a disk rather than only around the edge of the loop.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chifu, Iulia; Wiegelmann, Thomas; Inhester, Bernd, E-mail: chifu@mps.mpg.de

Insights into the 3D structure of the solar coronal magnetic field have been obtained in the past by two completely different approaches. The first approach are nonlinear force-free field (NLFFF) extrapolations, which use photospheric vector magnetograms as boundary condition. The second approach uses stereoscopy of coronal magnetic loops observed in EUV coronal images from different vantage points. Both approaches have their strengths and weaknesses. Extrapolation methods are sensitive to noise and inconsistencies in the boundary data, and the accuracy of stereoscopy is affected by the ability of identifying the same structure in different images and by the separation angle betweenmore » the view directions. As a consequence, for the same observational data, the 3D coronal magnetic fields computed with the two methods do not necessarily coincide. In an earlier work (Paper I) we extended our NLFFF optimization code by including stereoscopic constrains. The method was successfully tested with synthetic data, and within this work, we apply the newly developed code to a combined data set from SDO /HMI, SDO /AIA, and the two STEREO spacecraft. The extended method (called S-NLFFF) contains an additional term that monitors and minimizes the angle between the local magnetic field direction and the orientation of the 3D coronal loops reconstructed by stereoscopy. We find that when we prescribe the shape of the 3D stereoscopically reconstructed loops, the S-NLFFF method leads to a much better agreement between the modeled field and the stereoscopically reconstructed loops. We also find an appreciable decrease by a factor of two in the angle between the current and the magnetic field. This indicates the improved quality of the force-free solution obtained by S-NLFFF.« less

Nonlinear Force-free Coronal Magnetic Stereoscopy

NASA Astrophysics Data System (ADS)

Chifu, Iulia; Wiegelmann, Thomas; Inhester, Bernd

2017-03-01

Insights into the 3D structure of the solar coronal magnetic field have been obtained in the past by two completely different approaches. The first approach are nonlinear force-free field (NLFFF) extrapolations, which use photospheric vector magnetograms as boundary condition. The second approach uses stereoscopy of coronal magnetic loops observed in EUV coronal images from different vantage points. Both approaches have their strengths and weaknesses. Extrapolation methods are sensitive to noise and inconsistencies in the boundary data, and the accuracy of stereoscopy is affected by the ability of identifying the same structure in different images and by the separation angle between the view directions. As a consequence, for the same observational data, the 3D coronal magnetic fields computed with the two methods do not necessarily coincide. In an earlier work (Paper I) we extended our NLFFF optimization code by including stereoscopic constrains. The method was successfully tested with synthetic data, and within this work, we apply the newly developed code to a combined data set from SDO/HMI, SDO/AIA, and the two STEREO spacecraft. The extended method (called S-NLFFF) contains an additional term that monitors and minimizes the angle between the local magnetic field direction and the orientation of the 3D coronal loops reconstructed by stereoscopy. We find that when we prescribe the shape of the 3D stereoscopically reconstructed loops, the S-NLFFF method leads to a much better agreement between the modeled field and the stereoscopically reconstructed loops. We also find an appreciable decrease by a factor of two in the angle between the current and the magnetic field. This indicates the improved quality of the force-free solution obtained by S-NLFFF.

Towards a physical map of the fertility genes on the heterochromatic Y chromosome of Drosophila hydei: families of repetitive sequences transcribed on the lampbrush loops Nooses and Threads are organized in extended clusters of several hundred kilobases.

PubMed

Trapitz, P; Glätzer, K H; Bünemann, H

1992-11-01

The understanding of structure and function of the so-called fertility genes of Drosophila is very limited due to their unusual size--several megabases--and their location on the heterochromatic Y chromosome. Since mapping of these genes has mainly been done by classical cytogenetic analyses using a small number of cytologically visible lampbrush loops as the sole markers for particular fertility genes, the resolution of the genetic map of the Y chromosome is restricted to 3-5 Mb. Here we demonstrate that a substantially finer subdivision of the megabase-sized fertility genes in the subtelomeric regions of the Y chromosome of Drosophila hydei can be achieved by a combination of digestion with restriction enzymes having 6 bp recognition sequences, and pulsed field gel electrophoresis. The physical subdivision is based upon large conserved fragments of repetitive DNA in the size range from 50 up to 1600 kb and refers to the long-range organization of several families of repetitive DNA involved in Y chromosomal transcription processes in primary spermatocytes. We conclude from our results that at least five different families of repetitive DNA specifically transcribed on the lampbrush loops nooses and threads are organized as extended clusters of several hundred kb, essentially free of interspersed non-repetitive sequences.

Control-oriented modeling and adaptive backstepping control for a nonminimum phase hypersonic vehicle.

PubMed

Ye, Linqi; Zong, Qun; Tian, Bailing; Zhang, Xiuyun; Wang, Fang

2017-09-01

In this paper, the nonminimum phase problem of a flexible hypersonic vehicle is investigated. The main challenge of nonminimum phase is the prevention of dynamic inversion methods to nonlinear control design. To solve this problem, we make research on the relationship between nonminimum phase and backstepping control, finding that a stable nonlinear controller can be obtained by changing the control loop on the basis of backstepping control. By extending the control loop to cover the internal dynamics in it, the internal states are directly controlled by the inputs and simultaneously serve as virtual control for the external states, making it possible to guarantee output tracking as well as internal stability. Then, based on the extended control loop, a simplified control-oriented model is developed to enable the applicability of adaptive backstepping method. It simplifies the design process and releases some limitations caused by direct use of the no simplified control-oriented model. Next, under proper assumptions, asymptotic stability is proved for constant commands, while bounded stability is proved for varying commands. The proposed method is compared with approximate backstepping control and dynamic surface control and is shown to have superior tracking accuracy as well as robustness from the simulation results. This paper may also provide a beneficial guidance for control design of other complex systems. Copyright © 2017 ISA. Published by Elsevier Ltd. All rights reserved.

The Myosin IXb Motor Activity Targets the Myosin IXb RhoGAP Domain as Cargo to Sites of Actin Polymerization

PubMed Central

van den Boom, Frank; Düssmann, Heiko; Uhlenbrock, Katharina; Abouhamed, Marouan

2007-01-01

Myosin IXb (Myo9b) is a single-headed processive myosin that exhibits Rho GTPase-activating protein (RhoGAP) activity in its tail region. Using live cell imaging, we determined that Myo9b is recruited to extending lamellipodia, ruffles, and filopodia, the regions of active actin polymerization. A functional motor domain was both necessary and sufficient for targeting Myo9b to these regions. The head domains of class IX myosins comprise a large insertion in loop2. Deletion of the large Myo9b head loop 2 insertion abrogated the enrichment in extending lamellipodia and ruffles, but enhanced significantly the enrichment at the tips of filopodia and retraction fibers. The enrichment in the tips of filopodia and retraction fibers depended on four lysine residues C-terminal to the loop 2 insertion and the tail region. Fluorescence recovery after photobleaching and photoactivation experiments in lamellipodia revealed that the dynamics of Myo9b was comparable to that of actin. The exchange rates depended on the Myo9b motor region and motor activity, and they were also dependent on the turnover of F-actin. These results demonstrate that Myo9b functions as a motorized RhoGAP molecule in regions of actin polymerization and identify Myo9b head sequences important for in vivo motor properties. PMID:17314409

Humans and intelligent vehicles : the hope, the help, and the harm.

DOT National Transportation Integrated Search

2016-03-01

Intelligent vehicles offer hope for a world in which crashes are rare, congestion is reduced, carbon emissions are decreased, and mobility is extended to a wider population. As long as humans are in the loop, over a half century of research in human ...

The Extended Mind: Coupling Environment and Brain

NASA Astrophysics Data System (ADS)

Vrobel, Susie

2010-11-01

This paper describes embodiment and cognitive extension as examples of strong anticipation as defined by Dubois. Clark and Chalmers formulated a thesis which states that parts of the environment, if coupled successfully, can become part of the extended mind. This coupling, be it deliberate or unintentional, shifts the observer-world boundary outwards when the observer encompasses parts of his environment. The resulting extended observer forms a new systemic whole, which consists of both the assimilated context and the recalibrated version of the original observer. Recalibration occurs when conditioning and adaptation lead to corresponding changes on the neural level, for instance, when an agent compensates for delays in a control loop. Plasticity is a prerequisite for any successful incorporation of external structures. However, uncoupled parts of the observer must remain inviolate in order to preserve the boundary. Neither the extended mind nor the core observer are absolute concepts. Depending on whether we focus on local-scale interactions or on large-scale behaviour, boundaries are formed at different interfacial cuts, which lead to either an endo- or an exo-perspective or endo- or exo-anticipation, respectively. For biological extended agents which undergo a transition from exo- to endo-states, a tell-tale sign of a successful exo-endo transition is invisibility. This invisibility occurs when the agent is no longer aware of the delay originally introduced into the control loop by the assimilated part of the environment. Explaining the world in terms of effective causality is not sufficient to account for extended minds. The latter require explanations in terms of final causation. For extended minds, this ordering principle comes in the shape of nested hierarchical layers. The interfaces of these layers may have merged for an endo-observer, whereas an exo-observer can make out the detailed structure, including artificially introduced delays. A sufficient condition for an endo-observer to turn into an extended mind is the formation of a new systemic whole as a result of shifting the interfacial cut between exo-and endo-world outwards. However, this is only a necessary condition for an extended agent with strong anticipatory properties. It is invisibility which is a sufficient condition for strong or endo-anticipation.

Prediction of protein loop conformations using multiscale modeling methods with physical energy scoring functions.

PubMed

Olson, Mark A; Feig, Michael; Brooks, Charles L

2008-04-15

This article examines ab initio methods for the prediction of protein loops by a computational strategy of multiscale conformational sampling and physical energy scoring functions. Our approach consists of initial sampling of loop conformations from lattice-based low-resolution models followed by refinement using all-atom simulations. To allow enhanced conformational sampling, the replica exchange method was implemented. Physical energy functions based on CHARMM19 and CHARMM22 parameterizations with generalized Born (GB) solvent models were applied in scoring loop conformations extracted from the lattice simulations and, in the case of all-atom simulations, the ensemble of conformations were generated and scored with these models. Predictions are reported for 25 loop segments, each eight residues long and taken from a diverse set of 22 protein structures. We find that the simulations generally sampled conformations with low global root-mean-square-deviation (RMSD) for loop backbone coordinates from the known structures, whereas clustering conformations in RMSD space and scoring detected less favorable loop structures. Specifically, the lattice simulations sampled basins that exhibited an average global RMSD of 2.21 +/- 1.42 A, whereas clustering and scoring the loop conformations determined an RMSD of 3.72 +/- 1.91 A. Using CHARMM19/GB to refine the lattice conformations improved the sampling RMSD to 1.57 +/- 0.98 A and detection to 2.58 +/- 1.48 A. We found that further improvement could be gained from extending the upper temperature in the all-atom refinement from 400 to 800 K, where the results typically yield a reduction of approximately 1 A or greater in the RMSD of the detected loop. Overall, CHARMM19 with a simple pairwise GB solvent model is more efficient at sampling low-RMSD loop basins than CHARMM22 with a higher-resolution modified analytical GB model; however, the latter simulation method provides a more accurate description of the all-atom energy surface, yet demands a much greater computational cost. (c) 2007 Wiley Periodicals, Inc.

Extended cooperative control synthesis

NASA Technical Reports Server (NTRS)

Davidson, John B.; Schmidt, David K.

1994-01-01

This paper reports on research for extending the Cooperative Control Synthesis methodology to include a more accurate modeling of the pilot's controller dynamics. Cooperative Control Synthesis (CCS) is a methodology that addresses the problem of how to design control laws for piloted, high-order, multivariate systems and/or non-conventional dynamic configurations in the absence of flying qualities specifications. This is accomplished by emphasizing the parallel structure inherent in any pilot-controlled, augmented vehicle. The original CCS methodology is extended to include the Modified Optimal Control Model (MOCM), which is based upon the optimal control model of the human operator developed by Kleinman, Baron, and Levison in 1970. This model provides a modeling of the pilot's compensation dynamics that is more accurate than the simplified pilot dynamic representation currently in the CCS methodology. Inclusion of the MOCM into the CCS also enables the modeling of pilot-observation perception thresholds and pilot-observation attention allocation affects. This Extended Cooperative Control Synthesis (ECCS) allows for the direct calculation of pilot and system open- and closed-loop transfer functions in pole/zero form and is readily implemented in current software capable of analysis and design for dynamic systems. Example results based upon synthesizing an augmentation control law for an acceleration command system in a compensatory tracking task using the ECCS are compared with a similar synthesis performed by using the original CCS methodology. The ECCS is shown to provide augmentation control laws that yield more favorable, predicted closed-loop flying qualities and tracking performance than those synthesized using the original CCS methodology.

Pivotal role of extended linker 2 in the activation of Gα by G protein-coupled receptor.

PubMed

Huang, Jianyun; Sun, Yutong; Zhang, J Jillian; Huang, Xin-Yun

2015-01-02

G protein-coupled receptors (GPCRs) relay extracellular signals mainly to heterotrimeric G-proteins (Gαβγ) and they are the most successful drug targets. The mechanisms of G-protein activation by GPCRs are not well understood. Previous studies have revealed a signal relay route from a GPCR via the C-terminal α5-helix of Gα to the guanine nucleotide-binding pocket. Recent structural and biophysical studies uncover a role for the opening or rotating of the α-helical domain of Gα during the activation of Gα by a GPCR. Here we show that β-adrenergic receptors activate eight Gαs mutant proteins (from a screen of 66 Gαs mutants) that are unable to bind Gβγ subunits in cells. Five of these eight mutants are in the αF/Linker 2/β2 hinge region (extended Linker 2) that connects the Ras-like GTPase domain and the α-helical domain of Gαs. This extended Linker 2 is the target site of a natural product inhibitor of Gq. Our data show that the extended Linker 2 is critical for Gα activation by GPCRs. We propose that a GPCR via its intracellular loop 2 directly interacts with the β2/β3 loop of Gα to communicate to Linker 2, resulting in the opening and closing of the α-helical domain and the release of GDP during G-protein activation. © 2015 by The American Society for Biochemistry and Molecular Biology, Inc.

Analysis of wave propagation and wavefront sensing in target-in-the-loop beam control systems

NASA Astrophysics Data System (ADS)

Vorontsov, Mikhail A.; Kolosov, Valeri V.

2004-10-01

Target-in-the-loop (TIL) wave propagation geometry represents perhaps the most challenging case for adaptive optics applications that are related with maximization of irradiance power density on extended remotely located surfaces in the presence of dynamically changing refractive index inhomogeneities in the propagation medium. We introduce a TIL propagation model that uses a combination of the parabolic equation describing outgoing wave propagation, and the equation describing evolution of the mutual intensity function (MIF) for the backscattered (returned) wave. The resulting evolution equation for the MIF is further simplified by the use of the smooth refractive index approximation. This approximation enables derivation of the transport equation for the returned wave brightness function, analyzed here using method characteristics (brightness function trajectories). The equations for the brightness function trajectories (ray equations) can be efficiently integrated numerically. We also consider wavefront sensors that perform sensing of speckle-averaged characteristics of the wavefront phase (TIL sensors). Analysis of the wavefront phase reconstructed from Shack-Hartmann TIL sensor measurements shows that an extended target introduces a phase modulation (target-induced phase) that cannot be easily separated from the atmospheric turbulence-related phase aberrations. We also show that wavefront sensing results depend on the extended target shape, surface roughness, and the outgoing beam intensity distribution on the target surface.

Modular high-voltage bias generator powered by dual-looped self-adaptive wireless power transmission.

PubMed

Xie, Kai; Huang, An-Feng; Li, Xiao-Ping; Guo, Shi-Zhong; Zhang, Han-Lu

2015-04-01

We proposed a modular high-voltage (HV) bias generator powered by a novel transmitter-sharing inductive coupled wireless power transmission technology, aimed to extend the generator's flexibility and configurability. To solve the problems caused through an uncertain number of modules, a dual-looped self-adaptive control method is proposed that is capable of tracking resonance frequency while maintaining a relatively stable induction voltage for each HV module. The method combines a phase-locked loop and a current feedback loop, which ensures an accurate resonance state and a relatively constant boost ratio for each module, simplifying the architecture of the boost stage and improving the total efficiency. The prototype was built and tested. The input voltage drop of each module is less than 14% if the module number varies from 3 to 10; resonance tracking is completed within 60 ms. The efficiency of the coupling structure reaches up to 95%, whereas the total efficiency approaches 73% for a rated output. Furthermore, this technology can be used in various multi-load wireless power supply applications.

Neutron stars in screened modified gravity: Chameleon versus dilaton

NASA Astrophysics Data System (ADS)

Brax, Philippe; Davis, Anne-Christine; Jha, Rahul

2017-04-01

We consider the scalar field profile around relativistic compact objects such as neutron stars for a range of modified gravity models with screening mechanisms of the chameleon and Damour-Polyakov types. We focus primarily on inverse power law chameleons and the environmentally dependent dilaton as examples of both mechanisms. We discuss the modified Tolman-Oppenheimer-Volkoff equation and then implement a relaxation algorithm to solve for the scalar profiles numerically. We find that chameleons and dilatons behave in a similar manner and that there is a large degeneracy between the modified gravity parameters and the neutron star equation of state. This is exemplified by the modifications to the mass-radius relationship for a variety of model parameters.

The association of transequatorial loops in the solar corona with coronal mass ejection onset

NASA Astrophysics Data System (ADS)

Glover, A.; Harra, L. K.; Matthews, S. A.; Foley, C. A.

2003-03-01

It has been shown that transequatorial loops can disappear in association with the onset of a coronal mass ejection (CME) (Khan & Hudson \\cite{khan}). We extend this result by considering a larger sample of transequatorial loop systems (TLS) to investigate their associated flaring and CME activity. We find 10 of a total 18 TLS considered here to be associated with flaring and CME onset originating from a connected active region. A total 33 cases of flaring and associated CME onset are observed from these 10 systems during their lifetime. We observe the influence of this activity on the TLS in each case. In contrast to the Khan & Hudson result, we find evidence that transequatorial loop eruption leading to soft X-ray brightening equivalent in temperature to a B-class flare is equally as common as dimming in the corona. Consequently we conclude that the scenario observed by Khan & Hudson is not universal and that other types of CME-TLS association occur. It was found that for transequatorial loops that were associated with CMEs the asymmetry in longitude was larger than for those that were not associated to a CME by 10o. In addition, the extent in latitude (as a measure of the loop length) was nearly twice as large for those TLS associated with CMEs than those that were not. The asymmetry in latitude was actually on average larger for those TLS not associated with CMEs, than for those that were. This suggests that differential rotation is not a major contributor to the production of CMEs from transequatorial loops. Instead it is more likely for a CME to be produced if the loop is long, and if there is a large asymmetry in longitude. The implications of these results for CME onset prediction are discussed.

Cyclic coordinate descent: A robotics algorithm for protein loop closure.

PubMed

Canutescu, Adrian A; Dunbrack, Roland L

2003-05-01

In protein structure prediction, it is often the case that a protein segment must be adjusted to connect two fixed segments. This occurs during loop structure prediction in homology modeling as well as in ab initio structure prediction. Several algorithms for this purpose are based on the inverse Jacobian of the distance constraints with respect to dihedral angle degrees of freedom. These algorithms are sometimes unstable and fail to converge. We present an algorithm developed originally for inverse kinematics applications in robotics. In robotics, an end effector in the form of a robot hand must reach for an object in space by altering adjustable joint angles and arm lengths. In loop prediction, dihedral angles must be adjusted to move the C-terminal residue of a segment to superimpose on a fixed anchor residue in the protein structure. The algorithm, referred to as cyclic coordinate descent or CCD, involves adjusting one dihedral angle at a time to minimize the sum of the squared distances between three backbone atoms of the moving C-terminal anchor and the corresponding atoms in the fixed C-terminal anchor. The result is an equation in one variable for the proposed change in each dihedral. The algorithm proceeds iteratively through all of the adjustable dihedral angles from the N-terminal to the C-terminal end of the loop. CCD is suitable as a component of loop prediction methods that generate large numbers of trial structures. It succeeds in closing loops in a large test set 99.79% of the time, and fails occasionally only for short, highly extended loops. It is very fast, closing loops of length 8 in 0.037 sec on average.

An improved fast acquisition phase frequency detector for high speed phase-locked loops

NASA Astrophysics Data System (ADS)

Zhang, Lei; Wang, Zongmin; Zhang, Tieliang; Peng, Xinmang

2018-04-01

Phase-locked loops (PLL) have been widely applied in many high-speed designs, such as microprocessors or communication systems. In this paper, an improved fast acquisition phase frequency detector for high speed phase-locked loops is proposed. An improved structure based on dynamic latch is used to eliminate the non-ideal effect such as dead zone and blind zone. And frequency dividers are utilized to vastly extend the phase difference detection range and enhance the operation frequency of the PLL. Proposed PFD has been implemented in 65nm CMOS technology, which occupies an area of 0.0016mm2 and consumes 1.5mW only. Simulation results demonstrate that maximum operation frequency can be up to 5GHz. In addition, the acquisition time of PLL using proposed PFD is 1.0us which is 2.6 times faster than that of the PLL using latch-based PFD without divider.

One-loop supergravity on AdS 4 × S 7/Z k and comparison with ABJM theory

DOE PAGES

Liu, James T.; Zhao, Wenli

2016-11-18

The large-N limit of ABJM theory is holographically dual to M-theory on AdS 4 × S 7/Z k. The 3-sphere partition function has been obtained via localization, and its leading behavior F ABJM (0) ~ k 1/2N 3/2 is exactly reproduced in the dual theory by tree-level supergravity. In this paper, we extend this comparison to the sub-leading O(N 0) order by computing the one-loop supergravity free energy as a function of k and comparing it with the ABJM result. Curiously, we find that the expressions do not match, with F SUGRA (1)~k 6, while F ABJM (1)~ k 2.more » Finally, this suggests that the low-energy approximation Z M-theory = Z SUGRA breaks down at one-loop order.« less

A new RISE-based adaptive control of PKMs: design, stability analysis and experiments

NASA Astrophysics Data System (ADS)

Bennehar, M.; Chemori, A.; Bouri, M.; Jenni, L. F.; Pierrot, F.

2018-03-01

This paper deals with the development of a new adaptive control scheme for parallel kinematic manipulators (PKMs) based on Rrbust integral of the sign of the error (RISE) control theory. Original RISE control law is only based on state feedback and does not take advantage of the modelled dynamics of the manipulator. Consequently, the overall performance of the resulting closed-loop system may be poor compared to modern advanced model-based control strategies. We propose in this work to extend RISE by including the nonlinear dynamics of the PKM in the control loop to improve its overall performance. More precisely, we augment original RISE control scheme with a model-based adaptive control term to account for the inherent nonlinearities in the closed-loop system. To demonstrate the relevance of the proposed controller, real-time experiments are conducted on the Delta robot, a three-degree-of-freedom (3-DOF) PKM.

One-loop renormalization of a gravity-scalar system

NASA Astrophysics Data System (ADS)

Park, I. Y.

2017-05-01

Extending the renormalizability proposal of the physical sector of 4D Einstein gravity, we have recently proposed renormalizability of the 3D physical sector of gravity-matter systems. The main goal of the present work is to conduct systematic one-loop renormalization of a gravity-matter system by applying our foliation-based quantization scheme. In this work we explicitly carry out renormalization of a gravity-scalar system with a Higgs-type potential. With the fluctuation part of the scalar field gauged away, the system becomes renormalizable through a metric field redefinition. We use dimensional regularization throughout. One of the salient aspects of our analysis is how the graviton propagator acquires the "mass" term. One-loop calculations lead to renormalization of the cosmological and Newton constants. We discuss other implications of our results as well: time-varying vacuum energy density and masses of the elementary particles as well as the potential relevance of Neumann boundary condition for black hole information.

Unifying Views of Autism Spectrum Disorders: A Consideration of Autoregulatory Feedback Loops

PubMed Central

Mullins, Caitlin; Fishell, Gord

2017-01-01

Understanding the mechanisms underlying autism spectrum disorders (ASD) is a challenging goal. Here we review recent progress on several fronts, including genetics, proteomics, biochemistry and electrophysiology, that raise motivation for forming a viable pathophysiological hypothesis. In place of a traditionally unidirectional progression, we put forward a framework that extends homeostatic hypotheses by explicitly emphasizing autoregulatory feedback loops and known synaptic biology. The regulated biological feature can be neuronal electrical activity, the collective strength of synapses onto a dendritic branch, the local concentration of a signaling molecule, or the relative strengths of synaptic excitation and inhibition. The sensor of the biological variable (which we have termed the homeostat) engages mechanisms that operate as negative feedback elements to keep the biological variable tightly confined. We categorize known ASD-associated gene products according to their roles in such feedback loops, and provide detailed commentary for exemplar genes within each module. PMID:26985722

Markov chain sampling of the O(n) loop models on the infinite plane

NASA Astrophysics Data System (ADS)

Herdeiro, Victor

2017-07-01

A numerical method was recently proposed in Herdeiro and Doyon [Phys. Rev. E 94, 043322 (2016), 10.1103/PhysRevE.94.043322] showing a precise sampling of the infinite plane two-dimensional critical Ising model for finite lattice subsections. The present note extends the method to a larger class of models, namely the O(n) loop gas models for n ∈(1 ,2 ] . We argue that even though the Gibbs measure is nonlocal, it is factorizable on finite subsections when sufficient information on the loops touching the boundaries is stored. Our results attempt to show that provided an efficient Markov chain mixing algorithm and an improved discrete lattice dilation procedure the planar limit of the O(n) models can be numerically studied with efficiency similar to the Ising case. This confirms that scale invariance is the only requirement for the present numerical method to work.

Hi-C and AIA observations of transverse magnetohydrodynamic waves in active regions

NASA Astrophysics Data System (ADS)

Morton, R. J.; McLaughlin, J. A.

2013-05-01

The recent launch of the High resolution Coronal imager (Hi-C) provided a unique opportunity of studying the EUV corona with unprecedented spatial resolution. We utilize these observations to investigate the properties of low-frequency (50-200 s) active region transverse waves, whose omnipresence had been suggested previously. The five-fold improvement in spatial resolution over SDO/AIA reveals coronal loops with widths 150-310 km and that these loops support transverse waves with displacement amplitudes <50 km. However, the results suggest that wave activity in the coronal loops is of low energy, with typical velocity amplitudes <3 km s-1. An extended time-series of SDO data suggests that low-energy wave behaviour is typical of the coronal structures both before and after the Hi-C observations. Appendix A and five movies associated to Figs. A.2-A.6 are available in electronic form at http://www.aanda.org

Crystal structure of the unactivated ribulose 1,5-bisphosphate carboxylase/oxygenase complexed with a transition state analog, 2-carboxy-D-arabinitol 1,5-bisphosphate.

PubMed Central

Zhang, K. Y.; Cascio, D.; Eisenberg, D.

1994-01-01

The crystal structure of unactivated ribulose 1,5-bisphosphate carboxylase/oxygenase from Nicotiana tabacum complexed with a transition state analog, 2-carboxy-D-arabinitol 1,5-bisphosphate, was determined to 2.7 A resolution by X-ray crystallography. The transition state analog binds at the active site in an extended conformation. As compared to the binding of the same analog in the activated enzyme, the analog binds in a reverse orientation. The active site Lys 201 is within hydrogen bonding distance of the carboxyl oxygen of the analog. Loop 6 (residues 330-339) remains open and flexible upon binding of the analog in the unactivated enzyme, in contrast to the closed and ordered loop 6 in the activated enzyme complex. The transition state analog is exposed to solvent due to the open conformation of loop 6. PMID:8142899

γ5 in the four-dimensional helicity scheme

NASA Astrophysics Data System (ADS)

Gnendiger, C.; Signer, A.

2018-05-01

We investigate the regularization-scheme dependent treatment of γ5 in the framework of dimensional regularization, mainly focusing on the four-dimensional helicity scheme (fdh). Evaluating distinctive examples, we find that for one-loop calculations, the recently proposed four-dimensional formulation (fdf) of the fdh scheme constitutes a viable and efficient alternative compared to more traditional approaches. In addition, we extend the considerations to the two-loop level and compute the pseudoscalar form factors of quarks and gluons in fdh. We provide the necessary operator renormalization and discuss at a practical level how the complexity of intermediate calculational steps can be reduced in an efficient way.

Embedded Relative Navigation Sensor Fusion Algorithms for Autonomous Rendezvous and Docking Missions

NASA Technical Reports Server (NTRS)

DeKock, Brandon K.; Betts, Kevin M.; McDuffie, James H.; Dreas, Christine B.

2008-01-01

bd Systems (a subsidiary of SAIC) has developed a suite of embedded relative navigation sensor fusion algorithms to enable NASA autonomous rendezvous and docking (AR&D) missions. Translational and rotational Extended Kalman Filters (EKFs) were developed for integrating measurements based on the vehicles' orbital mechanics and high-fidelity sensor error models and provide a solution with increased accuracy and robustness relative to any single relative navigation sensor. The filters were tested tinough stand-alone covariance analysis, closed-loop testing with a high-fidelity multi-body orbital simulation, and hardware-in-the-loop (HWIL) testing in the Marshall Space Flight Center (MSFC) Flight Robotics Laboratory (FRL).

Benchmark simulation Model no 2 in Matlab-simulink: towards plant-wide WWTP control strategy evaluation.

PubMed

Vreck, D; Gernaey, K V; Rosen, C; Jeppsson, U

2006-01-01

In this paper, implementation of the Benchmark Simulation Model No 2 (BSM2) within Matlab-Simulink is presented. The BSM2 is developed for plant-wide WWTP control strategy evaluation on a long-term basis. It consists of a pre-treatment process, an activated sludge process and sludge treatment processes. Extended evaluation criteria are proposed for plant-wide control strategy assessment. Default open-loop and closed-loop strategies are also proposed to be used as references with which to compare other control strategies. Simulations indicate that the BM2 is an appropriate tool for plant-wide control strategy evaluation.

Two-loop self-energy in the Lamb shift of the ground and excited states of hydrogenlike ions

NASA Astrophysics Data System (ADS)

Yerokhin, V. A.

2018-05-01

The two-loop self-energy correction to the Lamb shift of hydrogenlike ions is calculated for the 1 s , 2 s , and 2 p1 /2 states and nuclear charge numbers Z =30 -100 . The calculation is performed to all orders in the nuclear binding strength parameter Z α . As compared to previous calculations of this correction, numerical accuracy is improved by an order of magnitude and the region of the nuclear charges is extended. An analysis of the Z dependence of the obtained results demonstrates their consistency with the known Z α -expansion coefficients.

J-adaptive estimation with estimated noise statistics

NASA Technical Reports Server (NTRS)

Jazwinski, A. H.; Hipkins, C.

1973-01-01

The J-adaptive sequential estimator is extended to include simultaneous estimation of the noise statistics in a model for system dynamics. This extension completely automates the estimator, eliminating the requirement of an analyst in the loop. Simulations in satellite orbit determination demonstrate the efficacy of the sequential estimation algorithm.

Active parallel redundancy for electronic integrator-type control circuits

NASA Technical Reports Server (NTRS)

Peterson, R. A.

1971-01-01

Circuit extends concept of redundant feedback control from type-0 to type-1 control systems. Inactive channels are slaves to the active channel, if latter fails, it is rejected and slave channel is activated. High reliability and elimination of single-component catastrophic failure are important in closed-loop control systems.

Layout Slam with Model Based Loop Closure for 3d Indoor Corridor Reconstruction

NASA Astrophysics Data System (ADS)

Baligh Jahromi, A.; Sohn, G.; Jung, J.; Shahbazi, M.; Kang, J.

2018-05-01

In this paper, we extend a recently proposed visual Simultaneous Localization and Mapping (SLAM) techniques, known as Layout SLAM, to make it robust against error accumulations, abrupt changes of camera orientation and miss-association of newly visited parts of the scene to the previously visited landmarks. To do so, we present a novel technique of loop closing based on layout model matching; i.e., both model information (topology and geometry of reconstructed models) and image information (photometric features) are used to address a loop-closure detection. The advantages of using the layout-related information in the proposed loop-closing technique are twofold. First, it imposes a metric constraint on the global map consistency and, thus, adjusts the mapping scale drifts. Second, it can reduce matching ambiguity in the context of indoor corridors, where the scene is homogenously textured and extracting sufficient amount of distinguishable point features is a challenging task. To test the impact of the proposed technique on the performance of Layout SLAM, we have performed the experiments on wide-angle videos captured by a handheld camera. This dataset was collected from the indoor corridors of a building at York University. The obtained results demonstrate that the proposed method successfully detects the instances of loops while producing very limited trajectory errors.

Detailed ADM-based Modeling of Shock Retreat and X-ray Emission of τ Sco

NASA Astrophysics Data System (ADS)

Fletcher, C. L.; Petit, V.; Cohen, D. H.; Townsend, R. H.; Wade, G. A.

2018-01-01

Leveraging the improvement of spectropolarimeters over the past few decades, surveys have found that about 10% of OB-type stars host strong (˜ kG) and mostly dipolar surface magnetic fields. One B-type star, τ Sco, has a more complex surface magnetic field than the general population of OB stars. Interestingly, its X-ray luminosity is an order of magnitude higher than predicted from analytical models of magnetized winds. Previous studies of τ Sco's magnetosphere have predicted that the region of closed field loops should be located close to the stellar surface. However, the lack of X-ray variability and the location of the shock-heated plasma measured from forbidden-to-intercombination X-ray line ratios suggest that the hot plasma, and hence the closed magnetic loops, extend considerably farther from the stellar surface, implying a significantly lower mass loss rate than initially assumed. We present an adaptation of the Analytic Dynamical Magnetosphere model, describing the magnetic confinement of the stellar wind, for an arbitrary field loop configuration. This model is used to predict the shock-heated plasma temperatures for individual field loops, which are then compared to high resolution grating spectra from the Chandra X-ray Observatory. This comparison shows that larger closed magnetic loops are needed.

Endo-β-D-1,4-mannanase from Chrysonilia sitophila displays a novel loop arrangement for substrate selectivity.

PubMed

Gonçalves, Ana Maria D; Silva, Catarina S; Madeira, Tânia I; Coelho, Ricardo; de Sanctis, Daniele; San Romão, Maria Vitória; Bento, Isabel

2012-11-01

The crystal structure of wild-type endo-β-D-1,4-mannanase (EC 3.2.1.78) from the ascomycete Chrysonilia sitophila (CsMan5) has been solved at 1.40 Å resolution. The enzyme isolated directly from the source shows mixed activity as both an endo-glucanase and an endo-mannanase. CsMan5 adopts the (β/α)(8)-barrel fold that is well conserved within the GH5 family and has highest sequence and structural homology to the GH5 endo-mannanases. Superimposition with proteins of this family shows a unique structural arrangement of three surface loops of CsMan5 that stretch over the active centre, promoting an altered topography of the binding cleft. The most relevant feature results from the repositioning of a long loop at the extremity of the binding cleft, resulting in a shortened glycone-binding region with two subsites. The other two extended loops flanking the binding groove produce a narrower cleft compared with the wide architecture observed in GH5 homologues. Two aglycone subsites (+1 and +2) are identified and a nonconserved tryptophan (Trp271) at the +1 subsite may offer steric hindrance. Taken together, these findings suggest that the discrimination of mannan substrates is achieved through modified loop length and structure.

Interacting cytoplasmic loops of subunits a and c of Escherichia coli F1F0 ATP synthase gate H+ transport to the cytoplasm.

PubMed

Steed, P Ryan; Kraft, Kaitlin A; Fillingame, Robert H

2014-11-25

H(+)-transporting F1F0 ATP synthase catalyzes the synthesis of ATP via coupled rotary motors within F0 and F1. H(+) transport at the subunit a-c interface in transmembranous F0 drives rotation of a cylindrical c10 oligomer within the membrane, which is coupled to rotation of subunit γ within the α3β3 sector of F1 to mechanically drive ATP synthesis. F1F0 functions in a reversible manner, with ATP hydrolysis driving H(+) transport. ATP-driven H(+) transport in a select group of cysteine mutants in subunits a and c is inhibited after chelation of Ag(+) and/or Cd(+2) with the substituted sulfhydryl groups. The H(+) transport pathway mapped via these Ag(+)(Cd(+2))-sensitive Cys extends from the transmembrane helices (TMHs) of subunits a and c into cytoplasmic loops connecting the TMHs, suggesting these loop regions could be involved in gating H(+) release to the cytoplasm. Here, using select loop-region Cys from the single cytoplasmic loop of subunit c and multiple cytoplasmic loops of subunit a, we show that Cd(+2) directly inhibits passive H(+) transport mediated by F0 reconstituted in liposomes. Further, in extensions of previous studies, we show that the regions mediating passive H(+) transport can be cross-linked to each other. We conclude that the loop-regions in subunits a and c that are implicated in H(+) transport likely interact in a single structural domain, which then functions in gating H(+) release to the cytoplasm.

GIANT Hα NEBULA SURROUNDING THE STARBURST MERGER NGC 6240

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yoshida, Michitoshi; Yagi, Masafumi; Komiyama, Yutaka

We revealed the detailed structure of a vastly extended Hα-emitting nebula (“Hα nebula”) surrounding the starburst/merging galaxy NGC 6240 by deep narrow-band imaging observations with the Subaru Suprime-Cam. The extent of the nebula is ∼90 kpc in diameter and the total Hα luminosity amounts to L{sub Hα} ≈ 1.6 × 10{sup 42} erg s{sup −1}. The volume filling factor and the mass of the warm ionized gas are ∼10{sup −4}–10{sup −5} and ∼5 × 10{sup 8} M{sub ⊙}, respectively. The nebula has a complicated structure, which includes numerous filaments, loops, bubbles, and knots. We found that there is a tight spatial correlation between the Hαmore » nebula and the extended soft-X-ray-emitting gas, both in large and small scales. The overall morphology of the nebula is dominated by filamentary structures radially extending from the center of the galaxy. A large-scale bipolar bubble extends along the minor axis of the main stellar disk. The morphology strongly suggests that the nebula was formed by intense outflows—superwinds—driven by starbursts. We also found three bright knots embedded in a looped filament of ionized gas that show head-tail morphologies in both emission-line and continuum, suggesting close interactions between the outflows and star-forming regions. Based on the morphology and surface brightness distribution of the Hα nebula, we propose the scenario that three major episodes of starburst/superwind activities, which were initiated ∼10{sup 2} Myr ago, formed the extended ionized gas nebula of NGC 6240.« less

On relativistic generalization of Perelman's W-entropy and thermodynamic description of gravitational fields and cosmology

NASA Astrophysics Data System (ADS)

Ruchin, Vyacheslav; Vacaru, Olivia; Vacaru, Sergiu I.

2017-03-01

Using double 2+2 and 3+1 nonholonomic fibrations on Lorentz manifolds, we extend the concept of W-entropy for gravitational fields in general relativity (GR). Such F- and W-functionals were introduced in the Ricci flow theory of three dimensional (3-d) Riemannian metrics by Perelman (the entropy formula for the Ricci flow and its geometric applications. arXiv:math.DG/0211159). Non-relativistic 3-d Ricci flows are characterized by associated statistical thermodynamical values determined by W-entropy. Generalizations for geometric flows of 4-d pseudo-Riemannian metrics are considered for models with local thermodynamical equilibrium and separation of dissipative and non-dissipative processes in relativistic hydrodynamics. The approach is elaborated in the framework of classical field theories (relativistic continuum and hydrodynamic models) without an underlying kinetic description, which will be elaborated in other work. The 3+1 splitting allows us to provide a general relativistic definition of gravitational entropy in the Lyapunov-Perelman sense. It increases monotonically as structure forms in the Universe. We can formulate a thermodynamic description of exact solutions in GR depending, in general, on all spacetime coordinates. A corresponding 2+2 splitting with nonholonomic deformation of linear connection and frame structures is necessary for generating in very general form various classes of exact solutions of the Einstein and general relativistic geometric flow equations. Finally, we speculate on physical macrostates and microstate interpretations of the W-entropy in GR, geometric flow theories and possible connections to string theory (a second unsolved problem also contained in Perelman's work) in Polyakov's approach.

Natural polypeptide scaffolds: beta-sheets, beta-turns, and beta-hairpins.

PubMed

Rotondi, Kenneth S; Gierasch, Lila M

2006-01-01

This paper provides an introduction to fundamental conformational states of polypeptides in the beta-region of phi,psi space, in which the backbone is extended near to its maximal length, and to more complex architectures in which extended segments are linked by turns and loops. There are several variants on these conformations, and they comprise versatile scaffolds for presentation of side chains and backbone amides for molecular recognition and designed catalysts. In addition, the geometry of these fundamental folds can be readily mimicked in peptidomimetics. Copyright 2005 Wiley Periodicals, Inc.

Heterodyne optical phase-locking of extended-cavity semiconductor lasers at 9 GHz

NASA Astrophysics Data System (ADS)

Santarelli, G.; Clairon, A.; Lea, S. N.; Tino, G. M.

1994-01-01

In order to stimulate atomic velocity-selective Raman transitions on the 852 nm caesium D 2 line in an atomic fountain clock, two extended-cavity diode lasers have been optically phase-locked at a frequency offset of 9.192 GHz. The measured linewidth (fwhm) of the free-running lasers is 50 kHz. The phase-locked loop bandwidth, evaluated by observing the frequency noise spectrum, is 3.7 MHz and the phase error variance is found to be no more than 4 × 10 -3 rad 2.

Quantum gravity extension of the inflationary scenario.

PubMed

Agullo, Ivan; Ashtekar, Abhay; Nelson, William

2012-12-21

Since the standard inflationary paradigm is based on quantum field theory on classical space-times, it excludes the Planck era. Using techniques from loop quantum gravity, the paradigm is extended to a self-consistent theory from the Planck scale to the onset of slow roll inflation, covering some 11 orders of magnitude in energy density and curvature. This preinflationary dynamics also opens a small window for novel effects, e.g., a source for non-Gaussianities, which could extend the reach of cosmological observations to the deep Planck regime of the early Universe.

A subsumptive, hierarchical, and distributed vision-based architecture for smart robotics.

PubMed

DeSouza, Guilherme N; Kak, Avinash C

2004-10-01

We present a distributed vision-based architecture for smart robotics that is composed of multiple control loops, each with a specialized level of competence. Our architecture is subsumptive and hierarchical, in the sense that each control loop can add to the competence level of the loops below, and in the sense that the loops can present a coarse-to-fine gradation with respect to vision sensing. At the coarsest level, the processing of sensory information enables a robot to become aware of the approximate location of an object in its field of view. On the other hand, at the finest end, the processing of stereo information enables a robot to determine more precisely the position and orientation of an object in the coordinate frame of the robot. The processing in each module of the control loops is completely independent and it can be performed at its own rate. A control Arbitrator ranks the results of each loop according to certain confidence indices, which are derived solely from the sensory information. This architecture has clear advantages regarding overall performance of the system, which is not affected by the "slowest link," and regarding fault tolerance, since faults in one module does not affect the other modules. At this time we are able to demonstrate the utility of the architecture for stereoscopic visual servoing. The architecture has also been applied to mobile robot navigation and can easily be extended to tasks such as "assembly-on-the-fly."

The application of cluster analysis in the intercomparison of loop structures in RNA.

PubMed

Huang, Hung-Chung; Nagaswamy, Uma; Fox, George E

2005-04-01

We have developed a computational approach for the comparison and classification of RNA loop structures. Hairpin or interior loops identified in atomic resolution RNA structures were intercompared by conformational matching. The root-mean-square deviation (RMSD) values between all pairs of RNA fragments of interest, even if from different molecules, are calculated. Subsequently, cluster analysis is performed on the resulting matrix of RMSD distances using the unweighted pair group method with arithmetic mean (UPGMA). The cluster analysis objectively reveals groups of folds that resemble one another. To demonstrate the utility of the approach, a comprehensive analysis of all the terminal hairpin tetraloops that have been observed in 15 RNA structures that have been determined by X-ray crystallography was undertaken. The method found major clusters corresponding to the well-known GNRA and UNCG types. In addition, two tetraloops with the unusual primary sequence UMAC (M is A or C) were successfully assigned to the GNRA cluster. Larger loop structures were also examined and the clustering results confirmed the occurrence of variations of the GNRA and UNCG tetraloops in these loops and provided a systematic means for locating them. Nineteen examples of larger loops that closely resemble either the GNRA or UNCG tetraloop were found in the large ribosomal RNAs. When the clustering approach was extended to include all structures in the SCOR database, novel relationships were detected including one between the ANYA motif and a less common folding of the GAAA tetraloop sequence.

The application of cluster analysis in the intercomparison of loop structures in RNA

PubMed Central

HUANG, HUNG-CHUNG; NAGASWAMY, UMA; FOX, GEORGE E.

2005-01-01

We have developed a computational approach for the comparison and classification of RNA loop structures. Hairpin or interior loops identified in atomic resolution RNA structures were intercompared by conformational matching. The root-mean-square deviation (RMSD) values between all pairs of RNA fragments of interest, even if from different molecules, are calculated. Subsequently, cluster analysis is performed on the resulting matrix of RMSD distances using the unweighted pair group method with arithmetic mean (UPGMA). The cluster analysis objectively reveals groups of folds that resemble one another. To demonstrate the utility of the approach, a comprehensive analysis of all the terminal hairpin tetraloops that have been observed in 15 RNA structures that have been determined by X-ray crystallography was undertaken. The method found major clusters corresponding to the well-known GNRA and UNCG types. In addition, two tetraloops with the unusual primary sequence UMAC (M is A or C) were successfully assigned to the GNRA cluster. Larger loop structures were also examined and the clustering results confirmed the occurrence of variations of the GNRA and UNCG tetraloops in these loops and provided a systematic means for locating them. Nineteen examples of larger loops that closely resemble either the GNRA or UNCG tetraloop were found in the large ribosomal RNAs. When the clustering approach was extended to include all structures in the SCOR database, novel relationships were detected including one between the ANYA motif and a less common folding of the GAAA tetraloop sequence. PMID:15769871

Iron Isotopic Fractionation in Earth's Lower Mantle

NASA Astrophysics Data System (ADS)

Yang, H.; Lin, J. F.; Hu, M. Y.; Bi, W.; Zhao, J.; Alp, E. E.; Roskosz, M.; Dauphas, N.; Okuchi, T.

2017-12-01

The Earth's bulk chemical composition is vital for deciphering the origin of this planet. Our estimation of the iron isotopic composition of the bulk Earth relies on the iron isotopic composition difference between the metallic core and silicate mantle. Previous studies1,2,3 on this fractionation scale have mostly focused on the alloying effects of light elements in the iron metal phases, while the pressure effects of the silicate mantle phases especially due to iron partitioning4 in the lower mantle minerals have not been fully addressed. For instance, Polyakov (2009) simply assumed equal iron distribution between ferropericlase and post-perovskite in his model. Shahar et al. (2016) only used bridgmanite as a proxy for the mantle while another lower mantle mineral ferropericlase was neglected. Here we have investigated the force constant of iron bonds in lower-mantle ferropericlase and bridgmanite crystals up to 104GPa using NRIXS(Nuclear Resonant Inelastic X-ray Scattering) and SMS(Synchrotron Mössbauer Spectroscopy) in a diamond anvil cell at sector-3 of the Advance Photon Source. These results are used to evaluate the pressure effects as well as the spin/valence states of iron5,6 on the force constant of iron bonds and the iron isotope distributions within the lower mantle and at the core-mantle boundary. We found that the liquid-solid iron isotopic fractionation during magma ocean crystallization was limited, however, the inter-mineral fractionation between ferropericlase and bridgmanite could be significant influenced by the spin/valence states at the lowermost mantle conditions. 1.Polyakov, V. B. Science 323, 912-914 (2009). 2.Shahar, A. et al. Science 352, 580-582 (2016). 3.Liu, J. et al. Nat. Commun. 8, 14377 (2017). 4.Irifune, T. et al. Science 327, 193-195 (2010). 5.Lin, J. F., Speziale, S., Mao, Z. & Marquardt, Rev. Geophys. 51, 244-275 (2013). 6.Mao, Z. et al. Am. Mineral. 102 (2017).

Enzymatic properties of a GH19 chitinase isolated from rice lacking a major loop structure involved in chitin binding.

PubMed

Tanaka, Jun; Fukamizo, Tamo; Ohnuma, Takayuki

2017-05-01

The catalytic domains of family GH19 chitinases have been found to consist of a conserved, α-helical core-region and different numbers (1-6) of loop structures, located at both ends of the substrate-binding groove and which extend over the glycon- and aglycon-binding sites. We expressed, purified and enzymatically characterized a GH19 chitinase from rice, Oryza sativa L. cv. Nipponbare (OsChia2a), lacking a major loop structure (loop III) connected to the functionally important β-stranded region. The new enzyme thus contained the five remaining loop structures (loops I, II, IV, V and C-term). The OsChia2a recombinant protein catalyzed hydrolysis of chitin oligosaccharides, (GlcNAc)n (n = 3-6), with inversion of anomeric configuration, indicating that OsChia2a correctly folded without loop III. From thermal unfolding experiments and calorimetric titrations using the inactive OsChia2a mutant (OsChia2a-E68Q), in which the catalytic residue Glu68 was mutated to glutamine, we found that the binding affinities towards (GlcNAc)n (n = 2-6) were almost proportional to the degree of polymerization of (GlcNAc)n, but were much lower than those obtained for a moss GH19 chitinase having only loop III [Ohnuma T, Sørlie M, Fukuda T, Kawamoto N, Taira T, Fukamizo T. 2011. Chitin oligosaccharide binding to a family GH19 chitinase from the moss, Bryum coronatum. FEBS J. 278:3991-4001]. Nevertheless, OsChia2a exhibited significant antifungal activity. It appears that loop III connected to the β-stranded region is important for (GlcNAc)n binding, but is not essential for antifungal activity. © The Author 2017. Published by Oxford University Press. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

3D-Stereoscopic Analysis of Solar Active Region Loops. 2; SoHo/EIT Observations at Temperatures of 1.5-2.5 MK

NASA Technical Reports Server (NTRS)

Aschwanden, Markus J.; Alexander, David; Hurlburt, Neal; Newmark, Jeffrey S.; Neupert, Werner M.; Klimchuk, J. A.; Gary, G. Allen

1999-01-01

In this paper we study the three-dimensional (3D) structure of hot (T(sub e) approximately equals 1.5 - 2.5 MK) loops in solar active region NOAA 7986, observed on 1996 August 30 with the Extreme-ultraviolet Imaging Telescope (EIT) onboard the Solar and Heliospheric Observatory (SoHO). This complements a first study on cooler (T(sub e) approximately equals 1.0 - 1.5 MK) loops of the same active region, using the same method of Dynamic Stereoscopy to reconstruct the 3D geometry. We reconstruct the 3D-coordinates x(s), y(s), z(s), the density n(sub e)(s), and temperature profile T(sub e)(s) of 35 individual loop segments (as function of the loop coordinate s) using EIT 195 A and 284 A images. The major findings are: (1) All loops are found to be in hydrostatic equilibrium, in the entire temperature regime of T(sub e) = 1.0 - 2.5 MK; (2) The analyzed loops have a height of 2-3 scale heights, and thus only segments extending over about one vertical scale height have sufficient emission measure contrast for detection; (3) The temperature gradient over the lowest scale height is of order dT/ds is approximately 1 - 4 K/km; (4) The radiative loss rate is found to exceed the conductive loss rate by about two orders or magnitude, making thermal conduction negligible to explain the temperature structure of the loops; (5) A steady-state can only be achieved when the heating rate E(sub H) matches the radiative loss rate in hydrostatic equilibrium, requiring a heat deposition length lambda(sub H) of the half density scale height lambda, predicting a scaling law with the loop base pressure, EH varies as p(sub 0 exp 2). This favors coronal heating mechanisms that operate near the loop footpoints; (6) We find a reciprocal correlation between the loop pressure p(sub 0) and loop length L, i.e. p(sub 0) varies as 1/L, implying a scaling law of the steady-state requirement with loop length, i.e. E(sub H ) varies as 1/L(exp 2). The heating rate shows no correlation with the loop-aligned magnetic field component B(sub z) at the footpoints, but is correlated with the azimuthal field B(sub phi) = Bz(RDelta Phi/L) of a twisted loop, and is thus consistent with heating mechanisms based on field-aligned currents.

Long-term detection of Parkinsonian tremor activity from subthalamic nucleus local field potentials.

PubMed

Houston, Brady; Blumenfeld, Zack; Quinn, Emma; Bronte-Stewart, Helen; Chizeck, Howard

2015-01-01

Current deep brain stimulation paradigms deliver continuous stimulation to deep brain structures to ameliorate the symptoms of Parkinson's disease. This continuous stimulation has undesirable side effects and decreases the lifespan of the unit's battery, necessitating earlier replacement. A closed-loop deep brain stimulator that uses brain signals to determine when to deliver stimulation based on the occurrence of symptoms could potentially address these drawbacks of current technology. Attempts to detect Parkinsonian tremor using brain signals recorded during the implantation procedure have been successful. However, the ability of these methods to accurately detect tremor over extended periods of time is unknown. Here we use local field potentials recorded during a deep brain stimulation clinical follow-up visit 1 month after initial programming to build a tremor detection algorithm and use this algorithm to detect tremor in subsequent visits up to 8 months later. Using this method, we detected the occurrence of tremor with accuracies between 68-93%. These results demonstrate the potential of tremor detection methods for efficacious closed-loop deep brain stimulation over extended periods of time.

Mathematical Modeling of the Pituitary–Thyroid Feedback Loop: Role of a TSH-T3-Shunt and Sensitivity Analysis

PubMed Central

Berberich, Julian; Dietrich, Johannes W.; Hoermann, Rudolf; Müller, Matthias A.

2018-01-01

Despite significant progress in assay technology, diagnosis of functional thyroid disorders may still be a challenge, as illustrated by the vague upper limit of the reference range for serum thyrotropin (TSH). Diagnostical problems also apply to subjects affected by syndrome T, i.e., those 10% of hypothyroid patients who continue to suffer from poor quality of life despite normal TSH concentrations under substitution therapy with levothyroxine (L-T4). In this paper, we extend a mathematical model of the pituitary–thyroid feedback loop in order to improve the understanding of thyroid hormone homeostasis. In particular, we incorporate a TSH-T3-shunt inside the thyroid, whose existence has recently been demonstrated in several clinical studies. The resulting extended model shows good accordance with various clinical observations, such as a circadian rhythm in free peripheral triiodothyronine (FT3). Furthermore, we perform a sensitivity analysis of the derived model, revealing the dependence of TSH and hormone concentrations on different system parameters. The results have implications for clinical interpretation of thyroid tests, e.g., in the differential diagnosis of subclinical hypothyroidism. PMID:29619006

Mathematical Modeling of the Pituitary-Thyroid Feedback Loop: Role of a TSH-T3-Shunt and Sensitivity Analysis.

PubMed

Berberich, Julian; Dietrich, Johannes W; Hoermann, Rudolf; Müller, Matthias A

2018-01-01

Despite significant progress in assay technology, diagnosis of functional thyroid disorders may still be a challenge, as illustrated by the vague upper limit of the reference range for serum thyrotropin ( TSH ). Diagnostical problems also apply to subjects affected by syndrome T, i.e., those 10% of hypothyroid patients who continue to suffer from poor quality of life despite normal TSH concentrations under substitution therapy with levothyroxine ( L - T 4 ). In this paper, we extend a mathematical model of the pituitary-thyroid feedback loop in order to improve the understanding of thyroid hormone homeostasis. In particular, we incorporate a TSH - T 3 -shunt inside the thyroid, whose existence has recently been demonstrated in several clinical studies. The resulting extended model shows good accordance with various clinical observations, such as a circadian rhythm in free peripheral triiodothyronine ( FT 3 ). Furthermore, we perform a sensitivity analysis of the derived model, revealing the dependence of TSH and hormone concentrations on different system parameters. The results have implications for clinical interpretation of thyroid tests, e.g., in the differential diagnosis of subclinical hypothyroidism.

Antigenic peptides containing large PEG loops designed to extend out of the HLA-A2 binding site form stable complexes with class I major histocompatibility complex molecules.

PubMed Central

Bouvier, M; Wiley, D C

1996-01-01

Recognition of peptides bound to class I major histocompatibility complex (MHC) molecules by specific receptors on T cells regulates the development and activity of the cellular immune system. We have designed and synthesized de novo cyclic peptides that incorporate PEG in the ring structure for binding to class I MHC molecules. The large PEG loops are positioned to extend out of the peptide binding site, thus creating steric effects aimed at preventing the recognition of class I MHC complexes by T-cell receptors. Peptides were synthesized and cyclized on polymer support using high molecular weight symmetrical PEG dicarboxylic acids to link the side chains of lysine residues substituted at positions 4 and 8 in the sequence of the HLA-A2-restricted human T-lymphotrophic virus type I Tax peptide. Cyclic peptides promoted the in vitro folding and assembly of HLA-A2 complexes. Thermal denaturation studies using circular dichroism spectroscopy showed that these complexes are as stable as complexes formed with antigenic peptides. Images Fig. 2 Fig. 4 PMID:8643447

Nicotiana alata Defensin Chimeras Reveal Differences in the Mechanism of Fungal and Tumor Cell Killing and an Enhanced Antifungal Variant

PubMed Central

Payne, Jennifer A. E.; Hayes, Brigitte M. E.; Durek, Thomas; Craik, David J.; Shafee, Thomas M. A.; Poon, Ivan K. H.; Hulett, Mark D.; van der Weerden, Nicole L.

2016-01-01

The plant defensin NaD1 is a potent antifungal molecule that also targets tumor cells with a high efficiency. We examined the features of NaD1 that contribute to these two activities by producing a series of chimeras with NaD2, a defensin that has relatively poor activity against fungi and no activity against tumor cells. All plant defensins have a common tertiary structure known as a cysteine-stabilized α-β motif which consists of an α helix and a triple-stranded β-sheet stabilized by four disulfide bonds. The chimeras were produced by replacing loops 1 to 7, the sequences between each of the conserved cysteine residues on NaD1, with the corresponding loops from NaD2. The loop 5 swap replaced the sequence motif (SKILRR) that mediates tight binding with phosphatidylinositol 4,5-bisphosphate [PI(4,5)P2] and is essential for the potent cytotoxic effect of NaD1 on tumor cells. Consistent with previous reports, there was a strong correlation between PI(4,5)P2 binding and the tumor cell killing activity of all of the chimeras. However, this correlation did not extend to antifungal activity. Some of the loop swap chimeras were efficient antifungal molecules, even though they bound poorly to PI(4,5)P2, suggesting that additional mechanisms operate against fungal cells. Unexpectedly, the loop 1B swap chimera was 10 times more active than NaD1 against filamentous fungi. This led to the conclusion that defensin loops have evolved as modular components that combine to make antifungal molecules with variable mechanisms of action and that artificial combinations of loops can increase antifungal activity compared to that of the natural variants. PMID:27503651

Coronal loop seismology using damping of standing kink oscillations by mode coupling. II. additional physical effects and Bayesian analysis

NASA Astrophysics Data System (ADS)

Pascoe, D. J.; Anfinogentov, S.; Nisticò, G.; Goddard, C. R.; Nakariakov, V. M.

2017-04-01

Context. The strong damping of kink oscillations of coronal loops can be explained by mode coupling. The damping envelope depends on the transverse density profile of the loop. Observational measurements of the damping envelope have been used to determine the transverse loop structure which is important for understanding other physical processes such as heating. Aims: The general damping envelope describing the mode coupling of kink waves consists of a Gaussian damping regime followed by an exponential damping regime. Recent observational detection of these damping regimes has been employed as a seismological tool. We extend the description of the damping behaviour to account for additional physical effects, namely a time-dependent period of oscillation, the presence of additional longitudinal harmonics, and the decayless regime of standing kink oscillations. Methods: We examine four examples of standing kink oscillations observed by the Atmospheric Imaging Assembly (AIA) onboard the Solar Dynamics Observatory (SDO). We use forward modelling of the loop position and investigate the dependence on the model parameters using Bayesian inference and Markov chain Monte Carlo (MCMC) sampling. Results: Our improvements to the physical model combined with the use of Bayesian inference and MCMC produce improved estimates of model parameters and their uncertainties. Calculation of the Bayes factor also allows us to compare the suitability of different physical models. We also use a new method based on spline interpolation of the zeroes of the oscillation to accurately describe the background trend of the oscillating loop. Conclusions: This powerful and robust method allows for accurate seismology of coronal loops, in particular the transverse density profile, and potentially reveals additional physical effects.

Simulations of Solar Jets Confined by Coronal Loops

NASA Technical Reports Server (NTRS)

Wyper, P. F.; De Vore, C. R.

2016-01-01

Coronal jets are collimated, dynamic events that occur over a broad range of spatial scales in the solar corona. In the open magnetic field of coronal holes, jets form quasi-radial spires that can extend far out into the heliosphere, while in closed-field regions the jet outflows are confined to the corona. We explore the application of the embedded-bipole model to jets occurring in closed coronal loops. In this model, magnetic free energy is injected slowly by footpoint motions that introduce twist within the closed dome of the jet source region, and is released rapidly by the onset of an ideal kink-like instability. Two length scales characterize the system: the width (N) of the jet source region and the footpoint separation (L) of the coronal loop that envelops the jet source. We find that both the conditions for initiation and the subsequent dynamics are highly sensitive to the ratio L/N. The longest-lasting and most energetic jets occur along long coronal loops with large L/N ratios, and share many of the features of open-field jets, while smaller L/N ratios produce shorter-duration, less energetic jets that are affected by reflections from the far-loop footpoint. We quantify the transition between these behaviors and show that our model replicates key qualitative and quantitative aspects of both quiet Sun and active-region loop jets. We also find that there connection between the closed dome and surrounding coronal loop is very extensive: the cumulative reconnected flux at least matches the total flux beneath the dome for small L/N, and is more than double that value for large L/N.

SIMULATIONS OF SOLAR JETS CONFINED BY CORONAL LOOPS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wyper, P. F.; DeVore, C. R., E-mail: peter.f.wyper@nasa.gov, E-mail: c.richard.devore@nasa.gov

Coronal jets are collimated, dynamic events that occur over a broad range of spatial scales in the solar corona. In the open magnetic field of coronal holes, jets form quasi-radial spires that can extend far out into the heliosphere, while in closed-field regions the jet outflows are confined to the corona. We explore the application of the embedded-bipole model to jets occurring in closed coronal loops. In this model, magnetic free energy is injected slowly by footpoint motions that introduce twist within the closed dome of the jet source region, and is released rapidly by the onset of an idealmore » kink-like instability. Two length scales characterize the system: the width (N) of the jet source region and the footpoint separation (L) of the coronal loop that envelops the jet source. We find that both the conditions for initiation and the subsequent dynamics are highly sensitive to the ratio L/N. The longest-lasting and most energetic jets occur along long coronal loops with large L/N ratios, and share many of the features of open-field jets, while smaller L/N ratios produce shorter-duration, less energetic jets that are affected by reflections from the far-loop footpoint. We quantify the transition between these behaviors and show that our model replicates key qualitative and quantitative aspects of both quiet Sun and active-region loop jets. We also find that the reconnection between the closed dome and surrounding coronal loop is very extensive: the cumulative reconnected flux at least matches the total flux beneath the dome for small L/N, and is more than double that value for large L/N.« less

EKF-Based Enhanced Performance Controller Design for Nonlinear Stochastic Systems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhou, Yuyang; Zhang, Qichun; Wang, Hong

In this paper, a novel control algorithm is presented to enhance the performance of tracking property for a class of non-linear dynamic stochastic systems with unmeasurable variables. To minimize the entropy of tracking errors without changing the existing closed loop with PI controller, the enhanced performance loop is constructed based on the state estimation by extended Kalman Filter and the new controller is designed by full state feedback following this presented control algorithm. Besides, the conditions are obtained for the stability analysis in the mean square sense. In the end, the comparative simulation results are given to illustrate the effectivenessmore » of proposed control algorithm.« less

Dynamics of flare sprays. [in sun

NASA Technical Reports Server (NTRS)

Tandberg-Hanssen, E.; Martin, S. F.; Hansen, R. T.

1980-01-01

During solar cycle No. 20 new insight into the flare-spray phenomenon has been attained due to several innovations in solar optical-observing techniques (higher spatial resolution cinema-photography, tunable passband filters, multislit spectroscopy and extended angular field coronagraphs). From combined analysis of 13 well-observed sprays which occurred between 1969-1974 it is concluded that (1) the spray material originates from a preexisting active region filament which undergoes increased absorption some tens of minutes prior to the abrupt chromospheric brightening at the 'flare-start', and (2) the spray material is confined within a steadily expanding, loop-shaped (presumable magnetically controlled) envelope with part of the materials draining back down along one or both legs of the loop.

Loop Mirror Laser Neural Network with a Fast Liquid-Crystal Display

NASA Astrophysics Data System (ADS)

Mos, Evert C.; Schleipen, Jean J. H. B.; de Waardt, Huug; Khoe, Djan G. D.

1999-07-01

In our laser neural network (LNN) all-optical threshold action is obtained by application of controlled optical feedback to a laser diode. Here an extended experimental LNN is presented with as many as 32 neurons and 12 inputs. In the setup we use a fast liquid-crystal display to implement an optical matrix vector multiplier. This display, based on ferroelectric liquid-crystal material, enables us to present 125 training examples s to the LNN. To maximize the optical feedback efficiency of the setup, a loop mirror is introduced. We use a -rule learning algorithm to train the network to perform a number of functions toward the application area of telecommunication data switching.

Thin metal electrode for AMTEC

NASA Technical Reports Server (NTRS)

Williams, Roger M. (Inventor); Wheeler, Bob L. (Inventor); Jefferies-Nakamura, Barbara (Inventor); Lamb, James L. (Inventor); Bankston, C. Perry (Inventor); Cole, Terry (Inventor)

1989-01-01

An electrode having higher power output is formed of a thin, porous film (less than 1 micrometer) applied to a beta-alumina solid electrolyte (BASE). The electrode includes an open grid, current collector such as a series of thin, parallel, grid lines applied to the thin film and a plurality of cross-members such as loop of metal wire surrounding the BASE tube. The loops are electrically connected by a bus wire. The overall impedance of the electrode considering both the contributions from the bulk BASE and the porous electrode BASE interface is low, about 0.5 OHM/cm.sup.2 and power densities of over 0.3 watt/cm.sup.2 for extended periods.

A methodology for designing robust multivariable nonlinear control systems. Ph.D. Thesis

NASA Technical Reports Server (NTRS)

Grunberg, D. B.

1986-01-01

A new methodology is described for the design of nonlinear dynamic controllers for nonlinear multivariable systems providing guarantees of closed-loop stability, performance, and robustness. The methodology is an extension of the Linear-Quadratic-Gaussian with Loop-Transfer-Recovery (LQG/LTR) methodology for linear systems, thus hinging upon the idea of constructing an approximate inverse operator for the plant. A major feature of the methodology is a unification of both the state-space and input-output formulations. In addition, new results on stability theory, nonlinear state estimation, and optimal nonlinear regulator theory are presented, including the guaranteed global properties of the extended Kalman filter and optimal nonlinear regulators.

Modern CACSD using the Robust-Control Toolbox

NASA Technical Reports Server (NTRS)

Chiang, Richard Y.; Safonov, Michael G.

1989-01-01

The Robust-Control Toolbox is a collection of 40 M-files which extend the capability of PC/PRO-MATLAB to do modern multivariable robust control system design. Included are robust analysis tools like singular values and structured singular values, robust synthesis tools like continuous/discrete H(exp 2)/H infinity synthesis and Linear Quadratic Gaussian Loop Transfer Recovery methods and a variety of robust model reduction tools such as Hankel approximation, balanced truncation and balanced stochastic truncation, etc. The capabilities of the toolbox are described and illustated with examples to show how easily they can be used in practice. Examples include structured singular value analysis, H infinity loop-shaping and large space structure model reduction.

Performance Enhancement for a GPS Vector-Tracking Loop Utilizing an Adaptive Iterated Extended Kalman Filter

PubMed Central

Chen, Xiyuan; Wang, Xiying; Xu, Yuan

2014-01-01

This paper deals with the problem of state estimation for the vector-tracking loop of a software-defined Global Positioning System (GPS) receiver. For a nonlinear system that has the model error and white Gaussian noise, a noise statistics estimator is used to estimate the model error, and based on this, a modified iterated extended Kalman filter (IEKF) named adaptive iterated Kalman filter (AIEKF) is proposed. A vector-tracking GPS receiver utilizing AIEKF is implemented to evaluate the performance of the proposed method. Through road tests, it is shown that the proposed method has an obvious accuracy advantage over the IEKF and Adaptive Extended Kalman filter (AEKF) in position determination. The results show that the proposed method is effective to reduce the root-mean-square error (RMSE) of position (including longitude, latitude and altitude). Comparing with EKF, the position RMSE values of AIEKF are reduced by about 45.1%, 40.9% and 54.6% in the east, north and up directions, respectively. Comparing with IEKF, the position RMSE values of AIEKF are reduced by about 25.7%, 19.3% and 35.7% in the east, north and up directions, respectively. Compared with AEKF, the position RMSE values of AIEKF are reduced by about 21.6%, 15.5% and 30.7% in the east, north and up directions, respectively. PMID:25502124

Performance enhancement for a GPS vector-tracking loop utilizing an adaptive iterated extended Kalman filter.

PubMed

Chen, Xiyuan; Wang, Xiying; Xu, Yuan

2014-12-09

This paper deals with the problem of state estimation for the vector-tracking loop of a software-defined Global Positioning System (GPS) receiver. For a nonlinear system that has the model error and white Gaussian noise, a noise statistics estimator is used to estimate the model error, and based on this, a modified iterated extended Kalman filter (IEKF) named adaptive iterated Kalman filter (AIEKF) is proposed. A vector-tracking GPS receiver utilizing AIEKF is implemented to evaluate the performance of the proposed method. Through road tests, it is shown that the proposed method has an obvious accuracy advantage over the IEKF and Adaptive Extended Kalman filter (AEKF) in position determination. The results show that the proposed method is effective to reduce the root-mean-square error (RMSE) of position (including longitude, latitude and altitude). Comparing with EKF, the position RMSE values of AIEKF are reduced by about 45.1%, 40.9% and 54.6% in the east, north and up directions, respectively. Comparing with IEKF, the position RMSE values of AIEKF are reduced by about 25.7%, 19.3% and 35.7% in the east, north and up directions, respectively. Compared with AEKF, the position RMSE values of AIEKF are reduced by about 21.6%, 15.5% and 30.7% in the east, north and up directions, respectively.

Long axial imaging range using conventional swept source lasers in optical coherence tomography via re-circulation loops

NASA Astrophysics Data System (ADS)

Bradu, Adrian; Jackson, David A.; Podoleanu, Adrian

2018-03-01

Typically, swept source optical coherence tomography (SS-OCT) imaging instruments are capable of a longer axial range than their camera based (CB) counterpart. However, there are still various applications that would take advantage for an extended axial range. In this paper, we propose an interferometer configuration that can be used to extend the axial range of the OCT instruments equipped with conventional swept-source lasers up to a few cm. In this configuration, the two arms of the interferometer are equipped with adjustable optical path length rings. The use of semiconductor optical amplifiers in the two rings allows for compensating optical losses hence, multiple paths depth reflectivity profiles (Ascans) can be combined axially. In this way, extremely long overall axial ranges are possible. The use of the recirculation loops produces an effect equivalent to that of extending the coherence length of the swept source laser. Using this approach, the achievable axial imaging range in SS-OCT can reach values well beyond the limit imposed by the coherence length of the laser, to exceed in principle many centimeters. In the present work, we demonstrate axial ranges exceeding 4 cm using a commercial swept source laser and reaching 6 cm using an "in-house" swept source laser. When used in a conventional set-up alone, both these lasers can provide less than a few mm axial range.

A mutation within the extended X loop abolished substrate-induced ATPase activity of the human liver ATP-binding cassette (ABC) transporter MDR3.

PubMed

Kluth, Marianne; Stindt, Jan; Dröge, Carola; Linnemann, Doris; Kubitz, Ralf; Schmitt, Lutz

2015-02-20

The human multidrug resistance protein 3 (MDR3/ABCB4) belongs to the ubiquitous family of ATP-binding cassette (ABC) transporters and is located in the canalicular membrane of hepatocytes. There it flops the phospholipids of the phosphatidylcholine (PC) family from the inner to the outer leaflet. Here, we report the characterization of wild type MDR3 and the Q1174E mutant, which was identified previously in a patient with progressive familial intrahepatic cholestasis type 3 (PFIC-3). We expressed different variants of MDR3 in the yeast Pichia pastoris, purified the proteins via tandem affinity chromatography, and determined MDR3-specific ATPase activity in the presence or absence of phospholipids. The ATPase activity of wild type MDR3 was stimulated 2-fold by liver PC or 1,2-dioleoyl-sn-glycero-3-phosphatidylethanolamine lipids. Furthermore, the cross-linking of MDR3 with a thiol-reactive fluorophore blocked ATP hydrolysis and exhibited no PC stimulation. Similarly, phosphatidylethanolamine, phosphatidylserine, and sphingomyelin lipids did not induce an increase of wild type MDR3 ATPase activity. The phosphate analogues beryllium fluoride and aluminum fluoride led to complete inhibition of ATPase activity, whereas orthovanadate inhibited exclusively the PC-stimulated ATPase activity of MDR3. The Q1174E mutation is located in the nucleotide-binding domain in direct proximity of the leucine of the ABC signature motif and extended the X loop, which is found in ABC exporters. Our data on the Q1174E mutant demonstrated basal ATPase activity, but PC lipids were incapable of stimulating ATPase activity highlighting the role of the extended X loop in the cross-talk of the nucleotide-binding domain and the transmembrane domain. © 2015 by The American Society for Biochemistry and Molecular Biology, Inc.

3D MHD MODELING OF TWISTED CORONAL LOOPS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Reale, F.; Peres, G.; Orlando, S.

We perform MHD modeling of a single bright coronal loop to include the interaction with a non-uniform magnetic field. The field is stressed by random footpoint rotation in the central region and its energy is dissipated into heating by growing currents through anomalous magnetic diffusivity that switches on in the corona above a current density threshold. We model an entire single magnetic flux tube in the solar atmosphere extending from the high- β chromosphere to the low- β corona through the steep transition region. The magnetic field expands from the chromosphere to the corona. The maximum resolution is ∼30 km.more » We obtain an overall evolution typical of loop models and realistic loop emission in the EUV and X-ray bands. The plasma confined in the flux tube is heated to active region temperatures (∼3 MK) after ∼2/3 hr. Upflows from the chromosphere up to ∼100 km s{sup −1} fill the core of the flux tube to densities above 10{sup 9} cm{sup −3}. More heating is released in the low corona than the high corona and is finely structured both in space and time.« less

Higgs-like mechanism for spontaneous spacetime symmetry breaking

NASA Astrophysics Data System (ADS)

Nishimura, Kimihide

2015-10-01

The study of spontaneous breakdown of spacetime symmetries leads to the discovery of another type of Higgs mechanism operating in a chiral SU(2) model. Some of the Nambu-Goldstone vector mesons emergent from simultaneous violations of gauge and Lorentz symmetries are, in this case, absorbed by a left-handed doublet and endow one of the fermions with a right-handed state, while another part becomes emergent as photons. Accordingly, this mechanism allows a chiral fermion to acquire a mass, and it may enable the emergent theory to reproduce the electromagnetism equivalent to the QED sector in the standard theory. It is also mentioned that the "fermion-boson puzzle" known in the presence of a 't Hooft-Polyakov monopole does not exist in our theory.

Depression as a systemic syndrome: mapping the feedback loops of major depressive disorder.

PubMed

Wittenborn, A K; Rahmandad, H; Rick, J; Hosseinichimeh, N

2016-02-01

Depression is a complex public health problem with considerable variation in treatment response. The systemic complexity of depression, or the feedback processes among diverse drivers of the disorder, contribute to the persistence of depression. This paper extends prior attempts to understand the complex causal feedback mechanisms that underlie depression by presenting the first broad boundary causal loop diagram of depression dynamics. We applied qualitative system dynamics methods to map the broad feedback mechanisms of depression. We used a structured approach to identify candidate causal mechanisms of depression in the literature. We assessed the strength of empirical support for each mechanism and prioritized those with support from validation studies. Through an iterative process, we synthesized the empirical literature and created a conceptual model of major depressive disorder. The literature review and synthesis resulted in the development of the first causal loop diagram of reinforcing feedback processes of depression. It proposes candidate drivers of illness, or inertial factors, and their temporal functioning, as well as the interactions among drivers of depression. The final causal loop diagram defines 13 key reinforcing feedback loops that involve nine candidate drivers of depression. Future research is needed to expand upon this initial model of depression dynamics. Quantitative extensions may result in a better understanding of the systemic syndrome of depression and contribute to personalized methods of evaluation, prevention and intervention.

An Experimental Study of Pressure Oscillation in a Capillary Pumped Loop with Multiple Evaporators and Condensers

NASA Technical Reports Server (NTRS)

Ku, Jen-Tung; Hoang, Triem T.

1998-01-01

The heat transport capability of a capillary pumped loop (CPL) is limited by the pressure drop that its evaporator wick can sustain. The pressure drop in a CPL is not constant even under seemingly steady operation, but rather exhibits an oscillatory behavior. A hydrodynamic theory based on a mass-spring-dashpot model was previously developed to predict the pressure oscillation in a CPL with a single evaporator and a single condenser. The theory states that the pressure oscillation is a function of physical dimensions of the CPL components and operating conditions. Experimental data agreed very well with theoretical predictions. The hydrodynamic stability theory has recently been extended to predict the pressure oscillations in CPLs with multiple evaporators and multiple condensers. Concurrently, an experimental study was conducted to verify the theory and to investigate the effects of various parameters on the pressure oscillation. Four evaporators with different wick properties were tested using a test loop containing two condenser plates. The test loop allowed the four evaporators to be tested in a single-pump, two-pump or four-pump configuration, and the two condenser plates to be plumbed either in parallel or in series. Test conditions included varying the power input, the reservoir set point temperature, the condenser sink temperature, and the flow resistance between the reservoir and the loop. Experimental results agreed well with theoretical predictions.

Depression as a systemic syndrome: mapping the feedback loops of major depressive disorder

PubMed Central

Wittenborn, A. K.; Rahmandad, H.; Rick, J.; Hosseinichimeh, N.

2016-01-01

Background Depression is a complex public health problem with considerable variation in treatment response. The systemic complexity of depression, or the feedback processes among diverse drivers of the disorder, contribute to the persistence of depression. This paper extends prior attempts to understand the complex causal feedback mechanisms that underlie depression by presenting the first broad boundary causal loop diagram of depression dynamics. Method We applied qualitative system dynamics methods to map the broad feedback mechanisms of depression. We used a structured approach to identify candidate causal mechanisms of depression in the literature. We assessed the strength of empirical support for each mechanism and prioritized those with support from validation studies. Through an iterative process, we synthesized the empirical literature and created a conceptual model of major depressive disorder. Results The literature review and synthesis resulted in the development of the first causal loop diagram of reinforcing feedback processes of depression. It proposes candidate drivers of illness, or inertial factors, and their temporal functioning, as well as the interactions among drivers of depression. The final causal loop diagram defines 13 key reinforcing feedback loops that involve nine candidate drivers of depression. Conclusions Future research is needed to expand upon this initial model of depression dynamics. Quantitative extensions may result in a better understanding of the systemic syndrome of depression and contribute to personalized methods of evaluation, prevention and intervention. PMID:26621339

Adaptive cruise control with stop&go function using the state-dependent nonlinear model predictive control approach.

PubMed

Shakouri, Payman; Ordys, Andrzej; Askari, Mohamad R

2012-09-01

In the design of adaptive cruise control (ACC) system two separate control loops - an outer loop to maintain the safe distance from the vehicle traveling in front and an inner loop to control the brake pedal and throttle opening position - are commonly used. In this paper a different approach is proposed in which a single control loop is utilized. The objective of the distance tracking is incorporated into the single nonlinear model predictive control (NMPC) by extending the original linear time invariant (LTI) models obtained by linearizing the nonlinear dynamic model of the vehicle. This is achieved by introducing the additional states corresponding to the relative distance between leading and following vehicles, and also the velocity of the leading vehicle. Control of the brake and throttle position is implemented by taking the state-dependent approach. The model demonstrates to be more effective in tracking the speed and distance by eliminating the necessity of switching between the two controllers. It also offers smooth variation in brake and throttle controlling signal which subsequently results in a more uniform acceleration of the vehicle. The results of proposed method are compared with other ACC systems using two separate control loops. Furthermore, an ACC simulation results using a stop&go scenario are shown, demonstrating a better fulfillment of the design requirements. Copyright © 2012 ISA. Published by Elsevier Ltd. All rights reserved.

An adaptive human response mechanism controlling the V/STOL aircraft. Appendix 3: The adaptive control model of a pilot in V/STOL aircraft control loops. M.S. Thesis. Final Report

NASA Technical Reports Server (NTRS)

Kucuk, Senol

1988-01-01

Importance of the role of human operator in control systems has led to the particular area of manual control theory. Human describing functions were developed to model human behavior for manual control studies to take advantage of the successful and safe human operations. A single variable approach is presented that can be extended for multi-variable tasks where a low order human response model is used together with its rules, to adapt the model on-line, being capable of responding to the changes in the controlled element dynamics. Basic control theory concepts are used to combine the model, constrained with the physical observations, particularly, for the case of aircraft control. Pilot experience is represented as the initial model parameters. An adaptive root-locus method is presented as the adaptation law of the model where the closed loop bandwidth of the system is to be preserved in a stable manner with the adjustments of the pilot handling qualities which relate the latter to the closed loop bandwidth and damping of the closed loop pilot aircraft combination. A Kalman filter parameter estimator is presented as the controlled element identifier of the adaptive model where any discrepancies of the open loop dynamics from the presented one, are sensed to be compensated.

Measuring Temperature-Dependent Propagating Disturbances in Coronal Fan Loops Using Multiple SDO-AIA Channels and Surfing Transform Technique

NASA Technical Reports Server (NTRS)

Uritskiy, Vadim M.; Davila, Joseph M.; Viall, Nicholeen M.; Ofman, Leon

2013-01-01

A set of co-aligned high resolution images from the Atmospheric Imaging Assembly (AIA) on board the Solar Dynamics Observatory (SDO) is used to investigate propagating disturbances (PDs) in warm fan loops at the periphery of a non-flaring active region NOAA AR 11082. To measure PD speeds at multiple coronal temperatures, a new data analysis methodology is proposed enabling quantitative description of sub visual coronal motions with low signal-to-noise ratios of the order of 0.1. The technique operates with a set of one-dimensional surfing signals extracted from position-timeplots of several AIA channels through a modified version of Radon transform. The signals are used to evaluate a two-dimensional power spectral density distribution in the frequency - velocity space which exhibits a resonance in the presence of quasi-periodic PDs. By applying this analysis to the same fan loop structures observed in several AIA channels, we found that the traveling velocity of PDs increases with the temperature of the coronal plasma following the square root dependence predicted for the slow mode magneto-acoustic wave which seems to be the dominating wave mode in the studied loop structures. This result extends recent observations by Kiddie et al. (2012) to a more general class of fan loop systems not associated with sunspots and demonstrating consistent slow mode activity in up to four AIA channels.

A conformal mapping based fractional order approach for sub-optimal tuning of PID controllers with guaranteed dominant pole placement

NASA Astrophysics Data System (ADS)

Saha, Suman; Das, Saptarshi; Das, Shantanu; Gupta, Amitava

2012-09-01

A novel conformal mapping based fractional order (FO) methodology is developed in this paper for tuning existing classical (Integer Order) Proportional Integral Derivative (PID) controllers especially for sluggish and oscillatory second order systems. The conventional pole placement tuning via Linear Quadratic Regulator (LQR) method is extended for open loop oscillatory systems as well. The locations of the open loop zeros of a fractional order PID (FOPID or PIλDμ) controller have been approximated in this paper vis-à-vis a LQR tuned conventional integer order PID controller, to achieve equivalent integer order PID control system. This approach eases the implementation of analog/digital realization of a FOPID controller with its integer order counterpart along with the advantages of fractional order controller preserved. It is shown here in the paper that decrease in the integro-differential operators of the FOPID/PIλDμ controller pushes the open loop zeros of the equivalent PID controller towards greater damping regions which gives a trajectory of the controller zeros and dominant closed loop poles. This trajectory is termed as "M-curve". This phenomena is used to design a two-stage tuning algorithm which reduces the existing PID controller's effort in a significant manner compared to that with a single stage LQR based pole placement method at a desired closed loop damping and frequency.

Asymptotics of QCD traveling waves with fluctuations and running coupling effects

NASA Astrophysics Data System (ADS)

Beuf, Guillaume

2008-09-01

Extending the Balitsky-Kovchegov (BK) equation independently to running coupling or to fluctuation effects due to pomeron loops is known to lead in both cases to qualitative changes of the traveling-wave asymptotic solutions. In this paper we study the extension of the forward BK equation, including both running coupling and fluctuations effects, extending the method developed for the fixed coupling case [E. Brunet, B. Derrida, A.H. Mueller, S. Munier, Phys. Rev. E 73 (2006) 056126, cond-mat/0512021]. We derive the exact asymptotic behavior in rapidity of the probabilistic distribution of the saturation scale.

Asymptotic One-Point Functions in Gauge-String Duality with Defects.

PubMed

Buhl-Mortensen, Isak; de Leeuw, Marius; Ipsen, Asger C; Kristjansen, Charlotte; Wilhelm, Matthias

2017-12-29

We take the first step in extending the integrability approach to one-point functions in AdS/dCFT to higher loop orders. More precisely, we argue that the formula encoding all tree-level one-point functions of SU(2) operators in the defect version of N=4 supersymmetric Yang-Mills theory, dual to the D5-D3 probe-brane system with flux, has a natural asymptotic generalization to higher loop orders. The asymptotic formula correctly encodes the information about the one-loop correction to the one-point functions of nonprotected operators once dressed by a simple flux-dependent factor, as we demonstrate by an explicit computation involving a novel object denoted as an amputated matrix product state. Furthermore, when applied to the Berenstein-Maldacena-Nastase vacuum state, the asymptotic formula gives a result for the one-point function which in a certain double-scaling limit agrees with that obtained in the dual string theory up to wrapping order.

Input filter compensation for switching regulators

NASA Technical Reports Server (NTRS)

Kelkar, S. S.; Lee, F. C.

1983-01-01

A novel input filter compensation scheme for a buck regulator that eliminates the interaction between the input filter output impedance and the regulator control loop is presented. The scheme is implemented using a feedforward loop that senses the input filter state variables and uses this information to modulate the duty cycle signal. The feedforward design process presented is seen to be straightforward and the feedforward easy to implement. Extensive experimental data supported by analytical results show that significant performance improvement is achieved with the use of feedforward in the following performance categories: loop stability, audiosusceptibility, output impedance and transient response. The use of feedforward results in isolating the switching regulator from its power source thus eliminating all interaction between the regulator and equipment upstream. In addition the use of feedforward removes some of the input filter design constraints and makes the input filter design process simpler thus making it possible to optimize the input filter. The concept of feedforward compensation can also be extended to other types of switching regulators.

An optimized algorithm for multiscale wideband deconvolution of radio astronomical images

NASA Astrophysics Data System (ADS)

Offringa, A. R.; Smirnov, O.

2017-10-01

We describe a new multiscale deconvolution algorithm that can also be used in a multifrequency mode. The algorithm only affects the minor clean loop. In single-frequency mode, the minor loop of our improved multiscale algorithm is over an order of magnitude faster than the casa multiscale algorithm, and produces results of similar quality. For multifrequency deconvolution, a technique named joined-channel cleaning is used. In this mode, the minor loop of our algorithm is two to three orders of magnitude faster than casa msmfs. We extend the multiscale mode with automated scale-dependent masking, which allows structures to be cleaned below the noise. We describe a new scale-bias function for use in multiscale cleaning. We test a second deconvolution method that is a variant of the moresane deconvolution technique, and uses a convex optimization technique with isotropic undecimated wavelets as dictionary. On simple well-calibrated data, the convex optimization algorithm produces visually more representative models. On complex or imperfect data, the convex optimization algorithm has stability issues.

Radio-opaque modification/substitute for the wright superior oblique tendon extender for superior oblique muscle overaction strabismus.

PubMed

Arnold, Robert W; Leman, Rachel E

2007-01-01

Kenneth Wright developed a technique for graded weakening of the superior oblique by increasing the effective length of this extraocular muscle's long tendon with a piece of silicone rubber retinal encircling band commonly used by eye surgery for retinal detachment repairs. In the absence of any specific retinal bands in our Children's Hospital, the following technique was developed affording a non-invasive ability to monitor, which was less intricate than the technique so well described by Demer. We substituted the "Mini Vessel Loop" (by Maaxxim Medical or Henley International). It is an elastic smooth silicone rubber cord that is radio-opaque, and can easily be seen on X-rays and CT scans. It is not an ophthalmologic medical device but it rather is designed to loop around and identify and gently retract blood vessels and nerves in any form of surgery where needed. We demonstrated success similar to that achieved by Wright in 43 patients using these radio-opaque, silicon Mini Vessel loops.

Closed Loop Interactions between Spiking Neural Network and Robotic Simulators Based on MUSIC and ROS.

PubMed

Weidel, Philipp; Djurfeldt, Mikael; Duarte, Renato C; Morrison, Abigail

2016-01-01

In order to properly assess the function and computational properties of simulated neural systems, it is necessary to account for the nature of the stimuli that drive the system. However, providing stimuli that are rich and yet both reproducible and amenable to experimental manipulations is technically challenging, and even more so if a closed-loop scenario is required. In this work, we present a novel approach to solve this problem, connecting robotics and neural network simulators. We implement a middleware solution that bridges the Robotic Operating System (ROS) to the Multi-Simulator Coordinator (MUSIC). This enables any robotic and neural simulators that implement the corresponding interfaces to be efficiently coupled, allowing real-time performance for a wide range of configurations. This work extends the toolset available for researchers in both neurorobotics and computational neuroscience, and creates the opportunity to perform closed-loop experiments of arbitrary complexity to address questions in multiple areas, including embodiment, agency, and reinforcement learning.

Closed Loop Interactions between Spiking Neural Network and Robotic Simulators Based on MUSIC and ROS

PubMed Central

Weidel, Philipp; Djurfeldt, Mikael; Duarte, Renato C.; Morrison, Abigail

2016-01-01

In order to properly assess the function and computational properties of simulated neural systems, it is necessary to account for the nature of the stimuli that drive the system. However, providing stimuli that are rich and yet both reproducible and amenable to experimental manipulations is technically challenging, and even more so if a closed-loop scenario is required. In this work, we present a novel approach to solve this problem, connecting robotics and neural network simulators. We implement a middleware solution that bridges the Robotic Operating System (ROS) to the Multi-Simulator Coordinator (MUSIC). This enables any robotic and neural simulators that implement the corresponding interfaces to be efficiently coupled, allowing real-time performance for a wide range of configurations. This work extends the toolset available for researchers in both neurorobotics and computational neuroscience, and creates the opportunity to perform closed-loop experiments of arbitrary complexity to address questions in multiple areas, including embodiment, agency, and reinforcement learning. PMID:27536234

Structure Prediction of the Second Extracellular Loop in G-Protein-Coupled Receptors

PubMed Central

Kmiecik, Sebastian; Jamroz, Michal; Kolinski, Michal

2014-01-01

G-protein-coupled receptors (GPCRs) play key roles in living organisms. Therefore, it is important to determine their functional structures. The second extracellular loop (ECL2) is a functionally important region of GPCRs, which poses significant challenge for computational structure prediction methods. In this work, we evaluated CABS, a well-established protein modeling tool for predicting ECL2 structure in 13 GPCRs. The ECL2s (with between 13 and 34 residues) are predicted in an environment of other extracellular loops being fully flexible and the transmembrane domain fixed in its x-ray conformation. The modeling procedure used theoretical predictions of ECL2 secondary structure and experimental constraints on disulfide bridges. Our approach yielded ensembles of low-energy conformers and the most populated conformers that contained models close to the available x-ray structures. The level of similarity between the predicted models and x-ray structures is comparable to that of other state-of-the-art computational methods. Our results extend other studies by including newly crystallized GPCRs. PMID:24896119

Robust Brain-Machine Interface Design Using Optimal Feedback Control Modeling and Adaptive Point Process Filtering

PubMed Central

Carmena, Jose M.

2016-01-01

Much progress has been made in brain-machine interfaces (BMI) using decoders such as Kalman filters and finding their parameters with closed-loop decoder adaptation (CLDA). However, current decoders do not model the spikes directly, and hence may limit the processing time-scale of BMI control and adaptation. Moreover, while specialized CLDA techniques for intention estimation and assisted training exist, a unified and systematic CLDA framework that generalizes across different setups is lacking. Here we develop a novel closed-loop BMI training architecture that allows for processing, control, and adaptation using spike events, enables robust control and extends to various tasks. Moreover, we develop a unified control-theoretic CLDA framework within which intention estimation, assisted training, and adaptation are performed. The architecture incorporates an infinite-horizon optimal feedback-control (OFC) model of the brain’s behavior in closed-loop BMI control, and a point process model of spikes. The OFC model infers the user’s motor intention during CLDA—a process termed intention estimation. OFC is also used to design an autonomous and dynamic assisted training technique. The point process model allows for neural processing, control and decoder adaptation with every spike event and at a faster time-scale than current decoders; it also enables dynamic spike-event-based parameter adaptation unlike current CLDA methods that use batch-based adaptation on much slower adaptation time-scales. We conducted closed-loop experiments in a non-human primate over tens of days to dissociate the effects of these novel CLDA components. The OFC intention estimation improved BMI performance compared with current intention estimation techniques. OFC assisted training allowed the subject to consistently achieve proficient control. Spike-event-based adaptation resulted in faster and more consistent performance convergence compared with batch-based methods, and was robust to parameter initialization. Finally, the architecture extended control to tasks beyond those used for CLDA training. These results have significant implications towards the development of clinically-viable neuroprosthetics. PMID:27035820

Chronic hypoxic incubation blunts a cardiovascular reflex loop in embryonic American alligator (Alligator mississippiensis).

PubMed

Eme, John; Hicks, James W; Crossley, Dane A

2011-10-01

Hypoxia is a naturally occurring environmental challenge for embryonic non-avian reptiles, and this study is the first to investigate the impact of chronic hypoxia on a possible chemoreflex loop in a developing non-avian reptile. We measured heart rate and blood pressure in normoxic and hypoxic-incubated (10% O(2)) American alligator embryos (Alligator mississippiensis) at 70 and 90/95% of development. We hypothesized that hypoxic incubation would blunt embryonic alligators' response to a reflex loop stimulated by phenylbiguanide (PBG), a 5-HT(3) receptor agonist that stimulates vagal pulmonary C-fiber afferents. PBG injection caused a hypotensive bradycardia in 70 and 95% of development embryos (paired t tests, P < 0.05), a response similar to mammals breathing inspired air (all injections made through occlusive catheter in tertiary chorioallantoic membrane artery). Hypoxic incubation blunted the bradycardic response to PBG in embryos at 95% of development (two-way ANOVA, P < 0.01). We also demonstrated that the vagally mediated afferent limb of this reflex can be partially or completely blocked in ovo with a 5-HT(3) receptor blockade using ondansetron hydrochloride dihydrate (OHD), with a ganglionic blockade using hexamethonium, or with a cholinergic blockade using atropine. Atropine eliminated the hypotensive and bradycardic responses to PBG, and OHD and hexamethonium significantly blunted these responses. This cardiovascular reflex mediated by the vagus was affected by hypoxic incubation, suggesting that reptilian sympathetic and parasympathetic reflex loops have the potential for developmental plasticity in response to hypoxia. We suggest that the American alligator, with an extended length of time between each developmental stage relative to avian species, may provide an excellent model to test the cardiorespiratory effects of prolonged exposure to changes in atmospheric gases. This extended period allows for lengthy studies at each stage without the transition to a new stage, and the natural occurrence of hypoxia and hypercapnia in crocodilian nests makes this stress ecologically and evolutionarily relevant.

Multispectral analysis of Cygnus Loop and IC 443 with iFTS

NASA Astrophysics Data System (ADS)

Alarie, Alexandre

2016-06-01

Cygnus Loop and IC 443 are supernova remnants (SNRs) recognized as excellent laboratories to study the interaction between the SNR and the surrounding interstellar medium. The overall complex morphologies and large dimensions of those SNRs have always represented an observational challenge. This is especially true for optical observations for which the data available are very scarce. In order to palliate this scarcity in the optical regime, we are using two wide field-imaging Fourier transform spectrometers (iFTS): SpIOMM, attached to the Mont Megantic 1.6-m telescope and SITELLE recently installed at the Canada-France-Hawaii Telescope. Both instruments are capable of obtaining the spatially resolved visible spectrum of every source of light in an 11 arc minute field of view, in selected bandpasses. Using those iFTS on extended object such as Cygnus Loop and IC 443, we have obtained millions of spectra covering all major emission lines. Due to the large projected surface of Cygnus Loop and IC 443, we started a survey and the latest dataset will be presented. The extended 2D mappings of several emission lines ([O II] 3727, [O III] 4363, Hb, [O III] 4959, 5007, Ha, [N II] 6548, 6583 and [S II] 6716, 6731) allowed the creation of numerous ratios maps useful for shock diagnostics: shock velocity, electronic and temperature densities, location of incomplete shocks and extinction maps. These maps are then used to determine key parameters needed to compare the observations with theoretical shock models. Using the shock modeling code MAPPINGS, we can create abundances maps of nitrogen, oxygen and sulfur for an appreciable fraction of the observed regions. Furthermore, using the radial velocity as well as the spectro-imagery capability of the iFTS, we can have a glimpse of the three-dimensional structure of the remnants. All those data allow us to forge a coherent analysis of the complex interaction between the SNRs and their surrounding environment.

Simple Optoelectronic Feedback in Microwave Oscillators

NASA Technical Reports Server (NTRS)

Maleki, Lute; Iltchenko, Vladimir

2009-01-01

A proposed method of stabilizing microwave and millimeter-wave oscillators calls for the use of feedback in optoelectronic delay lines characterized by high values of the resonance quality factor (Q). The method would extend the applicability of optoelectronic feedback beyond the previously reported class of optoelectronic oscillators that comprise two-port electronic amplifiers in closed loops with high-Q feedback circuits.

Tracking and Control of Gas Turbine Engine Component Damage/Life

NASA Technical Reports Server (NTRS)

Jaw, Link C.; Wu, Dong N.; Bryg, David J.

2003-01-01

This paper describes damage mechanisms and the methods of controlling damages to extend the on-wing life of critical gas turbine engine components. Particularly, two types of damage mechanisms are discussed: creep/rupture and thermo-mechanical fatigue. To control these damages and extend the life of engine hot-section components, we have investigated two methodologies to be implemented as additional control logic for the on-board electronic control unit. This new logic, the life-extending control (LEC), interacts with the engine control and monitoring unit and modifies the fuel flow to reduce component damages in a flight mission. The LEC methodologies were demonstrated in a real-time, hardware-in-the-loop simulation. The results show that LEC is not only a new paradigm for engine control design, but also a promising technology for extending the service life of engine components, hence reducing the life cycle cost of the engine.

Topics in Nonsupersymmetric Scattering Amplitudes in Gauge and Gravity Theories

NASA Astrophysics Data System (ADS)

Nohle, Joshua David

In Chapters 1 and 2, we introduce and review the duality between color and kinematics in Yang-Mills theory uncovered by Bern, Carrasco and Johansson (BCJ). In Chapter 3, we provide evidence in favor of the conjectured duality between color and kinematics for the case of nonsupersymmetric pure Yang-Mills amplitudes by constructing a form of the one-loop four-point amplitude of this theory that makes the duality manifest. Our construction is valid in any dimension. We also describe a duality-satisfying representation for the two-loop four-point amplitude with identical four-dimensional external helicities. We use these results to obtain corresponding gravity integrands for a theory containing a graviton, dilaton, and antisymmetric tensor, simply by replacing color factors with specified diagram numerators. Using this, we give explicit forms of ultraviolet divergences at one loop in four, six, and eight dimensions, and at two loops in four dimensions. In Chapter 4, we extend the four-point one-loop nonsupersymmetric pure Yang-Mills discussion of Chapter 3 to include fermions and scalars circulating in the loop with all external gluons. This gives another nontrivial loop-level example showing that the duality between color and kinematics holds in nonsupersymmetric gauge theory. The construction is valid in any spacetime dimension and written in terms of formal polarization vectors. We also convert these expressions into a four-dimensional form with explicit external helicity states. Using this, we compare our results to one-loop duality-satisfying amplitudes that are already present in literature. In Chapter 5, we switch from the topic of color-kinematics duality to discuss the recently renewed interest in the soft behavior of gravitons and gluons. Specifically, we discuss the subleading low-energy behavior. Cachazo and Strominger recently proposed an extension of the soft-graviton theorem found by Weinberg. In addition, they proved the validity of their extension at tree level. This was motivated by a Virasoro symmetry of the gravity S-matrix related to BMS symmetry. As shown long ago by Weinberg, the leading soft behavior is not corrected by loops. In contrast, we show in Chapter 6 that with the standard definition of soft limits in dimensional regularization, the subleading behavior is anomalous and modified by loop effects. We argue that there are no new types of corrections to the first subleading behavior beyond one loop and to the second subleading behavior beyond two loops. To facilitate our investigation, we introduce a new momentum-conservation prescription for defining the subleading terms of the soft limit. We discuss the loop-level subleading soft behavior of gauge-theory amplitudes before turning to gravity amplitudes. In Chapter 7, we show that at tree level, on-shell gauge invariance can be used to fully determine the first subleading soft-gluon behavior and the first two subleading soft-graviton behaviors. Our proofs of the behaviors for n-gluon and n-graviton tree amplitudes are valid in D dimensions and are similar to Low's proof of universality of the first subleading behavior of photons. In contrast to photons coupling to massive particles, in four dimensions the soft behaviors of gluons and gravitons are corrected by loop effects. We comment on how such corrections arise from this perspective. We also show that loop corrections in graviton amplitudes arising from scalar loops appear only at the second soft subleading order. This case is particularly transparent because it is not entangled with graviton infrared singularities. Our result suggests that if we set aside the issue of infrared singularities, soft-graviton Ward identities of extended BMS symmetry are not anomalous through the first subleading order. Finally, in Chapter 8, we conclude this dissertation with a discussion of the evanescent effects on nonsupersymmetric gravity at two loops. Evanescent operators such as the Gauss- Bonnet term have vanishing perturbative matrix elements in exactly D = 4 dimensions. Similarly, evanescent fields do not propagate in D = 4; a three-form field is in this class, since it is dual to a cosmological-constant contribution. In this chapter, we show that evanescent operators and fields modify the leading ultraviolet divergence in pure gravity. To analyze the divergence, we compute the two-loop identical-helicity four-graviton amplitude and determine the coefficient of the associated (non-evanescent) R3 counterterm studied long ago by Goroff and Sagnotti. We compare two pairs of theories that are dual in D = 4: gravity coupled to nothing or to three-form matter, and gravity coupled to zero-form or to two-form matter. Duff and van Nieuwenhuizen showed that, curiously, the one-loop conformal anomaly---the coefficient of the Gauss-Bonnet operator---changes under p-form duality transformations. We concur, and also find that the leading R3 divergence changes under duality transformations. Nevertheless, in both cases the physical renormalized two-loop identical-helicity four-graviton amplitude can be chosen to respect duality. Its renormalization-scale dependence is unaltered. (Abstract shortened by UMI.).

Estimating turbulent electrovortex flow parameters hear the dynamo cycle bifurcation point

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zimin, V.D.; Kolpakov, N.Yu.; Khripchenko, S.Yu.

1988-07-01

Models for estimating turbulent electrovortex flow parameters, derived in earlier studies, were delineated and extended in this paper to express those parameters near the dynamo cycle bifurcation point in a spherical cavity. Toroidal and poloidal fields rising from the induction currents within the liquid metal and their electrovortex interactions were calculated. Toroidal field strengthening by the poloidal electrovortex flow, the first part of the dynamo loop, was determined by the viscous dissipation in the liquid metal. The second part of the loop, in which the toroidal field localized in the liquid metal is converted to a poloidal field and emergesmore » from the sphere, was also established. The dissipative effects near the critical magnetic Reynolds number were estimated.« less

Adaptive control of stochastic linear systems with unknown parameters. M.S. Thesis

NASA Technical Reports Server (NTRS)

Ku, R. T.

1972-01-01

The problem of optimal control of linear discrete-time stochastic dynamical system with unknown and, possibly, stochastically varying parameters is considered on the basis of noisy measurements. It is desired to minimize the expected value of a quadratic cost functional. Since the simultaneous estimation of the state and plant parameters is a nonlinear filtering problem, the extended Kalman filter algorithm is used. Several qualitative and asymptotic properties of the open loop feedback optimal control and the enforced separation scheme are discussed. Simulation results via Monte Carlo method show that, in terms of the performance measure, for stable systems the open loop feedback optimal control system is slightly better than the enforced separation scheme, while for unstable systems the latter scheme is far better.

Implementation of the nudged elastic band method in a dislocation dynamics formalism: Application to dislocation nucleation

NASA Astrophysics Data System (ADS)

Geslin, Pierre-Antoine; Gatti, Riccardo; Devincre, Benoit; Rodney, David

2017-11-01

We propose a framework to study thermally-activated processes in dislocation glide. This approach is based on an implementation of the nudged elastic band method in a nodal mesoscale dislocation dynamics formalism. Special care is paid to develop a variational formulation to ensure convergence to well-defined minimum energy paths. We also propose a methodology to rigorously parametrize the model on atomistic data, including elastic, core and stacking fault contributions. To assess the validity of the model, we investigate the homogeneous nucleation of partial dislocation loops in aluminum, recovering the activation energies and loop shapes obtained with atomistic calculations and extending these calculations to lower applied stresses. The present method is also applied to heterogeneous nucleation on spherical inclusions.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wemmer, D.E.; Kumar, N.V.; Metrione, R.M.

Toxin II from Radianthus paumotensis (Rp/sub II/) has been investigated by high-resolution NMR and chemical sequencing methods. Resonance assignments have been obtained for this protein by the sequential approach. NMR assignments could not be made consistent with the previously reported primary sequence for this protein, and chemical methods have been used to determine a sequence with which the NMR data are consistent. Analysis of the 2D NOE spectra shows that the protein secondary structure is comprised of two sequences of ..beta..-sheet, probably joined into a distorted continuous sheet, connected by turns and extended loops, without any regular ..cap alpha..-helical segments.more » The residues previously implicated in activity in this class of proteins, D8 and R13, occur in a loop region.« less

Reconnection Outflows in the Extended Corona and Magnetotail

NASA Astrophysics Data System (ADS)

Savage, Sabrina; Kobelski, Adam

2017-08-01

Observational signatures of reconnection have been studied extensively in the lower corona for decades, successfully providing insight into energy release mechanisms in the region above post-flare arcade loops and below 1.5 solar radii. During large eruptive events, however, energy release continues to occur well beyond the presence of reconnection signatures at these low heights. Supra-arcade downflows (SADs) and downflowing loops (SADLs) are particularly useful measures of continual reconnection in the corona as they may indicate the presence and path of retracting post-reconnection loops. SADs and SADLs have been observed for days beyond the passage of corona mass ejections through the SOHO/LASCO field of view and for nearly a week after an eruption on 14 October 2014. The association of these features with magnetic reconnection increases the significance of understanding their genesis. SADs have been interpreted as wakes behind newly reconnected and outflowing loops (SADLs). Models have shown the plausibility of this interpretation, though this interpretation has not yet been fully accepted. We will present a preliminary study of complementary observations of magnetic reconnection detected via in situ instruments in the magnetosphere. These observations, provided by five THEMIS spacecraft, reveal similar structures and conditions to those related to SADs. We compare data from multiple SADs and dipolarization fronts to test the similarity between these plasma regimes, strongly favoring the interpretation of SADs as instabilities trailing retracting loops. We will also use these observations to strengthen the case for the development of an EUV wide-field coronal imager.

Interplay between short-range correlated disorder and Coulomb interaction in nodal-line semimetals

NASA Astrophysics Data System (ADS)

Wang, Yuxuan; Nandkishore, Rahul M.

2017-09-01

In nodal-line semimetals, Coulomb interactions and short-range correlated disorder are both marginal perturbations to the clean noninteracting Hamiltonian. We analyze their interplay using a weak-coupling renormalization group approach. In the clean case, the Coulomb interaction has been found to be marginally irrelevant, leading to Fermi liquid behavior. We extend the analysis to incorporate the effects of disorder. The nodal line structure gives rise to kinematical constraints similar to that for a two-dimensional Fermi surface, which plays a crucial role in the one-loop renormalization of the disorder couplings. For a twofold degenerate nodal loop (Weyl loop), we show that disorder flows to strong coupling along a unique fixed trajectory in the space of symmetry inequivalent disorder couplings. Along this fixed trajectory, all symmetry inequivalent disorder strengths become equal. For a fourfold degenerate nodal loop (Dirac loop), disorder also flows to strong coupling, however, the strengths of symmetry inequivalent disorder couplings remain different. We show that feedback from disorder reverses the sign of the beta function for the Coulomb interaction, causing the Coulomb interaction to flow to strong coupling as well. However, the Coulomb interaction flows to strong coupling asymptotically more slowly than disorder. Extrapolating our results to strong coupling, we conjecture that at low energies nodal line semimetals should be described by a noninteracting nonlinear sigma model. We discuss the relation of our results with possible many-body localization at zero temperatures in such materials.

Heating and Cooling of Coronal Loops with Turbulent Suppression of Parallel Heat Conduction.

PubMed

Bian, Nicolas; Emslie, A Gordon; Horne, Duncan; Kontar, Eduard P

2018-01-10

Using the "enthalpy-based thermal evolution of loops" (EBTEL) model, we investigate the hydrodynamics of the plasma in a flaring coronal loop in which heat conduction is limited by turbulent scattering of the electrons that transport the thermal heat flux. The EBTEL equations are solved analytically in each of the two (conduction-dominated and radiation-dominated) cooling phases. Comparison of the results with typical observed cooling times in solar flares shows that the turbulent mean free path λ T lies in a range corresponding to a regime in which classical (collision-dominated) conduction plays at most a limited role. We also consider the magnitude and duration of the heat input that is necessary to account for the enhanced values of temperature and density at the beginning of the cooling phase and for the observed cooling times. We find through numerical modeling that in order to produce a peak temperature ≃1.5 × 10 7 K and a 200 s cooling time consistent with observations, the flare-heating profile must extend over a significant period of time; in particular, its lingering role must be taken into consideration in any description of the cooling phase. Comparison with observationally inferred values of post-flare loop temperatures, densities, and cooling times thus leads to useful constraints on both the magnitude and duration of the magnetic energy release in the loop, as well as on the value of the turbulent mean free path λ T .

Inadvertent choledochotomy during Frey's procedure: management options.

PubMed

D'Cruz, Kenneth; Angamuthu, Natarajan; Anand, J

2003-01-01

We report the occurrence of inadvertent injury to the intra-pancreatic common bile duct in 3 of 9 patients undergoing Frey's procedure for chronic pancreatitis with inflammatory mass in the head. In one case, the choledochotomy was extended and anastomosed to the cored-out parenchyma. In the other two, after lateral pancreatico-jejunostomy, hepatico-jejunostomy was performed using the same Roux loop.

Generating Artificial Reference Images for Open Loop Correlation Wavefront Sensors

NASA Astrophysics Data System (ADS)

Townson, M. J.; Love, G. D.; Saunter, C. D.

2018-05-01

Shack-Hartmann wavefront sensors for both solar and laser guide star adaptive optics (with elongated spots) need to observe extended objects. Correlation techniques have been successfully employed to measure the wavefront gradient in solar adaptive optics systems and have been proposed for laser guide star systems. In this paper we describe a method for synthesising reference images for correlation Shack-Hartmann wavefront sensors with a larger field of view than individual sub-apertures. We then show how these supersized reference images can increase the performance of correlation wavefront sensors in regimes where large relative shifts are induced between sub-apertures, such as those observed in open-loop wavefront sensors. The technique we describe requires no external knowledge outside of the wavefront-sensor images, making it available as an entirely "software" upgrade to an existing adaptive optics system. For solar adaptive optics we show the supersized reference images extend the magnitude of shifts which can be accurately measured from 12% to 50% of the field of view of a sub-aperture and in laser guide star wavefront sensors the magnitude of centroids that can be accurately measured is increased from 12% to 25% of the total field of view of the sub-aperture.

LOCSET Phase Locking: Operation, Diagnostics, and Applications

NASA Astrophysics Data System (ADS)

Pulford, Benjamin N.

The aim of this dissertation is to discuss the theoretical and experimental work recently done with the Locking of Optical Coherence via Single-detector Electronic-frequency Tagging (LOCSET) phase locking technique developed and employed here are AFRL. The primary objectives of this effort are to detail the fundamental operation of the LOCSET phase locking technique, recognize the conditions in which the LOCSET control electronics optimally operate, demonstrate LOCSET phase locking with higher channel counts than ever before, and extend the LOCSET technique to correct for low order, atmospherically induced, phase aberrations introduced to the output of a tiled array of coherently combinable beams. The experimental work performed for this effort resulted in the coherent combination of 32 low power optical beams operating with unprecedented LOCSET phase error performance of lambda/71 RMS in a local loop beam combination configuration. The LOCSET phase locking technique was also successfully extended, for the first time, into an Object In the Loop (OIL) configuration by utilizing light scattered off of a remote object as the optical return signal for the LOCSET phase control electronics. Said LOCSET-OIL technique is capable of correcting for low order phase aberrations caused by atmospheric turbulence disturbances applied across a tiled array output.

Ion channeling study of defects in compound crystals using Monte Carlo simulations

NASA Astrophysics Data System (ADS)

Turos, A.; Jozwik, P.; Nowicki, L.; Sathish, N.

2014-08-01

Ion channeling is a well-established technique for determination of structural properties of crystalline materials. Defect depth profiles have been usually determined basing on the two-beam model developed by Bøgh (1968) [1]. As long as the main research interest was focused on single element crystals it was considered as sufficiently accurate. New challenge emerged with growing technological importance of compound single crystals and epitaxial heterostructures. Overlap of partial spectra due to different sublattices and formation of complicated defect structures makes the two beam method hardly applicable. The solution is provided by Monte Carlo computer simulations. Our paper reviews principal aspects of this approach and the recent developments in the McChasy simulation code. The latter made it possible to distinguish between randomly displaced atoms (RDA) and extended defects (dislocations, loops, etc.). Hence, complex defect structures can be characterized by the relative content of these two components. The next refinement of the code consists of detailed parameterization of dislocations and dislocation loops. Defect profiles for variety of compound crystals (GaN, ZnO, SrTiO3) have been measured and evaluated using the McChasy code. Damage accumulation curves for RDA and extended defects revealed non monotonous defect buildup with some characteristic steps. Transition to each stage is governed by the different driving force. As shown by the complementary high resolution XRD measurements lattice strain plays here the crucial role and can be correlated with the concentration of extended defects.

Non-singular black holes and the limiting curvature mechanism: a Hamiltonian perspective

NASA Astrophysics Data System (ADS)

Ben Achour, J.; Lamy, F.; Liu, H.; Noui, K.

2018-05-01

We revisit the non-singular black hole solution in (extended) mimetic gravity with a limiting curvature from a Hamiltonian point of view. We introduce a parameterization of the phase space which allows us to describe fully the Hamiltonian structure of the theory. We write down the equations of motion that we solve in the regime deep inside the black hole, and we recover that the black hole has no singularity, due to the limiting curvature mechanism. Then, we study the relation between such black holes and effective polymer black holes which have been introduced in the context of loop quantum gravity. As expected, contrary to what happens in the cosmological sector, mimetic gravity with a limiting curvature fails to reproduce the usual effective dynamics of spherically symmetric loop quantum gravity which are generically not covariant. Nonetheless, we exhibit a theory in the class of extended mimetic gravity whose dynamics reproduces the general shape of the effective corrections of spherically symmetric polymer models, but in an undeformed covariant manner. These covariant effective corrections are found to be always metric dependent, i.e. within the bar mu-scheme, underlying the importance of this ingredient for inhomogeneous polymer models. In that respect, extended mimetic gravity can be viewed as an effective covariant theory which naturally implements a covariant notion of point wise holonomy-like corrections. The difference between the mimetic and polymer Hamiltonian formulations provides us with a guide to understand the deformation of covariance in inhomogeneous polymer models.

Extender for securing a closure

DOEpatents

Thomas, II, Patrick A.

2012-10-02

An apparatus for securing a closure such as door or a window that opens and closes by movement relative to a fixed structure such as a wall or a floor. Many embodiments provide a device for relocating a padlock from its normal location where it secures a fastener (such as a hasp) to a location for the padlock that is more accessible for locking and unlocking the padlock. Typically an extender is provided, where the extender has a hook at a first end that is disposed through the eye of the staple of the hasp, and at an opposing second end the extender has an annulus, such as a hole in the extender or a loop or ring affixed to the extender. The shackle of the padlock may be disposed through the annulus and may be disposed through the eye of a second staple to secure the door or window in a closed or open position. Some embodiments employ a rigid sheath to enclose at least a portion of the extender. Typically the rigid sheath has an open state where the hook is exposed outside the sheath and a closed state where the hook is disposed within the sheath.

Inhibition of F1-ATPase Rotational Catalysis by the Carboxyl-terminal Domain of the ϵ Subunit*

PubMed Central

Nakanishi-Matsui, Mayumi; Sekiya, Mizuki; Yano, Shio; Futai, Masamitsu

2014-01-01

Escherichia coli ATP synthase (F0F1) couples catalysis and proton transport through subunit rotation. The ϵ subunit, an endogenous inhibitor, lowers F1-ATPase activity by decreasing the rotation speed and extending the duration of the inhibited state (Sekiya, M., Hosokawa, H., Nakanishi-Matsui, M., Al-Shawi, M. K., Nakamoto, R. K., and Futai, M. (2010) Single molecule behavior of inhibited and active states of Escherichia coli ATP synthase F1 rotation. J. Biol. Chem. 285, 42058–42067). In this study, we constructed a series of ϵ subunits truncated successively from the carboxyl-terminal domain (helix 1/loop 2/helix 2) and examined their effects on rotational catalysis (ATPase activity, average rotation rate, and duration of inhibited state). As expected, the ϵ subunit lacking helix 2 caused about ½-fold reduced inhibition, and that without loop 2/helix 2 or helix 1/loop 2/helix 2 showed a further reduced effect. Substitution of ϵSer108 in loop 2 and ϵTyr114 in helix 2, which possibly interact with the β and γ subunits, respectively, decreased the inhibitory effect. These results suggest that the carboxyl-terminal domain of the ϵ subunit plays a pivotal role in the inhibition of F1 rotation through interaction with other subunits. PMID:25228697

Spatial structure and temporal development of a solar X-ray flare observed from Skylab on June 15, 1973

NASA Technical Reports Server (NTRS)

Pallavicini, R.; Vaiana, G. S.; Kahler, S. W.; Krieger, A. S.

1975-01-01

Morphological and quantitative analyses are presented of a 1B solar flare that was observed with high spatial and temporal resolution by the S-054 grazing-incidence X-ray telescope aboard Skylab. It is found that the flare had the configuration of a compact region with a characteristic size of the order of 30 arcsec at the intensity peak, the interior of the region appeared to be highly structured and to consist of temporally changing complex loop systems, brightening over an extended part of the active region preceded the flare onset, and the impulsive phase was marked by rapid brightening in the loop structures. The X-ray photographs also indicate that the X-ray emission was centered over the neutral line of the longitudinal magnetic field, loop systems formed at successively increasing heights during the decay phase, and different regions of the flare had distinctly different light curves. The flux profiles for the different regions are shown to suggest continued heating during the decay phase. It is concluded that flare models should be based on a multiplicity of volumes ordered in loops of successively larger scale lengths and heights rather than on a single point of energy release and deposition.

Consistent Orientation of Moduli Spaces

NASA Astrophysics Data System (ADS)

Freed, Daniel S.; Hopkins, Michael J.; Teleman, Constantin

In a series of papers by Freed, Hopkins, and Teleman (2003, 2005, 2007a) the relationship between positive energy representations of the loop group of a compact Lie group G and the twisted equivariant K-theory Kτ+dimGG (G) was developed. Here G acts on itself by conjugation. The loop group representations depend on a choice of ‘level’, and the twisting τ is derived from the level. For all levels the main theorem is an isomorphism of abelian groups, and for special transgressed levels it is an isomorphism of rings: the fusion ring of the loop group andKτ+dimGG (G) as a ring. For G connected with π1G torsionfree, it has been proven that the ring Kτ+dimGG (G) is a quotient of the representation ring of G and can be calculated explicitly. In these cases it agrees with the fusion ring of the corresponding centrally extended loop group. This chapter explicates the multiplication on the twisted equivariant K-theory for an arbitrary compact Lie group G. It constructs a Frobenius ring structure on Kτ+dimGG (G). This is best expressed in the language of topological quantum field theory: a two-dimensional topological quantum field theory (TQFT) is constructed over the integers in which the abelian group attached to the circle is Kτ+dimGG (G).

QCD phase-transition and chemical freezeout in nonzero magnetic field at NICA

NASA Astrophysics Data System (ADS)

Tawfik, Abdel Nasser

2017-01-01

Because of relativistic off-center motion of the charged spectators and the local momentum-imbalance experienced by the participants, a huge magnetic field is likely generated in high-energy collisions. The influence of such short-lived magnetic field on the QCD phase-transition(s) is analysed. From Polyakov linear-sigma model, we study the chiral phase-transition and the magnetic response and susceptibility in dependence on temperature, density and magnetic field strength. The systematic measurements of the phase-transition characterizing signals, such as the fluctuations, the dynamical correlations and the in-medium modifications of rho-meson, for instance, in different interacting systems and collision centralities are conjectured to reveal an almost complete description for the QCD phase-structure and the chemical freezeout. We limit the discussion to NICA energies.

2D quantum gravity from quantum entanglement.

PubMed

Gliozzi, F

2011-01-21

In quantum systems with many degrees of freedom the replica method is a useful tool to study the entanglement of arbitrary spatial regions. We apply it in a way that allows them to backreact. As a consequence, they become dynamical subsystems whose position, form, and extension are determined by their interaction with the whole system. We analyze, in particular, quantum spin chains described at criticality by a conformal field theory. Its coupling to the Gibbs' ensemble of all possible subsystems is relevant and drives the system into a new fixed point which is argued to be that of the 2D quantum gravity coupled to this system. Numerical experiments on the critical Ising model show that the new critical exponents agree with those predicted by the formula of Knizhnik, Polyakov, and Zamolodchikov.

Finite-density transition line for QCD with 695 MeV dynamical fermions

NASA Astrophysics Data System (ADS)

Greensite, Jeff; Höllwieser, Roman

2018-06-01

We apply the relative weights method to SU(3) gauge theory with staggered fermions of mass 695 MeV at a set of temperatures in the range 151 ≤T ≤267 MeV , to obtain an effective Polyakov line action at each temperature. We then apply a mean field method to search for phase transitions in the effective theory at finite densities. The result is a transition line in the plane of temperature and chemical potential, with an end point at high temperature, as expected, but also a second end point at a lower temperature. We cannot rule out the possibilities that a transition line reappears at temperatures lower than the range investigated, or that the second end point is absent for light quarks.

Effective action for stochastic partial differential equations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hochberg, David; Centro de Astrobiologia, INTA, Carratera Ajalvir, Km. 4, 28850 Torrejon, Madrid,; Molina-Paris, Carmen

Stochastic partial differential equations (SPDEs) are the basic tool for modeling systems where noise is important. SPDEs are used for models of turbulence, pattern formation, and the structural development of the universe itself. It is reasonably well known that certain SPDEs can be manipulated to be equivalent to (nonquantum) field theories that nevertheless exhibit deep and important relationships with quantum field theory. In this paper we systematically extend these ideas: We set up a functional integral formalism and demonstrate how to extract all the one-loop physics for an arbitrary SPDE subject to arbitrary Gaussian noise. It is extremely important tomore » realize that Gaussian noise does not imply that the field variables undergo Gaussian fluctuations, and that these nonquantum field theories are fully interacting. The limitation to one loop is not as serious as might be supposed: Experience with quantum field theories (QFTs) has taught us that one-loop physics is often quite adequate to give a good description of the salient issues. The limitation to one loop does, however, offer marked technical advantages: Because at one loop almost any field theory can be rendered finite using zeta function technology, we can sidestep the complications inherent in the Martin-Siggia-Rose formalism (the SPDE analog of the Becchi-Rouet-Stora-Tyutin formalism used in QFT) and instead focus attention on a minimalist approach that uses only the physical fields (this ''direct approach'' is the SPDE analog of canonical quantization using physical fields). After setting up the general formalism for the characteristic functional (partition function), we show how to define the effective action to all loops, and then focus on the one-loop effective action and its specialization to constant fields: the effective potential. The physical interpretation of the effective action and effective potential for SPDEs is addressed and we show that key features carry over from QFT to the case of SPDEs. An important result is that the amplitude of the two-point function governing the noise acts as the loop-counting parameter and is the analog of Planck's constant ({Dirac_h}/2{pi}) in this SPDE context. We derive a general expression for the one-loop effective potential of an arbitrary SPDE subject to translation-invariant Gaussian noise, and compare this with the one-loop potential for QFT. (c) 1999 The American Physical Society.« less

Development of Stiff and Extendible Electromagnetic Sensors for Space Missions

NASA Astrophysics Data System (ADS)

Kasaba, Y.; Kumamoto, A.; Ishisaka, K.; Kojima, H.; Higuchi, K.; Watanabe, A.; Watanabe, K.

2010-05-01

We developed three types of stiff and extendible electromagnetic sensors in rigid monopole antenna, loop antenna, and Yagi-Uda antenna for future space missions. They are based on carbon fiber reinforced plastic (CFRP) technologies, in order to fulfill severe requirements, i.e. enough stiffness, light mass, compact storage, safe extension, and reasonable test efforts. One of them, rigid monopole antennas, coupled with an inflatable actuator system, was successfully used in the JAXA S-520-23 sounding rocket experiment in September 2007. Applications of those antennas are expected in space plasma missions including the SCOPE program, sounding rocket experiments, planetary radar remote sensing, and landing radio measurements.

Generic isolated horizons in loop quantum gravity

NASA Astrophysics Data System (ADS)

Beetle, Christopher; Engle, Jonathan

2010-12-01

Isolated horizons model equilibrium states of classical black holes. A detailed quantization, starting from a classical phase space restricted to spherically symmetric horizons, exists in the literature and has since been extended to axisymmetry. This paper extends the quantum theory to horizons of arbitrary shape. Surprisingly, the Hilbert space obtained by quantizing the full phase space of all generic horizons with a fixed area is identical to that originally found in spherical symmetry. The entropy of a large horizon remains one-quarter its area, with the Barbero-Immirzi parameter retaining its value from symmetric analyses. These results suggest a reinterpretation of the intrinsic quantum geometry of the horizon surface.

Extended target recognition in cognitive radar networks.

PubMed

Wei, Yimin; Meng, Huadong; Liu, Yimin; Wang, Xiqin

2010-01-01

We address the problem of adaptive waveform design for extended target recognition in cognitive radar networks. A closed-loop active target recognition radar system is extended to the case of a centralized cognitive radar network, in which a generalized likelihood ratio (GLR) based sequential hypothesis testing (SHT) framework is employed. Using Doppler velocities measured by multiple radars, the target aspect angle for each radar is calculated. The joint probability of each target hypothesis is then updated using observations from different radar line of sights (LOS). Based on these probabilities, a minimum correlation algorithm is proposed to adaptively design the transmit waveform for each radar in an amplitude fluctuation situation. Simulation results demonstrate performance improvements due to the cognitive radar network and adaptive waveform design. Our minimum correlation algorithm outperforms the eigen-waveform solution and other non-cognitive waveform design approaches.

Concerted action of the MutLβ heterodimer and Mer3 helicase regulates the global extent of meiotic gene conversion

PubMed Central

Duroc, Yann; Kumar, Rajeev; Ranjha, Lepakshi; Adam, Céline; Guérois, Raphaël; Md Muntaz, Khan; Marsolier-Kergoat, Marie-Claude; Dingli, Florent; Laureau, Raphaëlle; Loew, Damarys; Llorente, Bertrand; Charbonnier, Jean-Baptiste; Cejka, Petr; Borde, Valérie

2017-01-01

Gene conversions resulting from meiotic recombination are critical in shaping genome diversification and evolution. How the extent of gene conversions is regulated is unknown. Here we show that the budding yeast mismatch repair related MutLβ complex, Mlh1-Mlh2, specifically interacts with the conserved meiotic Mer3 helicase, which recruits it to recombination hotspots, independently of mismatch recognition. This recruitment is essential to limit gene conversion tract lengths genome-wide, without affecting crossover formation. Contrary to expectations, Mer3 helicase activity, proposed to extend the displacement loop (D-loop) recombination intermediate, does not influence the length of gene conversion events, revealing non-catalytical roles of Mer3. In addition, both purified Mer3 and MutLβ preferentially recognize D-loops, providing a mechanism for limiting gene conversion in vivo. These findings show that MutLβ is an integral part of a new regulatory step of meiotic recombination, which has implications to prevent rapid allele fixation and hotspot erosion in populations. DOI: http://dx.doi.org/10.7554/eLife.21900.001 PMID:28051769

In vivo electrode implanting system

NASA Technical Reports Server (NTRS)

Collins, Jr., Earl R. (Inventor)

1989-01-01

A cylindrical intramuscular implantable electrode is provided with a strip of fabric secured around it. The fabric is woven from a polyester fiber having loops of the fiber protruding. The end of the main cylindrical body is provided with a blunt conductive nose, and the opposite end is provided with a smaller diameter rear section with an annular groove to receive tips of fingers extending from a release tube. The fingers are formed to spring outwardly and move the fingertips out of the annular groove in order to release the electrode from the release tube when a sheath over the electrode is drawn back sufficiently. The sheath compresses the fingers of the release tube and the fabric loops until it is drawn back. Muscle tissue grows into the loops to secure the electrode in place after the sheath is drawn back. The entire assembly of electrode, release tube and sheath can be inserted into the patient's muscle to the desired position through a hypodermic needle. The release tube may be used to manipulate the electrode in the patient's muscle to an optimum position before the electrode is released.

Fluorescence Competition Assay Measurements of Free Energy Changes for RNA Pseudoknots†

PubMed Central

2009-01-01

RNA pseudoknots have important functions, and thermodynamic stability is a key to predicting pseudoknots in RNA sequences and to understanding their functions. Traditional methods, such as UV melting and differential scanning calorimetry, for measuring RNA thermodynamics are restricted to temperature ranges around the melting temperature for a pseudoknot. Here, we report RNA pseudoknot free energy changes at 37 °C measured by fluorescence competition assays. Sequence-dependent studies for the loop 1−stem 2 region reveal (1) the individual nearest-neighbor hydrogen bonding (INN-HB) model provides a reasonable estimate for the free energy change when a Watson−Crick base pair in stem 2 is changed, (2) the loop entropy can be estimated by a statistical polymer model, although some penalty for certain loop sequences is necessary, and (3) tertiary interactions can significantly stabilize pseudoknots and extending the length of stem 2 may alter tertiary interactions such that the INN-HB model does not predict the net effect of adding a base pair. The results can inform writing of algorithms for predicting and/or designing RNA secondary structures. PMID:19921809

Generic absence of strong singularities in loop quantum Bianchi-IX spacetimes

NASA Astrophysics Data System (ADS)

Saini, Sahil; Singh, Parampreet

2018-03-01

We study the generic resolution of strong singularities in loop quantized effective Bianchi-IX spacetime in two different quantizations—the connection operator based ‘A’ quantization and the extrinsic curvature based ‘K’ quantization. We show that in the effective spacetime description with arbitrary matter content, it is necessary to include inverse triad corrections to resolve all the strong singularities in the ‘A’ quantization. Whereas in the ‘K’ quantization these results can be obtained without including inverse triad corrections. Under these conditions, the energy density, expansion and shear scalars for both of the quantization prescriptions are bounded. Notably, both the quantizations can result in potentially curvature divergent events if matter content allows divergences in the partial derivatives of the energy density with respect to the triad variables at a finite energy density. Such events are found to be weak curvature singularities beyond which geodesics can be extended in the effective spacetime. Our results show that all potential strong curvature singularities of the classical theory are forbidden in Bianchi-IX spacetime in loop quantum cosmology and geodesic evolution never breaks down for such events.

Hardware-in-the-Loop Co-simulation of Distribution Grid for Demand Response

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rotger-Griful, Sergi; Chatzivasileiadis, Spyros; Jacobsen, Rune H.

2016-06-20

In modern power systems, co-simulation is proposed as an enabler for analyzing the interactions between disparate systems. This paper introduces the co-simulation platform Virtual Grid Integration Laboratory (VirGIL) including Hardware-in-the-Loop testing, and demonstrates its potential to assess demand response strategies. VirGIL is based on a modular architecture using the Functional Mock-up Interface industrial standard to integrate new simulators. VirGIL combines state-of-the-art simulators in power systems, communications, buildings, and control. In this work, VirGIL is extended with a Hardware-in-the-Loop component to control the ventilation system of a real 12-story building in Denmark. VirGIL capabilities are illustrated in three scenarios: load following,more » primary reserves and load following aggregation. Experimental results show that the system can track one minute changing signals and it can provide primary reserves for up-regulation. Furthermore, the potential of aggregating several ventilation systems is evaluated considering the impact at distribution grid level and the communications protocol effect.« less

A rotating, expanding disk in the Wolf-Rayet star EZ Canis Majoris?

NASA Technical Reports Server (NTRS)

Schulte-Ladbeck, R. E.; Nordsieck, K. H.; Nook, M. A.; Magalhaes, A. M.; Taylor, M.

1990-01-01

The discovery of linear polarization changes across the extended wings of He II lines, mainly the strong 4-3 transition at 4686 A, in the WN5 star EZ CMa, is reported. When the polarization across the line profiles is plotted in the Stokes parameters plane, it traces loops clockwise from the blue wing through line center to the red, rather than straight lines. Such polarization loops are reminiscent of what is observed in the Balmer lines of Be stars. The continuum polarization in EZ CMa can be understood by an axisymmetric, electron-scattering envelope, with the decrease in polarization in He II being caused by an increase in absorptive opacity in the lines and dilution by unpolarized line emission, while the variations in position angle are due to the Doppler-shifted absorptive opacity and/or scattered line photons. As the sense of rotation in the loops is also independent of phase of this alleged Wolf-Rayet + compact binary, the polarized line profiles are the signature of a rotating, expanding wind geometry around a single star.

One-loop pseudo-Goldstone masses in the minimal S O (10 ) Higgs model

NASA Astrophysics Data System (ADS)

Gráf, Lukáš; Malinský, Michal; Mede, Timon; Susič, Vasja

2017-04-01

We calculate the prominent perturbative contributions shaping the one-loop scalar spectrum of the minimal renormalizable nonsupersymmetric S O (10 ) Higgs model whose unified gauge symmetry is spontaneously broken by an adjoint scalar. Focusing on its potentially realistic 45 ⊕126 variant in which the rank is reduced by a vacuum expectation value of the 5-index antisymmetric self-dual tensor, we provide a thorough analysis of the corresponding Coleman-Weinberg one-loop effective potential, paying particular attention to the masses of the potentially tachyonic pseudo-Goldstone bosons transforming as (1, 3, 0) and (8, 1, 0) under the standard model (SM) gauge group. The results confirm the assumed existence of extended regions in the parameter space supporting a locally stable SM-like quantum vacuum inaccessible at the tree level. The effective potential tedium is compared to that encountered in the previously studied 45 ⊕16 S O (10 ) Higgs model where the polynomial corrections to the relevant pseudo-Goldstone masses turn out to be easily calculable within a very simplified purely diagrammatic approach.

LONG DURATION FLARE EMISSION: IMPULSIVE HEATING OR GRADUAL HEATING?

DOE Office of Scientific and Technical Information (OSTI.GOV)

Qiu, Jiong; Longcope, Dana W.

Flare emissions in X-ray and EUV wavelengths have previously been modeled as the plasma response to impulsive heating from magnetic reconnection. Some flares exhibit gradually evolving X-ray and EUV light curves, which are believed to result from superposition of an extended sequence of impulsive heating events occurring in different adjacent loops or even unresolved threads within each loop. In this paper, we apply this approach to a long duration two-ribbon flare SOL2011-09-13T22 observed by the Atmosphere Imaging Assembly (AIA). We find that to reconcile with observed signatures of flare emission in multiple EUV wavelengths, each thread should be heated inmore » two phases, an intense impulsive heating followed by a gradual, low-rate heating tail that is attenuated over 20–30 minutes. Each AIA resolved single loop may be composed of several such threads. The two-phase heating scenario is supported by modeling with both a zero-dimensional and a 1D hydrodynamic code. We discuss viable physical mechanisms for the two-phase heating in a post-reconnection thread.« less

Initial conditions in high-energy collisions

NASA Astrophysics Data System (ADS)

Petreska, Elena

This thesis is focused on the initial stages of high-energy collisions in the saturation regime. We start by extending the McLerran-Venugopalan distribution of color sources in the initial wave-function of nuclei in heavy-ion collisions. We derive a fourth-order operator in the action and discuss its relevance for the description of color charge distributions in protons in high-energy experiments. We calculate the dipole scattering amplitude in proton-proton collisions with the quartic action and find an agreement with experimental data. We also obtain a modification to the fluctuation parameter of the negative binomial distribution of particle multiplicities in proton-proton experiments. The result implies an advancement of the fourth-order action towards Gaussian when the energy is increased. Finally, we calculate perturbatively the expectation value of the magnetic Wilson loop operator in the first moments of heavy-ion collisions. For the magnetic flux we obtain a first non-trivial term that is proportional to the square of the area of the loop. The result is close to numerical calculations for small area loops.

Analytical and Experimental Evaluation of Digital Control Systems for the Semi-Span Super-Sonic Transport (S4T) Wind Tunnel Model

NASA Technical Reports Server (NTRS)

Wieseman, Carol D.; Christhilf, David; Perry, Boyd, III

2012-01-01

An important objective of the Semi-Span Super-Sonic Transport (S4T) wind tunnel model program was the demonstration of Flutter Suppression (FS), Gust Load Alleviation (GLA), and Ride Quality Enhancement (RQE). It was critical to evaluate the stability and robustness of these control laws analytically before testing them and experimentally while testing them to ensure safety of the model and the wind tunnel. MATLAB based software was applied to evaluate the performance of closed-loop systems in terms of stability and robustness. Existing software tools were extended to use analytical representations of the S4T and the control laws to analyze and evaluate the control laws prior to testing. Lessons were learned about the complex windtunnel model and experimental testing. The open-loop flutter boundary was determined from the closed-loop systems. A MATLAB/Simulink Simulation developed under the program is available for future work to improve the CPE process. This paper is one of a series of that comprise a special session, which summarizes the S4T wind-tunnel program.

Solitons, τ-functions and hamiltonian reduction for non-Abelian conformal affine Toda theories

NASA Astrophysics Data System (ADS)

Ferreira, L. A.; Miramontes, J. Luis; Guillén, Joaquín Sánchez

1995-02-01

We consider the Hamiltonian reduction of the "two-loop" Wess-Zumino-Novikov-Witten model (WZNW) based on an untwisted affine Kac-Moody algebra G. The resulting reduced models, called Generalized Non-Abelian Conformal Affine Toda (G-CAT), are conformally invariant and a wide class of them possesses soliton solutions; these models constitute non-Abelian generalizations of the conformal affine Toda models. Their general solution is constructed by the Leznov-Saveliev method. Moreover, the dressing transformations leading to the solutions in the orbit of the vacuum are considered in detail, as well as the τ-functions, which are defined for any integrable highest weight representation of G, irrespectively of its particular realization. When the conformal symmetry is spontaneously broken, the G-CAT model becomes a generalized affine Toda model, whose soliton solutions are constructed. Their masses are obtained exploring the spontaneous breakdown of the conformal symmetry, and their relation to the fundamental particle masses is discussed. We also introduce what we call the two-loop Virasoro algebra, describing extended symmetries of the two-loop WZNW models.

Structure prediction of the second extracellular loop in G-protein-coupled receptors.

PubMed

Kmiecik, Sebastian; Jamroz, Michal; Kolinski, Michal

2014-06-03

G-protein-coupled receptors (GPCRs) play key roles in living organisms. Therefore, it is important to determine their functional structures. The second extracellular loop (ECL2) is a functionally important region of GPCRs, which poses significant challenge for computational structure prediction methods. In this work, we evaluated CABS, a well-established protein modeling tool for predicting ECL2 structure in 13 GPCRs. The ECL2s (with between 13 and 34 residues) are predicted in an environment of other extracellular loops being fully flexible and the transmembrane domain fixed in its x-ray conformation. The modeling procedure used theoretical predictions of ECL2 secondary structure and experimental constraints on disulfide bridges. Our approach yielded ensembles of low-energy conformers and the most populated conformers that contained models close to the available x-ray structures. The level of similarity between the predicted models and x-ray structures is comparable to that of other state-of-the-art computational methods. Our results extend other studies by including newly crystallized GPCRs. Copyright © 2014 The Authors. Published by Elsevier Inc. All rights reserved.

MATLAB/Simulink Framework for Modeling Complex Coolant Flow Configurations of Advanced Automotive Thermal Management Systems: Preprint

DOE Office of Scientific and Technical Information (OSTI.GOV)

Titov, Eugene; Lustbader, Jason; Leighton, Daniel

The National Renewable Energy Laboratory's (NREL's) CoolSim MATLAB/Simulink modeling framework was extended by including a newly developed coolant loop solution method aimed at reducing the simulation effort for arbitrarily complex thermal management systems. The new approach does not require the user to identify specific coolant loops and their flow. The user only needs to connect the fluid network elements in a manner consistent with the desired schematic. Using the new solution method, a model of NREL's advanced combined coolant loop system for electric vehicles was created that reflected the test system architecture. This system was built using components provided bymore » the MAHLE Group and included both air conditioning and heat pump modes. Validation with test bench data and verification with the previous solution method were performed for 10 operating points spanning a range of ambient temperatures between -2 degrees C and 43 degrees C. The largest root mean square difference between pressure, temperature, energy and mass flow rate data and simulation results was less than 7%.« less

MATLAB/Simulink Framework for Modeling Complex Coolant Flow Configurations of Advanced Automotive Thermal Management Systems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Titov, Gene; Lustbader, Jason; Leighton, Daniel

The National Renewable Energy Laboratory's (NREL's) CoolSim MATLAB/Simulink modeling framework was extended by including a newly developed coolant loop solution method aimed at reducing the simulation effort for arbitrarily complex thermal management systems. The new approach does not require the user to identify specific coolant loops and their flow. The user only needs to connect the fluid network elements in a manner consistent with the desired schematic. Using the new solution method, a model of NREL's advanced combined coolant loop system for electric vehicles was created that reflected the test system architecture. This system was built using components provided bymore » the MAHLE Group and included both air conditioning and heat pump modes. Validation with test bench data and verification with the previous solution method were performed for 10 operating points spanning a range of ambient temperatures between -2 degrees C and 43 degrees C. The largest root mean square difference between pressure, temperature, energy and mass flow rate data and simulation results was less than 7%.« less

Equilibrium carbon and hydrogen isotope fractionation in iron

NASA Astrophysics Data System (ADS)

Schauble, E. A.

2009-12-01

Recent theoretical and experimental studies (e.g., [1-3]) have suggested that Si- and Fe-isotopic signatures can be used to characterize the compositions and conditions of segregation of metallic cores in planetary interiors. This study expands the theoretical framework to include carbon and hydrogen, which may also be alloying elements. Hydrogen (D/H) and carbon (13C/12C) fractionations in iron-rich metallic melts are estimated by modeling analogous iron-rich crystals, i.e., dhcp-FeH and η-Fe2C. C- and H-atoms in these crystals are completely coordinated by iron. The driving energy for equilibrium fractionation is assumed to come from the reduction of vibrational frequencies when heavy isotopes are substituted for light ones; vibrations are assumed to be harmonic. This treatment is crude at high temperature, and for the relatively anharmonic vibrations typical of hydrogen-bearing substances, but may provide a reasonably accurate, semi-quantitative approximation of real fractionation behavior. Vibrational frequencies of all crystals are modeled with density functional theory, using gradient-corrected functionals and ultrasoft pseudopotentials. For both carbon and hydrogen, the models suggest that the metal phase will be strongly depleted in heavy isotopes. At 2000 K, 1 atm, η-Fe2C will have 3‰ lower 13C/12C than coexisting diamond. Combining this result with previous high-temperature theoretical and experimental studies (e.g., [4]), metal-graphite fractionation is expected to be very similar, while metal-CO2 fractionation will be almost twice as large, ca. -5‰. Deuterium/hydrogen fractionations are expected to be an order of magnitude larger, with 50-70‰ lower D/H in dhcp-FeH than in coexisting H2 gas at 2000 K, and approximately 100‰ lower D/H than water vapor. These fractionations are much larger than those inferred for silicon and iron, as expected given the differences in atomic mass. References: 1. Georg et al. (2007) Nature 447:1102; 2. Rustad & Yin (2009) Nature Geoscience doi:10.1038/ngeo546; 3. Polyakov (2009) Science 323:912; 4. Polyakov & Kharlashina (1995) GCA 59:2561.

Symmetries of hyper-Kähler (or Poisson gauge field) hierarchy

NASA Astrophysics Data System (ADS)

Takasaki, K.

1990-08-01

Symmetry properties of the space of complex (or formal) hyper-Kähler metrics are studied in the language of hyper-Kähler hierarchies. The construction of finite symmetries is analogous to the theory of Riemann-Hilbert transformations, loop group elements now taking values in a (pseudo-) group of canonical transformations of a simplectic manifold. In spite of their highly nonlinear and involved nature, infinitesimal expressions of these symmetries are shown to have a rather simple form. These infinitesimal transformations are extended to the Plebanski key functions to give rise to a nonlinear realization of a Poisson loop algebra. The Poisson algebra structure turns out to originate in a contact structure behind a set of symplectic structures inherent in the hyper-Kähler hierarchy. Possible relations to membrane theory are briefly discussed.

Unified sensor management in unknown dynamic clutter

NASA Astrophysics Data System (ADS)

Mahler, Ronald; El-Fallah, Adel

2010-04-01

In recent years the first author has developed a unified, computationally tractable approach to multisensor-multitarget sensor management. This approach consists of closed-loop recursion of a PHD or CPHD filter with maximization of a "natural" sensor management objective function called PENT (posterior expected number of targets). In this paper we extend this approach so that it can be used in unknown, dynamic clutter backgrounds.

Structural and molecular dynamics studies of a C1-oxidizing lytic polysaccharide monooxygenase from Heterobasidion irregulare reveal amino acids important for substrate recognition

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liu, Bing; Kognole, Abhishek A.; Wu, Miao

Lytic polysaccharide monooxygenases (LPMOs) are a group of recently discovered enzymes that play important roles in the decomposition of recalcitrant polysaccharides. Here, we report the biochemical, structural, and computational characterization of an LPMO from the white-rot fungus Heterobasidion irregulare (HiLPMO9B). This enzyme oxidizes cellulose at the C1 carbon of glycosidic linkages. The crystal structure of HiLPMO9B was determined at 2.1 A resolution using X-ray crystallography. Unlike the majority of the currently available C1-specific LPMO structures, the HiLPMO9B structure contains an extended L2 loop, connecting ..beta..-strands ..beta..2 and ..beta..3 of the ..beta..-sandwich structure. Molecular dynamics (MD) simulations suggest roles for bothmore » aromatic and acidic residues in the substrate binding of HiLPMO9B, with the main contribution from the residues located on the extended region of the L2 loop (Tyr20) and the LC loop (Asp205, Tyr207, and Glu210). Asp205 and Glu210 were found to be involved in the hydrogen bonding with the hydroxyl group of the C6 carbon of glucose moieties directly or via a water molecule. Two different binding orientations were observed over the course of the MD simulations. In each orientation, the active-site copper of this LPMO preferentially skewed toward the pyranose C1 of the glycosidic linkage over the targeted glycosidic bond. This study provides additional insight into cellulose binding by C1-specific LPMOs, giving a molecular-level picture of active site substrate interactions.« less

Crystal Structure of the Pseudomonas aeruginosa BEL-1 Extended-Spectrum β-Lactamase and Its Complexes with Moxalactam and Imipenem

PubMed Central

Pozzi, Cecilia; De Luca, Filomena; Benvenuti, Manuela; Poirel, Laurent; Nordmann, Patrice; Rossolini, Gian Maria

2016-01-01

BEL-1 is an acquired class A extended-spectrum β-lactamase (ESBL) found in Pseudomonas aeruginosa clinical isolates from Belgium which is divergent from other ESBLs (maximum identity of 54% with GES-type enzymes). This enzyme is efficiently inhibited by clavulanate, imipenem, and moxalactam. Crystals of BEL-1 were obtained at pH 5.6, and the structure of native BEL-1 was determined from orthorhombic and monoclinic crystal forms at 1.60-Å and 1.48-Å resolution, respectively. By soaking native BEL-1 crystals, complexes with imipenem (monoclinic form, 1.79-Å resolution) and moxalactam (orthorhombic form, 1.85-Å resolution) were also obtained. In the acyl-enzyme complexes, imipenem and moxalactam differ by the position of the α-substituent and of the carbonyl oxygen (in or out of the oxyanion hole). More surprisingly, the Ω-loop, which includes the catalytically relevant residue Glu166, was found in different conformations in the various subunits, resulting in the Glu166 side chain being rotated out of the active site or even in displacement of its Cα atom up to approximately 10 Å. A BEL-1 variant showing the single Leu162Phe substitution (BEL-2) confers a higher level of resistance to CAZ, CTX, and FEP and shows significantly lower Km values than BEL-1, especially with oxyiminocephalosporins. BEL-1 Leu162 is located at the beginning of the Ω-loop and is surrounded by Phe72, Leu139, and Leu148 (contact distances, 3.5 to 3.9 Å). This small hydrophobic cavity could not reasonably accommodate the bulkier Phe162 found in BEL-2 without altering neighboring residues or the Ω-loop itself, thus likely causing an important alteration of the enzyme kinetic properties. PMID:27671060

Developing dissolution testing methodologies for extended-release oral dosage forms with supersaturating properties. Case example: Solid dispersion matrix of indomethacin.

PubMed

Tajiri, Tomokazu; Morita, Shigeaki; Sakamoto, Ryosaku; Mimura, Hisahi; Ozaki, Yukihiro; Reppas, Christos; Kitamura, Satoshi

2015-07-25

The objective of this study was to develop an in vitro dissolution test method with discrimination ability for an extended-release solid dispersion matrix of a lipophilic drug using the United States Pharmacopeia (USP) Apparatus 4, flow-through cell apparatus. In the open-loop configuration, the sink condition was maintained by manipulating the flow rate of the dissolution medium. To evaluate the testing conditions, the drug release mechanism from an extended-release solid dispersion matrix containing hydrophobic and hydrophilic polymers was investigated. As the hydroxypropyl methylcellulose (HPMC) maintained concentrations of indomethacin higher than the solubility in a dissolution medium, the release of HPMC into the dissolution medium was also quantified using size-exclusion chromatography. We concluded that the USP Apparatus 4 is suitable for application to an in vitro dissolution method for orally administered extended-release solid dispersion matrix formulations containing poorly water-soluble drugs. Copyright © 2015 Elsevier B.V. All rights reserved.

Loop Quantum Cosmology.

PubMed

Bojowald, Martin

2008-01-01

Quantum gravity is expected to be necessary in order to understand situations in which classical general relativity breaks down. In particular in cosmology one has to deal with initial singularities, i.e., the fact that the backward evolution of a classical spacetime inevitably comes to an end after a finite amount of proper time. This presents a breakdown of the classical picture and requires an extended theory for a meaningful description. Since small length scales and high curvatures are involved, quantum effects must play a role. Not only the singularity itself but also the surrounding spacetime is then modified. One particular theory is loop quantum cosmology, an application of loop quantum gravity to homogeneous systems, which removes classical singularities. Its implications can be studied at different levels. The main effects are introduced into effective classical equations, which allow one to avoid the interpretational problems of quantum theory. They give rise to new kinds of early-universe phenomenology with applications to inflation and cyclic models. To resolve classical singularities and to understand the structure of geometry around them, the quantum description is necessary. Classical evolution is then replaced by a difference equation for a wave function, which allows an extension of quantum spacetime beyond classical singularities. One main question is how these homogeneous scenarios are related to full loop quantum gravity, which can be dealt with at the level of distributional symmetric states. Finally, the new structure of spacetime arising in loop quantum gravity and its application to cosmology sheds light on more general issues, such as the nature of time. Supplementary material is available for this article at 10.12942/lrr-2008-4.

Tolerance of canine anastomoses to intraoperative radiation therapy

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tepper, J.E.; Sindelar, W.; Travis, E.L.

1983-07-01

Radiation has been given intraoperatively to various abdominal structures in dogs, using a fixed horizontal 11 MeV electron beam at the Armed Forces Radiobiologic Research Institute. Animals were irradiated with single doses of 2000, 3000 and 4500 rad to a field which extended from the bifurcation of the aorta to the rib cage. All animals were irradiated during laparotomy under general anesthesia. Because the clinical use of intraoperative radiotherapy in cancer treatment will occasionally require irradiation of anastomosed large vessels and blind loops of bowel, the tolerance of aortic anastomoses and the suture lines of blind loops of jejunum tomore » irradiation were studied. Responses in these experiments were scored at times up to one year after irradiation. In separate experiments both aortic and intestinal anastomoses were performed on each animal for evaluation of short term response. The dogs with aortic anastomoses showed adequate healing at all doses with no evidence of suture line weakening. On long-term follow-up one animal (2000 rad) had stenosis at the anastomosis and one animal (4500 rad) developed an arteriovenous fistula. Three of the animals that had an intestinal blind loop irradiated subsequently developed intussusception, with the irradiated loop acting as the lead point. One week after irradiation, bursting pressure of an intestinal blind loop was normal at 3000 rad, but markedly decreased at 4500 rad. No late complications were noted after the irradiation of the intestinal anastomosis. No late complicatons were observed after irradiation of intestinal anastomoses, but one needs to be cautious with regards to possible late stenosis at the site of an irradiated vascular anastomosis.« less

Evidence for two-loop interaction from IRIS and SDO observations of penumbral brightenings

NASA Astrophysics Data System (ADS)

Alissandrakis, C. E.; Koukras, A.; Patsourakos, S.; Nindos, A.

2017-07-01

Aims: We investigate small scale energy release events which can provide clues on the heating mechanism of the solar corona. Methods: We analyzed spectral and imaging data from the Interface Region Imaging Spectrograph (IRIS), images from the Atmospheric Imaging Assembly (AIA) aboard the Solar Dynamics Observatoty (SDO), and magnetograms from the Helioseismic and Magnetic Imager (HMI) aboard SDO. Results: We report observations of small flaring loops in the penumbra of a large sunspot on July 19, 2013. Our main event consisted of a loop spanning 15'', from the umbral-penumbral boundary to an opposite polarity region outside the penumbra. It lasted approximately 10 min with a two minute impulsive peak and was observed in all AIA/SDO channels, while the IRIS slit was located near its penumbral footpoint. Mass motions with an apparent velocity of 100 km s-1 were detected beyond the brightening, starting in the rise phase of the impulsive peak; these were apparently associated with a higher-lying loop. We interpret these motions in terms of two-loop interaction. IRIS spectra in both the C II and Si iv lines showed very extended wings, up to about 400 km s-1, first in the blue (upflows) and subsequently in the red wing. In addition to the strong lines, emission was detected in the weak lines of Cl I, O I and C I, as well as in the Mg II triplet lines. Absorption features in the profiles of the C II doublet, the Si iv doublet and the Mg II h and k lines indicate the existence of material with a lower source function between the brightening and the observer. We attribute this absorption to the higher loop and this adds further credibility to the two-loop interaction hypothesis. Tilts were detected in the absorption spectra, as well as in the spectra of Cl I, O I, and C I lines, possibly indicating rotational motions from the untwisting of magnetic flux tubes. Conclusions: We conclude that the absorption features in the C II, Si iv and Mg II profiles originate in a higher-lying, descending loop; as this approached the already activated lower-lying loop, their interaction gave rise to the impulsive peak, the very broad line profiles and the mass motions. Movies associated to Figs. A.1-A.3 are available at http://www.aanda.org

Target-in-the-loop beam control: basic considerations for analysis and wave-front sensing

NASA Astrophysics Data System (ADS)

Vorontsov, Mikhail A.; Kolosov, Valeriy

2005-01-01

Target-in-the-loop (TIL) wave propagation geometry represents perhaps the most challenging case for adaptive optics applications that are related to maximization of irradiance power density on extended remotely located surfaces in the presence of dynamically changing refractive-index inhomogeneities in the propagation medium. We introduce a TIL propagation model that uses a combination of the parabolic equation describing coherent outgoing-wave propagation, and the equation describing evolution of the mutual correlation function (MCF) for the backscattered wave (return wave). The resulting evolution equation for the MCF is further simplified by use of the smooth-refractive-index approximation. This approximation permits derivation of the transport equation for the return-wave brightness function, analyzed here by the method of characteristics (brightness function trajectories). The equations for the brightness function trajectories (ray equations) can be efficiently integrated numerically. We also consider wave-front sensors that perform sensing of speckle-averaged characteristics of the wave-front phase (TIL sensors). Analysis of the wave-front phase reconstructed from Shack-Hartmann TIL sensor measurements shows that an extended target introduces a phase modulation (target-induced phase) that cannot be easily separated from the atmospheric-turbulence-related phase aberrations. We also show that wave-front sensing results depend on the extended target shape, surface roughness, and outgoing-beam intensity distribution on the target surface. For targets with smooth surfaces and nonflat shapes, the target-induced phase can contain aberrations. The presence of target-induced aberrations in the conjugated phase may result in a deterioration of adaptive system performance.

Target-in-the-loop beam control: basic considerations for analysis and wave-front sensing.

PubMed

Vorontsov, Mikhail A; Kolosov, Valeriy

2005-01-01

Target-in-the-loop (TIL) wave propagation geometry represents perhaps the most challenging case for adaptive optics applications that are related to maximization of irradiance power density on extended remotely located surfaces in the presence of dynamically changing refractive-index inhomogeneities in the propagation medium. We introduce a TIL propagation model that uses a combination of the parabolic equation describing coherent outgoing-wave propagation, and the equation describing evolution of the mutual correlation function (MCF) for the backscattered wave (return wave). The resulting evolution equation for the MCF is further simplified by use of the smooth-refractive-index approximation. This approximation permits derivation of the transport equation for the return-wave brightness function, analyzed here by the method of characteristics (brightness function trajectories). The equations for the brightness function trajectories (ray equations) can be efficiently integrated numerically. We also consider wave-front sensors that perform sensing of speckle-averaged characteristics of the wave-front phase (TIL sensors). Analysis of the wave-front phase reconstructed from Shack-Hartmann TIL sensor measurements shows that an extended target introduces a phase modulation (target-induced phase) that cannot be easily separated from the atmospheric-turbulence-related phase aberrations. We also show that wave-front sensing results depend on the extended target shape, surface roughness, and outgoing-beam intensity distribution on the target surface. For targets with smooth surfaces and nonflat shapes, the target-induced phase can contain aberrations. The presence of target-induced aberrations in the conjugated phase may result in a deterioration of adaptive system performance.

Remarkable sequence conservation of the last intron in the PKD1 gene.

PubMed

Rodova, Marianna; Islam, M Rafiq; Peterson, Kenneth R; Calvet, James P

2003-10-01

The last intron of the PKD1 gene (intron 45) was found to have exceptionally high sequence conservation across four mammalian species: human, mouse, rat, and dog. This conservation did not extend to the comparable intron in pufferfish. Pairwise comparisons for intron 45 showed 91% identity (human vs. dog) to 100% identity (mouse vs. rat) for an average for all four species of 94% identity. In contrast, introns 43 and 44 of the PKD1 gene had average pairwise identities of 57% and 54%, and exons 43, 44, and 45 and the coding region of exon 46 had average pairwise identities of 80%, 84%, 82%, and 80%. Intron 45 is 90 to 95 bp in length, with the major region of sequence divergence being in a central 4-bp to 9-bp variable region. RNA secondary structure analysis of intron 45 predicts a branching stem-loop structure in which the central variable region lies in one loop and the putative branch point sequence lies in another loop, suggesting that the intron adopts a specific stem-loop structure that may be important for its removal. Although intron 45 appears to conform to the class of small, G-triplet-containing introns that are spliced by a mechanism utilizing intron definition, its high sequence conservation may be a reflection of constraints imposed by a unique mechanism that coordinates splicing of this last PKD1 intron with polyadenylation.

Inhibition of F1-ATPase rotational catalysis by the carboxyl-terminal domain of the ϵ subunit.

PubMed

Nakanishi-Matsui, Mayumi; Sekiya, Mizuki; Yano, Shio; Futai, Masamitsu

2014-10-31

Escherichia coli ATP synthase (F0F1) couples catalysis and proton transport through subunit rotation. The ϵ subunit, an endogenous inhibitor, lowers F1-ATPase activity by decreasing the rotation speed and extending the duration of the inhibited state (Sekiya, M., Hosokawa, H., Nakanishi-Matsui, M., Al-Shawi, M. K., Nakamoto, R. K., and Futai, M. (2010) Single molecule behavior of inhibited and active states of Escherichia coli ATP synthase F1 rotation. J. Biol. Chem. 285, 42058-42067). In this study, we constructed a series of ϵ subunits truncated successively from the carboxyl-terminal domain (helix 1/loop 2/helix 2) and examined their effects on rotational catalysis (ATPase activity, average rotation rate, and duration of inhibited state). As expected, the ϵ subunit lacking helix 2 caused about ½-fold reduced inhibition, and that without loop 2/helix 2 or helix 1/loop 2/helix 2 showed a further reduced effect. Substitution of ϵSer(108) in loop 2 and ϵTyr(114) in helix 2, which possibly interact with the β and γ subunits, respectively, decreased the inhibitory effect. These results suggest that the carboxyl-terminal domain of the ϵ subunit plays a pivotal role in the inhibition of F1 rotation through interaction with other subunits. © 2014 by The American Society for Biochemistry and Molecular Biology, Inc.

Calculating massive 3-loop graphs for operator matrix elements by the method of hyperlogarithms

NASA Astrophysics Data System (ADS)

Ablinger, Jakob; Blümlein, Johannes; Raab, Clemens; Schneider, Carsten; Wißbrock, Fabian

2014-08-01

We calculate convergent 3-loop Feynman diagrams containing a single massive loop equipped with twist τ=2 local operator insertions corresponding to spin N. They contribute to the massive operator matrix elements in QCD describing the massive Wilson coefficients for deep-inelastic scattering at large virtualities. Diagrams of this kind can be computed using an extended version of the method of hyperlogarithms, originally being designed for massless Feynman diagrams without operators. The method is applied to Benz- and V-type graphs, belonging to the genuine 3-loop topologies. In case of the V-type graphs with five massive propagators, new types of nested sums and iterated integrals emerge. The sums are given in terms of finite binomially and inverse binomially weighted generalized cyclotomic sums, while the 1-dimensionally iterated integrals are based on a set of ∼30 square-root valued letters. We also derive the asymptotic representations of the nested sums and present the solution for N∈C. Integrals with a power-like divergence in N-space ∝aN,a∈R,a>1, for large values of N emerge. They still possess a representation in x-space, which is given in terms of root-valued iterated integrals in the present case. The method of hyperlogarithms is also used to calculate higher moments for crossed box graphs with different operator insertions.

High-altitude closed magnetic loops at Mars observed by MAVEN

NASA Astrophysics Data System (ADS)

Xu, Shaosui; Mitchell, David; Luhmann, Janet; Ma, Yingjuan; Fang, Xiaohua; Harada, Yuki; Hara, Takuya; Brain, David; Webber, Tristan; Mazelle, Christian; DiBraccio, Gina A.

2017-10-01

With electron and magnetic field data obtained by the Mars Atmosphere and Volatile EvolutioN (MAVEN) spacecraft, we have identified closed magnetic field lines, with both footpoints embedded in the dayside ionosphere, extending up to 6200 km altitude (2.8 $R_m$) into the Martian tail. This topology is deduced from photoelectrons produced in the dayside ionosphere being observed in both parallel and anti-parallel directions along the magnetic field line. At perpendicular pitch angles, cases with either solar wind electrons or photoelectrons have been found, indicative of different formation mechanisms of these closed loops. These large closed loops are predicted by MHD simulations. The case with field-aligned photoelectrons mixed with perpendicular solar wind electrons is likely to be associated with reconnection, while the case with photoelectrons in all directions are probably due to closed field lines being pulled back down tail. We have developed an automated algorithm for distinguishing photoelectrons from solar wind electrons in pitch angle resolved energy spectra. This allows us to systematically analyze the MAVEN database and map the spatial distribution and occurrence rate of these closed magnetic loops, ranging from a few percent to a few tens percent outside of the optical shadow and less than one percent within the wake. These observations can be used to investigate the general magnetic topology in the tail, which is relevant to ion escape, reconnection, and flux ropes.

Open Ephys: an open-source, plugin-based platform for multichannel electrophysiology.

PubMed

Siegle, Joshua H; López, Aarón Cuevas; Patel, Yogi A; Abramov, Kirill; Ohayon, Shay; Voigts, Jakob

2017-08-01

Closed-loop experiments, in which causal interventions are conditioned on the state of the system under investigation, have become increasingly common in neuroscience. Such experiments can have a high degree of explanatory power, but they require a precise implementation that can be difficult to replicate across laboratories. We sought to overcome this limitation by building open-source software that makes it easier to develop and share algorithms for closed-loop control. We created the Open Ephys GUI, an open-source platform for multichannel electrophysiology experiments. In addition to the standard 'open-loop' visualization and recording functionality, the GUI also includes modules for delivering feedback in response to events detected in the incoming data stream. Importantly, these modules can be built and shared as plugins, which makes it possible for users to extend the functionality of the GUI through a simple API, without having to understand the inner workings of the entire application. In combination with low-cost, open-source hardware for amplifying and digitizing neural signals, the GUI has been used for closed-loop experiments that perturb the hippocampal theta rhythm in a phase-specific manner. The Open Ephys GUI is the first widely used application for multichannel electrophysiology that leverages a plugin-based workflow. We hope that it will lower the barrier to entry for electrophysiologists who wish to incorporate real-time feedback into their research.

Probing the Self-Assembly and the Accompanying Structural Changes of Hydrophobin SC3 on a Hydrophobic Surface by Mass Spectrometry

PubMed Central

Wang, X.; Permentier, H. P.; Rink, R.; Kruijtzer, J. A. W.; Liskamp, R. M. J.; Wösten, H. A. B.; Poolman, B.; Robillard, G. T.

2004-01-01

The fungal class I hydrophobin SC3 self-assembles into an amphipathic membrane at hydrophilic-hydrophobic interfaces such as the water-air and water-Teflon interface. During self-assembly, the water-soluble state of SC3 proceeds via the intermediate α-helical state to the stable end form called the β-sheet state. Self-assembly of the hydrophobin at the Teflon surface is arrested in the α-helical state. The β-sheet state can be induced at elevated temperature in the presence of detergent. The structural changes of SC3 were monitored by various mass spectrometry techniques. We show that the so-called second loop of SC3 (C39–S72) has a high affinity for Teflon. Binding of this part of SC3 to Teflon was accompanied by the formation of α-helical structure and resulted in low solvent accessibility. The solvent-protected region of the second loop extended upon conversion to the β-sheet state. In contrast, the C-terminal part of SC3 became more exposed to the solvent. The results indicate that the second loop of class I hydrophobins plays a pivotal role in self-assembly at the hydrophilic-hydrophobic interface. Of interest, this loop is much smaller in case of class II hydrophobins, which may explain the differences in their assembly. PMID:15345568

Generalization and transfer of advanced Ukrainian expertise in dynamic aerospace design to students

NASA Astrophysics Data System (ADS)

Konyukhov, Stanislav; Igdalov, Iosif; Polyakov, Nikolai; Sheptun, Yuory

2009-01-01

The presentation of the textbooks, A launch Vehicle as a Control Object (2004) and Launch Vehicles and Space Stages as Control Objects (2007, an updated and structured edition of the first book in Ukrainian), is discussed here. The textbooks are edited by Academician S.N. Konyukhov and the authors are I.M. Igdalov, L.D. Kuchma, N.V. Polyakov, and Yu.D. Sheptun. The textbooks are devoted to the problems of the theory and practice of dynamic design of long-range ballistic missiles (LRBM) and launch vehicles designed using "unconventional" approaches or original engineering solutions by a team of specialized companies lead by the Dniepropetrovsk Aerospace Center at Yuzhnoye SDO and Yuzhmash, with the participation of scientists of the Dniepropetrovsk National University (DNU) and the Institute of Technical Mechanics (ITM) at the National Academy of Science of Ukraine.

Stellar Equilibrium in Semiclassical Gravity.

PubMed

Carballo-Rubio, Raúl

2018-02-09

The phenomenon of quantum vacuum polarization in the presence of a gravitational field is well understood and is expected to have a physical reality, but studies of its backreaction on the dynamics of spacetime are practically nonexistent outside of the specific context of homogeneous cosmologies. Building on previous results of quantum field theory in curved spacetimes, in this Letter we first derive the semiclassical equations of stellar equilibrium in the s-wave Polyakov approximation. It is highlighted that incorporating the polarization of the quantum vacuum leads to a generalization of the classical Tolman-Oppenheimer-Volkoff equation. Despite the complexity of the resulting field equations, it is possible to find exact solutions. Aside from being the first known exact solutions that describe relativistic stars including the nonperturbative backreaction of semiclassical effects, these are identified as a nontrivial combination of the black star and gravastar proposals.

Infusion of Autologous Lysed Plasma Into the Baboon: Assessment of Coagulation, Platelet, and Pulmonary Function

DTIC Science & Technology

1993-06-03

obtained from whole blood collected into a commercially available tube containing thrombin and epsilon aminocaproic acid (Wellcome 44 Diagnostics...first proposed by Hall & Slayter in 1959 as an extended, multidomained molecule. Electron microscopy, amino acid sequencing and proteolytic studies have...Plasminogen (Figure 7) is a single chain, 88 kilodalton glycoprotein. It contains 790 amino acids , 24 disulfide bridges and five homologous triple loop

Environmental Assessment: Building 3001 Tinker Air Force Base, Oklahoma

DTIC Science & Technology

2008-09-01

developing a Memorandum of Agreement (MOA) with the SHPO and the Oklahoma Archaeological Survey regarding the potential effects the Proposed Action...3.3.5.4 Electrical System Tinker AFB receives its electrical power from Oklahoma Gas and Electric, which delivers power through a looped 138... gas , with diesel fuel used as the backup supply. The steam line system is primarily underground, with a limited number of lines extending

Validation on flight data of a closed-loop approach for GPS-based relative navigation of LEO satellites

NASA Astrophysics Data System (ADS)

Tancredi, U.; Renga, A.; Grassi, M.

2013-05-01

This paper describes a carrier-phase differential GPS approach for real-time relative navigation of LEO satellites flying in formation with large separations. These applications are characterized indeed by a highly varying number of GPS satellites in common view and large ionospheric differential errors, which significantly impact relative navigation performance and robustness. To achieve high relative positioning accuracy a navigation algorithm is proposed which processes double-difference code and carrier measurements on two frequencies, to fully exploit the integer nature of the related ambiguities. Specifically, a closed-loop scheme is proposed in which fixed estimates of the baseline and integer ambiguities produced by means of a partial integer fixing step are fed back to an Extended Kalman Filter for improving the float estimate at successive time instants. The approach also benefits from the inclusion in the filter state of the differential ionospheric delay in terms of the Vertical Total Electron Content of each satellite. The navigation algorithm performance is tested on actual flight data from GRACE mission. Results demonstrate the effectiveness of the proposed approach in managing integer unknowns in conjunction with Extended Kalman Filtering, and that centimeter-level accuracy can be achieved in real-time also with large separations.

Extended investigation of the twelve-flavor β-function

NASA Astrophysics Data System (ADS)

Fodor, Zoltán; Holland, Kieran; Kuti, Julius; Nógrádi, Dániel; Wong, Chik Him

2018-04-01

We report new results from high precision analysis of an important BSM gauge theory with twelve massless fermion flavors in the fundamental representation of the SU(3) color gauge group. The range of the renormalized gauge coupling is extended from our earlier work [1] to probe the existence of an infrared fixed point (IRFP) in the β-function reported at two different locations, originally in [2] and at a new location in [3]. We find no evidence for the IRFP of the β-function in the extended range of the renormalized gauge coupling, in disagreement with [2,3]. New arguments to guard the existence of the IRFP remain unconvincing [4], including recent claims of an IRFP with ten massless fermion flavors [5,6] which we also rule out. Predictions of the recently completed 5-loop QCD β-function for general flavor number are discussed in this context.

Prototyping a compact system for active vibration isolation using piezoelectric sensors and actuators.

PubMed

Shen, Hui; Wang, Chun; Li, Liufeng; Chen, Lisheng

2013-05-01

Being small in size and weight, piezoelectric transducers hold unique positions in vibration sensing and control. Here, we explore the possibility of building a compact vibration isolation system using piezoelectric sensors and actuators. The mechanical resonances of a piezoelectric actuator around a few kHz are suppressed by an order of magnitude via electrical damping, which improves the high-frequency response. Working with a strain gauge located on the piezoelectric actuator, an auxiliary control loop eliminates the drift associated with a large servo gain at dc. Following this approach, we design, optimize, and experimentally verify the loop responses using frequency domain analysis. The vibration isolation between 1 Hz and 200 Hz is achieved and the attenuation peaks at 60 near vibration frequency of 20 Hz. Restrictions and potentials for extending the isolation to lower vibration frequencies are discussed.

Running coupling constant from lattice studies of gluon and ghost propagators

NASA Astrophysics Data System (ADS)

Cucchieri, A.; Mendes, T.

2004-12-01

We present a numerical study of the running coupling constant in four-dimensional pure-SU(2) lattice gauge theory. The running coupling is evaluated by fitting data for the gluon and ghost propagators in minimal Landau gauge. Following Refs. [1, 2], the fitting formulae are obtained by a simultaneous integration of the β function and of a function coinciding with the anomalous dimension of the propagator in the momentum subtraction scheme. We consider these formulae at three and four loops. The fitting method works well, especially for the ghost case, for which statistical error and hyper-cubic effects are very small. Our present result for ΛMS is 200-40+60 MeV, where the error is purely systematic. We are currently extending this analysis to five loops in order to reduce this systematic error.

[Esophagojejunal anastomoses with the EEA stapler after total gastrectomy. Technic and immediate results apropos of a recent series of 32 cases].

PubMed

Le Treut, Y P; Delpero, J R; Sabiani, P; Berthet, B; Bozon-Verduraz, E; Pol, B; Bricot, R

1987-12-01

32 consecutive total gastrectomies for cancer (20 extended total gastrectomies) were carried out through an abdominal approach. Reconstruction using a Rouxen-Y loop (28 cases) or an interposed jejunal loop (four cases) was done with an EEA stapled oesophago jejunostomy: 25 end to side and 5 end to end anastomosis were performed and two technical failures led to complete manual anastomosis. All patients have had post-operative X-ray examination: there was no anastomotic leakage in this series, even in the 3 patients (10%) who have died during the post-operative course. A critical study of this series and eight others one from elsewhere is presented: it is concluded that the stapling device allows an easier and safer oesophagojejunostomy than manual procedure, when great care is taken of technical details.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ahuatzin, G.; Bautista, I.; Hernandez-Lopez, J. A.

A constant antisymmetric 2-tensor can arise in general relativity with spontaneous symmetry breaking or in field theories formulated in a noncommutative space-time. In this work, the one-loop contribution of a nonstandard WW{gamma} vertex on the flavor violating quark transition q{sub i}{yields}q{sub j}{gamma} is studied in the context of the electroweak Yang-Mills sector extended with a Lorentz-violating constant 2-tensor. An exact analytical expression for the on-shell case is presented. It is found that the loop amplitude is gauge independent, electromagnetic gauge invariant, and free of ultraviolet divergences. The dipolar contribution to the b{yields}s{gamma} transition together with the experimental data on themore » B{yields}X{sub s{gamma}} decay is used to derive the constraint {Lambda}{sub LV}>1.96 TeV on the Lorentz-violating scale.« less

Orthodontic Replacement of Lost Permanent Molar with Neighbor Molar: A Six-Year Follow-Up

PubMed Central

Shintcovsk, Ricardo Lima; Knop, Luegya Amorim Henriques; Sampaio, Luana Paz

2017-01-01

Extraction is very frequent indication in orthodontic planning, especially when there are crowding, biprotrusion, and aesthetically unpleasant profiles. Next to extraction comes space closure, which represents a challenge for orthodontists because of extended treatment time, discomfort created for the patient, tissue tolerance, and stability concerns. When it comes to what mechanics to choose for space closure, loops present two major advantages in relation to sliding mechanics: absence of abrasion and possibility to reach pure dental translation. A case is presented where an adult female patient with early loss of the first lower permanent molars, minor lower crowding, and tooth biprotrusion was treated with upper first bicuspids extraction along with upper and lower space closure done with T-loops to promote best space closure control in order to correct the malocclusion and enhance facial aesthetics. PMID:29318054

Examining the relationship between immediate serial recall and immediate free recall: common effects of phonological loop variables but only limited evidence for the phonological loop.

PubMed

Spurgeon, Jessica; Ward, Geoff; Matthews, William J

2014-07-01

We examined the contribution of the phonological loop to immediate free recall (IFR) and immediate serial recall (ISR) of lists of between one and 15 words. Following Baddeley (1986, 2000, 2007, 2012), we assumed that visual words could be recoded into the phonological store when presented silently but that recoding would be prevented by concurrent articulation (CA; Experiment 1). We further assumed that the use of the phonological loop would be evidenced by greater serial recall for lists of phonologically dissimilar words relative to lists of phonologically similar words (Experiments 2A and 2B). We found that in both tasks, (a) CA reduced recall; (b) participants recalled short lists from the start of the list, leading to enhanced forward-ordered recall; (c) participants were increasingly likely to recall longer lists from the end of the list, leading to extended recency effects; (d) there were significant phonological similarity effects in ISR and IFR when both were analyzed using serial recall scoring; (e) these were reduced by free recall scoring and eliminated by CA; and (f) CA but not phonological similarity affected the tendency to initiate recall with the first list item. We conclude that similar mechanisms underpin ISR and IFR. Critically, the phonological loop is not strictly necessary for the forward-ordered recall of short lists on both tasks but may augment recall by increasing the accessibility of the list items (relative to CA), and in so doing, the order of later items is preserved better in phonologically dissimilar than in phonologically similar lists. PsycINFO Database Record (c) 2014 APA, all rights reserved.

Evaporation of binary mixtures in microgravity

NASA Technical Reports Server (NTRS)

Girgis, Morris; Matta, Nabil; Kolli, Kiran; Brown, Leon; Chubb, Kevin

1995-01-01

The motivation of this research is to obtain a better understanding of phase-change heat transfer within single and binary liquid meniscii, both in 1-g and 0-g environments. During phase 1 and part of phase 2, in a glass test cell with an inclined heated plate, 1-6 experiments on pentane with additions of decane up to 3% were conducted to determine the optimum concentration that will exhibit the maximum heat transfer and stability. During phase 2 emphasis was given to explore fundamental research issues and to ultimately develop a reliable capillary pumped loop (CPL) device for low gravity. In related experimental work, it was found that thermocapillary stresses near the contract line could result in a degraded wettability which ultimately could explain the observed failure of CPL devices in zero-gravity environment. Therefore, the current experimental effort investigates the effect of adding binary constituents in improving the thermocapillary characteristics near the contact line within the loop configuration. Achievements during second phase include: (1) Further enhancement of Central State University's Microgravity Laboratory by adding or improving upon capabilities of photography, video imaging, fluid visualization, and general experimental testing capabilities; (2) Experimental results for the inclined plate cell; (3) Modeling effort with a detailed scaling analysis; (4) Additional testing with a tube loop configuration to extend experimental work by Dickens, et al.; (5) Fabrication of a capillary loop to be tested using binary fluid (pentane/decane). The device that has been recently completed will be set up horizontally so that the effect of gravity on the performance is negligible. Testing will cover a wide range of parameters such as decane/pentane concentration, heat input value, heat input location (below or above meniscus), and loop temperature.

A novel mode for transcription inhibition mediated by PNA-induced R-loops with a model in vitro system.

PubMed

D'Souza, Alicia D; Belotserkovskii, Boris P; Hanawalt, Philip C

2018-02-01

The selective inhibition of transcription of a chosen gene by an artificial agent has numerous applications. Usually, these agents are designed to bind a specific nucleotide sequence in the promoter or within the transcribed region of the chosen gene. However, since optimal binding sites might not exist within the gene, it is of interest to explore the possibility of transcription inhibition when the agent is designed to bind at other locations. One of these possibilities arises when an additional transcription initiation site (e.g. secondary promoter) is present upstream from the primary promoter of the target gene. In this case, transcription inhibition might be achieved by inducing the formation of an RNA-DNA hybrid (R-loop) upon transcription from the secondary promoter. The R-loop could extend into the region of the primary promoter, to interfere with promoter recognition by RNA polymerase and thereby inhibit transcription. As a sequence-specific R-loop-inducing agent, a peptide nucleic acid (PNA) could be designed to facilitate R-loop formation by sequestering the non-template DNA strand. To investigate this mode for transcription inhibition, we have employed a model system in which a PNA binding site is localized between the T3 and T7 phage RNA polymerase promoters, which respectively assume the roles of primary and secondary promoters. In accord with our model, we have demonstrated that with PNA-bound DNA substrates, transcription from the T7 promoter reduces transcription from the T3 promoter by 30-fold, while in the absence of PNA binding there is no significant effect of T7 transcription upon T3 transcription. Copyright © 2018 Elsevier B.V. All rights reserved.

URS DataBase: universe of RNA structures and their motifs.

PubMed

Baulin, Eugene; Yacovlev, Victor; Khachko, Denis; Spirin, Sergei; Roytberg, Mikhail

2016-01-01

The Universe of RNA Structures DataBase (URSDB) stores information obtained from all RNA-containing PDB entries (2935 entries in October 2015). The content of the database is updated regularly. The database consists of 51 tables containing indexed data on various elements of the RNA structures. The database provides a web interface allowing user to select a subset of structures with desired features and to obtain various statistical data for a selected subset of structures or for all structures. In particular, one can easily obtain statistics on geometric parameters of base pairs, on structural motifs (stems, loops, etc.) or on different types of pseudoknots. The user can also view and get information on an individual structure or its selected parts, e.g. RNA-protein hydrogen bonds. URSDB employs a new original definition of loops in RNA structures. That definition fits both pseudoknot-free and pseudoknotted secondary structures and coincides with the classical definition in case of pseudoknot-free structures. To our knowledge, URSDB is the first database supporting searches based on topological classification of pseudoknots and on extended loop classification.Database URL: http://server3.lpm.org.ru/urs/. © The Author(s) 2016. Published by Oxford University Press.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Michael, Alicia K.; Fribourgh, Jennifer L.; Chelliah, Yogarany

The basic helix-loop-helix PAS domain (bHLH-PAS) transcription factor CLOCK:BMAL1 (brain and muscle Arnt-like protein 1) sits at the core of the mammalian circadian transcription/translation feedback loop. Precise control of CLOCK:BMAL1 activity by coactivators and repressors establishes the ~24-h periodicity of gene expression. Formation of a repressive complex, defined by the core clock proteins cryptochrome 1 (CRY1):CLOCK:BMAL1, plays an important role controlling the switch from repression to activation each day. Here in this paper, we show that CRY1 binds directly to the PAS domain core of CLOCK: BMAL1, driven primarily by interaction with the CLOCK PAS-B domain. Integrative modeling and solutionmore » X-ray scattering studies unambiguously position a key loop of the CLOCK PAS-B domain in the secondary pocket of CRY1, analogous to the antenna chromophore-binding pocket of photolyase. CRY1 docks onto the transcription factor alongside the PAS domains, extending above the DNA-binding bHLH domain. Single point mutations at the interface on either CRY1 or CLOCK disrupt formation of the ternary complex, highlighting the importance of this interface for direct regulation of CLOCK:BMAL1 activity by CRY1.« less

Systematics of the cusp anomalous dimension

NASA Astrophysics Data System (ADS)

Henn, Johannes M.; Huber, Tobias

2012-11-01

We study the velocity-dependent cusp anomalous dimension in supersymmetric Yang-Mills theory. In a paper by Correa, Maldacena, Sever, and one of the present authors, a scaling limit was identified in which the ladder diagrams are dominant and are mapped onto a Schrödinger problem. We show how to solve the latter in perturbation theory and provide an algorithm to compute the solution at any loop order. The answer is written in terms of harmonic polylogarithms. Moreover, we give evidence for two curious properties of the result. Firstly, we observe that the result can be written using a subset of harmonic polylogarithms only, at least up to six loops. Secondly, we show that in a light-like limit, only single zeta values appear in the asymptotic expansion, again up to six loops. We then extend the analysis of the scaling limit to systematically include subleading terms. This leads to a Schrödinger-type equation, but with an inhomogeneous term. We show how its solution can be computed in perturbation theory, in a way similar to the leading order case. Finally, we analyze the strong coupling limit of these subleading contributions and compare them to the string theory answer. We find agreement between the two calculations.

Integrated modeling and analysis of a space-truss article

NASA Technical Reports Server (NTRS)

Stockwell, Alan E.; Perez, Sharon E.; Pappa, Richard S.

1990-01-01

MSC/NASTRAN is being used in the Controls-Structures Interaction (CSI) program at NASA Langley Research Center as a key analytical tool for structural analysis as well as the basis for control law development, closed-loop performance evaluation, and system safety checks. Guest investigators from academia and industry are performing dynamics and control experiments on a flight-like deployable space truss called Mini-Mast to determine the effectiveness of various active-vibration control laws. MSC/NASTRAN was used to calculate natural frequencies and mode shapes below 100 Hz to describe the dynamics of the 20-meter-long lightweight Mini-Mast structure. Gravitational effects contribute significantly to structural stiffness and are accounted for through a two-phase solution in which the differential stiffness matrix is calculated and then used in the eigensolution. Reduced modal models are extracted for control law design and evaluation of closed-loop system performance. Predicted actuator forces from controls simulations are then applied to the extended model to predict member loads and stresses. These pre-test analyses reduce risks associated with the structural integrity of the test article, which is a major concern in closed-loop control experiments due to potential instabilities.

URS DataBase: universe of RNA structures and their motifs

PubMed Central

Baulin, Eugene; Yacovlev, Victor; Khachko, Denis; Spirin, Sergei; Roytberg, Mikhail

2016-01-01

The Universe of RNA Structures DataBase (URSDB) stores information obtained from all RNA-containing PDB entries (2935 entries in October 2015). The content of the database is updated regularly. The database consists of 51 tables containing indexed data on various elements of the RNA structures. The database provides a web interface allowing user to select a subset of structures with desired features and to obtain various statistical data for a selected subset of structures or for all structures. In particular, one can easily obtain statistics on geometric parameters of base pairs, on structural motifs (stems, loops, etc.) or on different types of pseudoknots. The user can also view and get information on an individual structure or its selected parts, e.g. RNA–protein hydrogen bonds. URSDB employs a new original definition of loops in RNA structures. That definition fits both pseudoknot-free and pseudoknotted secondary structures and coincides with the classical definition in case of pseudoknot-free structures. To our knowledge, URSDB is the first database supporting searches based on topological classification of pseudoknots and on extended loop classification. Database URL: http://server3.lpm.org.ru/urs/ PMID:27242032

First Experiences with the New Chalmers Gasifier

NASA Astrophysics Data System (ADS)

Thunman, H.; Seemann, M. C.

During summer 2007 a 2-6 MWth indirect gasification section was integrated into the loop of the existing 82➀2 MWth circulating fluidized bed boiler at Chalmers University. With help of a particle distributor the gasification unit is connected to the loop after the cyclone. Hot bed material entrained from the boiler is so transferred to the gasifier providing the heat for the production of a nearly nitrogen free product gas. Non-gasified char is returned together with the bed material into the boiler and converted. Biomass can be fed into both sections; the boiler and the gasifier. The gasification is separated from the boiler via two loop seals and a particle distributer, directing particles either back to the boiler or into the gasification section. For that reason the CFB boiler can be operated even after the retrofit independently, just like before, or in combined combustion/gasification mode. This possibility keeps the risk for a retrofit low. As, furthermore, the investment costs for the integration are considerably lower than standalone gasification units of that size, the retrofit is an easy way to extend the potential of a CFB Boiler towards bi- and tri-generation (heat, power, fuel) and enter new markets.

Extending the Capabilities of Closed-loop Distributed Engine Control Simulations Using LAN Communication

NASA Technical Reports Server (NTRS)

Aretskin-Hariton, Eliot D.; Zinnecker, Alicia Mae; Culley, Dennis E.

2014-01-01

Distributed Engine Control (DEC) is an enabling technology that has the potential to advance the state-of-the-art in gas turbine engine control. To analyze the capabilities that DEC offers, a Hardware-In-the-Loop (HIL) test bed is being developed at NASA Glenn Research Center. This test bed will support a systems-level analysis of control capabilities in closed-loop engine simulations. The structure of the HIL emulates a virtual test cell by implementing the operator functions, control system, and engine on three separate computers. This implementation increases the flexibility and extensibility of the HIL. Here, a method is discussed for implementing these interfaces by connecting the three platforms over a dedicated Local Area Network (LAN). This approach is verified using the Commercial Modular Aero-Propulsion System Simulation 40k (C-MAPSS40k), which is typically implemented on one computer. There are marginal differences between the results from simulation of the typical and the three-computer implementation. Additional analysis of the LAN network, including characterization of network load, packet drop, and latency, is presented. The three-computer setup supports the incorporation of complex control models and proprietary engine models into the HIL framework.

Two Topologically Distinct Dirac-Line Semimetal Phases and Topological Phase Transitions in Rhombohedrally Stacked Honeycomb Lattices

NASA Astrophysics Data System (ADS)

Hyart, T.; Ojajärvi, R.; Heikkilä, T. T.

2018-04-01

Three-dimensional topological semimetals can support band crossings along one-dimensional curves in the momentum space (nodal lines or Dirac lines) protected by structural symmetries and topology. We consider rhombohedrally (ABC) stacked honeycomb lattices supporting Dirac lines protected by time-reversal, inversion and spin rotation symmetries. For typical band structure parameters there exists a pair of nodal lines in the momentum space extending through the whole Brillouin zone in the stacking direction. We show that these Dirac lines are topologically distinct from the usual Dirac lines which form closed loops inside the Brillouin zone. In particular, an energy gap can be opened only by first merging the Dirac lines going through the Brillouin zone in a pairwise manner so that they turn into closed loops inside the Brillouin zone, and then by shrinking these loops into points. We show that this kind of topological phase transition can occur in rhombohedrally stacked honeycomb lattices by tuning the ratio of the tunneling amplitudes in the directions perpendicular and parallel to the layers. We also discuss the properties of the surface states in the different phases of the model.

Simplicity constraints: A 3D toy model for loop quantum gravity

NASA Astrophysics Data System (ADS)

Charles, Christoph

2018-05-01

In loop quantum gravity, tremendous progress has been made using the Ashtekar-Barbero variables. These variables, defined in a gauge fixing of the theory, correspond to a parametrization of the solutions of the so-called simplicity constraints. Their geometrical interpretation is however unsatisfactory as they do not constitute a space-time connection. It would be possible to resolve this point by using a full Lorentz connection or, equivalently, by using the self-dual Ashtekar variables. This leads however to simplicity constraints or reality conditions which are notoriously difficult to implement in the quantum theory. We explore in this paper the possibility of using completely degenerate actions to impose such constraints at the quantum level in the context of canonical quantization. To do so, we define a simpler model, in 3D, with similar constraints by extending the phase space to include an independent vielbein. We define the classical model and show that a precise quantum theory by gauge unfixing can be defined out of it, completely equivalent to the standard 3D Euclidean quantum gravity. We discuss possible future explorations around this model as it could help as a stepping stone to define full-fledged covariant loop quantum gravity.

Bacteriophage phi 6 RNA-dependent RNA polymerase: molecular details of initiating nucleic acid synthesis without primer.

PubMed

Laurila, Minni R L; Makeyev, Eugene V; Bamford, Dennis H

2002-05-10

Like most RNA polymerases, the polymerase of double-strand RNA bacteriophage phi6 (phi6pol) is capable of primer-independent initiation. Based on the recently solved phi6pol initiation complex structure, a four-amino acid-long loop (amino acids 630-633) has been suggested to stabilize the first two incoming NTPs through stacking interactions with tyrosine, Tyr(630). A similar loop is also present in the hepatitis C virus polymerase, another enzyme capable of de novo initiation. Here, we use a series of phi6pol mutants to address the role of this element. As predicted, mutants at the Tyr(630) position are inefficient in initiation de novo. Unexpectedly, when the loop is disordered by changing Tyr(630)-Lys(631)-Trp(632) to GSG, phi6pol becomes a primer-dependent enzyme, either extending complementary oligonucleotide or, when the template 3' terminus can adopt a hairpin-like conformation, utilizing a "copy-back" initiation mechanism. In contrast to the wild-type phi6pol, the GSG mutant does not require high GTP concentration for its optimal activity. These findings suggest a general model for the initiation of de novo RNA synthesis.

Annual Tropical Cyclone Report 2011

DTIC Science & Technology

2012-05-24

nuclear plant, still reeling after the tsunami disaster just a few months earlier.6 Operations at Kadena Air Base were put on hold 48 with major...conditions. Several of these early to mid-season forming TCs exhibited ―S‖ shaped, looping, or generally erratic tracks, with numerous passages near or over...track errors after -the fact to extend the data base (3) Mean forecast errors for all w arned systems in Northwest Pacific. 120-Hour Along Cross

Radar System Characterization Extended to Hardware-in-the-Loop Simulation for the Lab-Volt (Trademark) Training System

DTIC Science & Technology

2007-09-01

devices such as klystrons , magnetrons, and traveling wave tubes. These microwave devices produce high power levels but may have limited bandwidths [20...diagram. The specific arrangement of components within a RADAR transmitter varies with operational specifications. Two options exist to produce high power ...cascading to generate sufficient power [20]. The second option to generate high power levels is to replace RF oscillators and amplifiers with microwave

An extended soft X-ray source in Delphinus - H2027+19

NASA Technical Reports Server (NTRS)

Stern, R. A.; Walker, A. B. C.; Charles, P. A.; Nugent, J. J.; Garmire, G. P.

1980-01-01

A new extended soft X-ray source has been observed with the HEAO 1 A-2 experiment. The source, H2027+19, emits primarily in the 0.16-0.4 keV band with a total flux in this band of 2 x 10 to the -11th erg/sq cm s. It is found that both simple continuum and coronal plasma models provide good fits to the observed pulse-height spectrum. The most likely physical models are either that the source is an old supernova remnant or that it is a region of enhanced soft X-ray emission surrounding an H I cloud imbedded in a coronal plasma, as suggested by Hayakawa et al. (1979) for the Lupus Loop.

A switchable polymer layer: Chain folding in end-charged polymer brushes

NASA Astrophysics Data System (ADS)

Heine, David; Wu, David T.

2001-03-01

We use a self-consistent field approximation to model the configurations of end-charged homopolymer and block copolymer brushes in response to an external electric field due to charges on the grafting surface. By varying the charge density on the grafting surface, we can cause the chains either to extend outward, greatly increasing the brush height, or to loop back to the grafting surface. We show that such a copolymer brush can present one block at the exposed surface in the extended state and present the other block in the retracted state. This occurs for both a solvated brush and a dry brush. We also compare these results to those of a modified Alexander-de Gennes model for the end-charged homopolymer brush.

Iron-Sulfur Cluster Engineering Provides Insight into the Evolution of Substrate Specificity among Sulfonucleotide Reductases

PubMed Central

Bhave, Devayani P.; Hong, Jiyoung A.; Keller, Rebecca L.; Krebs, Carsten; Carroll, Kate S.

2011-01-01

Assimilatory sulfate reduction supplies prototrophic organisms with reduced sulfur that is required for the biosynthesis of all sulfur-containing metabolites, including cysteine and methionine. The reduction of sulfate requires its activation via an ATP-dependent activation to form adenosine-5′-phosphosulfate (APS). Depending on the species, APS can be reduced directly to sulfite by APS reductase (APR) or undergo a second phosphorylation to yield 3′-phosphoadenosine-5′-phosphosulfate (PAPS), the substrate for PAPS reductase (PAPR). These essential enzymes have no human homolog, rendering them attractive targets for the development of novel antibacterial drugs. APR and PAPR share sequence and structure homology as well as a common catalytic mechanism, but the enzymes are distinguished by two features, namely, the amino acid sequence of the phosphate-binding loop (P-loop) and an iron-sulfur cofactor in APRs. Based on the crystal structures of APR and PAPR, two P-loop residues are proposed to determine substrate specificity; however, this hypothesis has not been tested. In contrast to this prevailing view, we report here that the P-loop motif has a modest effect on substrate discrimination. Instead, by means of metalloprotein engineering, spectroscopic and kinetic analyses, we demonstrate that the iron-sulfur cluster cofactor enhances APS reduction by nearly 1000-fold, thereby playing a pivotal role in substrate specificity and catalysis. These findings offer new insights into the evolution of this enzyme family, and extend the known functions of protein-bound iron-sulfur clusters. PMID:22023093

IR-safe and UV-safe integrands in the EFTofLSS with exact time dependence

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lewandowski, Matthew; Senatore, Leonardo, E-mail: matthew.lewandowski@ipht.fr, E-mail: senatore@stanford.edu

Because large-scale structure surveys may very well be the next leading sources of cosmological information, it is important to have a precise understanding of the cosmological observables; for this reason, the Effective Field Theory of Large-Scale Structure (EFTofLSS) was developed. So far, most results in the EFTofLSS have used the so-called Einstein-de Sitter approximation, an approximation of the time dependence which is known to be accurate to better than one percent. However, in order to reach even higher accuracy, the full time dependence must be used. The computation with exact time dependence is sensitive to both infrared (IR) and ultravioletmore » (UV) effects in the loop integrands, and while these effects must cancel because of diffeomorphism invariance, they make numerical computation much less efficient. We provide a formulation of the one-loop, equal-time exact-time-dependence power spectrum of density perturbations which is manifestly free of these spurious IR and UV divergences at the level of the integrand. We extend our results to the total matter mode with clustering quintessence, show that IR and UV divergences cancel, and provide the associated IR- and UV-safe integrand. This also establishes that the consistency conditions are satisfied in this system. We then use our one-loop result to do an improved precision comparison of the two-loop dark-matter power spectrum with the Dark Sky N -body simulation.« less

IR-safe and UV-safe integrands in the EFTofLSS with exact time dependence

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lewandowski, Matthew; Senatore, Leonardo

Because large-scale structure surveys may very well be the next leading sources of cosmological information, it is important to have a precise understanding of the cosmological observables; for this reason, the Effective Field Theory of Large-Scale Structure (EFTofLSS) was developed. So far, most results in the EFTofLSS have used the so-called Einstein-de Sitter approximation, an approximation of the time dependence which is known to be accurate to better than one percent. However, in order to reach even higher accuracy, the full time dependence must be used. The computation with exact time dependence is sensitive to both infrared (IR) and ultravioletmore » (UV) effects in the loop integrands, and while these effects must cancel because of diffeomorphism invariance, they make numerical computation much less efficient. We provide a formulation of the one-loop, equal-time exact-time-dependence power spectrum of density perturbations which is manifestly free of these spurious IR and UV divergences at the level of the integrand. We extend our results to the total matter mode with clustering quintessence, show that IR and UV divergences cancel, and provide the associated IR- and UV-safe integrand. This also establishes that the consistency conditions are satisfied in this system. In conclusion, we then use our one-loop result to do an improved precision comparison of the two-loop dark-matter power spectrum with the Dark Sky N-body simulation.« less

IR-safe and UV-safe integrands in the EFTofLSS with exact time dependence

DOE PAGES

Lewandowski, Matthew; Senatore, Leonardo

2017-08-31

Because large-scale structure surveys may very well be the next leading sources of cosmological information, it is important to have a precise understanding of the cosmological observables; for this reason, the Effective Field Theory of Large-Scale Structure (EFTofLSS) was developed. So far, most results in the EFTofLSS have used the so-called Einstein-de Sitter approximation, an approximation of the time dependence which is known to be accurate to better than one percent. However, in order to reach even higher accuracy, the full time dependence must be used. The computation with exact time dependence is sensitive to both infrared (IR) and ultravioletmore » (UV) effects in the loop integrands, and while these effects must cancel because of diffeomorphism invariance, they make numerical computation much less efficient. We provide a formulation of the one-loop, equal-time exact-time-dependence power spectrum of density perturbations which is manifestly free of these spurious IR and UV divergences at the level of the integrand. We extend our results to the total matter mode with clustering quintessence, show that IR and UV divergences cancel, and provide the associated IR- and UV-safe integrand. This also establishes that the consistency conditions are satisfied in this system. In conclusion, we then use our one-loop result to do an improved precision comparison of the two-loop dark-matter power spectrum with the Dark Sky N-body simulation.« less

Constructing Carbon Fiber Motion-Detection Loops for Simultaneous EEG–fMRI

PubMed Central

Abbott, David F.; Masterton, Richard A. J.; Archer, John S.; Fleming, Steven W.; Warren, Aaron E. L.; Jackson, Graeme D.

2015-01-01

One of the most significant impediments to high-quality EEG recorded in an MRI scanner is subject motion. Availability of motion artifact sensors can substantially improve the quality of the recorded EEG. In the study of epilepsy, it can also dramatically increase the confidence that one has in discriminating true epileptiform activity from artifact. This is due both to the reduction in artifact and the ability to visually inspect the motion sensor signals when reading the EEG, revealing whether or not head motion is present. We have previously described the use of carbon fiber loops for detecting and correcting artifact in EEG acquired simultaneously with MRI. The loops, attached to the subject’s head, are electrically insulated from the scalp. They provide a simple and direct measure of specific artifact that is contaminating the EEG, including both subject motion and residual artifact arising from magnetic field gradients applied during MRI. Our previous implementation was used together with a custom-built EEG–fMRI system that differs substantially from current commercially available EEG–fMRI systems. The present technical note extends this work, describing in more detail how to construct the carbon fiber motion-detection loops, and how to interface them with a commercially available simultaneous EEG–fMRI system. We hope that the information provided may help those wishing to utilize a motion-detection/correction solution to improve the quality of EEG recorded within an MRI scanner. PMID:25601852

Structure and function of ameloblastin as an extracellular matrix protein: adhesion, calcium binding, and CD63 interaction in human and mouse.

PubMed

Zhang, Xu; Diekwisch, Thomas G H; Luan, Xianghong

2011-12-01

The functional significance of extracellular matrix proteins in the life of vertebrates is underscored by a high level of sequence variability in tandem with a substantial degree of conservation in terms of cell-cell and cell-matrix adhesion interactions. Many extracellular matrix proteins feature multiple adhesion domains for successful attachment to substrates, such as integrin, CD63, and heparin. Here we have used homology and ab initio modeling algorithms to compare mouse ameloblastin (mAMBN) and human ameloblastin (hABMN) isoforms and to analyze their potential for cell adhesion and interaction with other matrix molecules as well as calcium binding. Sequence comparison between mAMBN and hAMBN revealed a 26-amino-acid deletion in mAMBN, corresponding to a helix-loop-helix frameshift. The human AMBN domain (174Q-201G), homologous to the mAMBN 157E-178I helix-loop-helix region, formed a helix-loop motif with an extended loop, suggesting a higher degree of flexibility of hAMBN compared with mAMBN, as confirmed by molecular dynamics simulation. Heparin-binding domains, CD63-interaction domains, and calcium-binding sites in both hAMBN and mAMBN support the concept of AMBN as an extracellular matrix protein. The high level of conservation between AMBN functional domains related to adhesion and differentiation was remarkable when compared with only 61% amino acid sequence homology. © 2011 Eur J Oral Sci.

Stiff self-interacting strings at high temperature QCD

NASA Astrophysics Data System (ADS)

S Bakry, A.; Chen, X.; Deliyergiyev, M.; Galal, A.; Khalaf, A.; M Pengming, P.

2018-03-01

We investigate the implications of Nambu-Goto (NG), Lüscher Weisz (LW) and Polyakov-Kleinert (PK) effective string actions for the Casimir energy and the width of the quantum delocalization of the string in 4-dim pure SU(3) Yang-Mills lattice gauge theory. At a temperature closer to the critical point T/Tc=0.9, we found that the next to leading-order (NLO) contributions from the expansion of the NG string in addition to the boundary terms in LW action to decrease the deviations from the lattice data in the intermediate distance scales for both the quark-antiquark QQ̅ potential and broadening of the color tube compared to the free string approximation. We conjecture possible stiffness of the QCD string through studying the effects of extrinsic curvature term in PK action and find a good fitting behavior for the lattice Monte-Carlo data at both long and intermediate quark separations regions.

Conformal Bootstrap in Mellin Space

NASA Astrophysics Data System (ADS)

Gopakumar, Rajesh; Kaviraj, Apratim; Sen, Kallol; Sinha, Aninda

2017-02-01

We propose a new approach towards analytically solving for the dynamical content of conformal field theories (CFTs) using the bootstrap philosophy. This combines the original bootstrap idea of Polyakov with the modern technology of the Mellin representation of CFT amplitudes. We employ exchange Witten diagrams with built-in crossing symmetry as our basic building blocks rather than the conventional conformal blocks in a particular channel. Demanding consistency with the operator product expansion (OPE) implies an infinite set of constraints on operator dimensions and OPE coefficients. We illustrate the power of this method in the ɛ expansion of the Wilson-Fisher fixed point by reproducing anomalous dimensions and, strikingly, obtaining OPE coefficients to higher orders in ɛ than currently available using other analytic techniques (including Feynman diagram calculations). Our results enable us to get a somewhat better agreement between certain observables in the 3D Ising model and the precise numerical values that have been recently obtained.

Flight Test Results for the HST Orbital Systems Test (HOST) Capillary Pump Loop Cooling System

NASA Technical Reports Server (NTRS)

Buchko, M.; Kaylor, M.; Kroliczek, E.; Ottenstein, L.

1999-01-01

The Near Infrared Camera and Multi Object Spectrometer (NICMOS) was installed in the Hubble Space Telescope (MST) in February 1997. Shortly thereafter, the instrument experienced a thermal short in its solid nitrogen dewar system which will significantly shorten the instrument's useful life. A reverse Brayton cycle mechanical refrigerator will be installed during the Third Servicing Mission (SM3) to provide cooling for the instrument, and thereby extend its operations. A Capillary Pump Loop (CPL) and radiator system was designed, built and tested to remove up to 500 watts of heat from the mechanical cryocooler and its associated electronics. The HST Orbital Systems Test (HOST) platform was flown on the Space Shuttle Discovery (STS-95) as a flight demonstration of the cryocooler system, CPL control electronics, and the CPL/Radiator. This paper will present the flight test results and thermal performance of the CPL system in detail.

Fast Wave Transmission Measurements on Alcator C-Mod

NASA Astrophysics Data System (ADS)

Reardon, J.; Bonoli, P. T.; Porkolab, M.; Takase, Y.; Wukitch, S. J.

1997-11-01

Data are presented from an array of single-turn loop probes newly installed on the inner wall of C-Mod, directly opposite one of the two fast-wave antennas. The 8-loop array extends 32^circ in the toroidal direction at the midplane and can distinguish electromagnetic from electrostatic modes. Data are acquired by 1GHz digitizer, spectrum analyzer, and RF detector circuit. Phase measurements during different heating scenarios show evidence of both standing and travelling waves. The measurement of toroidal mode number N_tor (conserved under the assumption of axisymmetry) is used to guide the toroidal full-wave code TORIC(Brambilla, M., IPP Report 5/66, February 1996). Amplitude measurements show modulation both by Type III ELMs and sawteeth; the observed sawtooth modulation may be interpreted as due to changes in central absorption. The amplitude of tildeB_tor measured at the inner wall is compared to the prediction of TORIC.

Thermal Performance of Capillary Pumped Loops Onboard Terra Spacecraft

NASA Technical Reports Server (NTRS)

Ku, Jentung; Ottenstein, Laura; Butler, Charles D.; Swanson, Theodore; Thies, Diane

2004-01-01

The Terra spacecraft is the flagship of NASA's Earth Science Enterprise. It provides global data on the state of atmosphere, land and oceans, as well as their interactions with solar radiation and one another. Three Terra instruments utilize Capillary Pumped Heat Transport System (CPHTS) for temperature control: Each CPHTS, consisting of two capillary pumped loops (CPLs) and several heat pipes and electrical heaters, is designed for instrument heat loads ranging from 25W to 264W. The working fluid is ammonia. Since the launch of the Terra spacecraft, each CPHTS has been providing a stable interface temperature specified by the instrument under all modes of spacecraft and instrument operations. The ability to change the CPHTS operating temperature upon demand while in service has also extended the useful life of one instrument. This paper describes the design and on-orbit performance of the CPHTS thermal systems.

A 2',2'-disulfide-bridged dinucleotide conformationally locks RNA hairpins.

PubMed

Gauthier, Florian; Beltran, Frédéric; Biscans, Annabelle; Debart, Françoise; Dupouy, Christelle; Vasseur, Jean-Jacques

2018-05-02

The synthesis and the impact of a disulfide bridge between 2'-O-positions of two adjacent nucleotides in an RNA duplex and in the loop of RNA hairpins are reported. The incorporation of this 2',2'-disulfide (S-S) bridge enabled thermal and enzymatic stabilization of the hairpin depending on its position in the loop. The influence of the disulfide bridge on RNA folding was studied at the HIV Dimerization Initiation Site (DIS) as an RNA sequence model. We have shown that this S-S bridge locked the hairpin form, whereas the extended duplex form was generated after the reduction of the disulfide bond in the presence of tris(2-carboxyethyl)phosphine or glutathione. Thus, the S-S bridge can be useful for understanding RNA folding; an RNA molecular beacon locked by an S-S bridge was also investigated as a sensor for the detection of glutathione.

Finite temperature corrections to tachyon mass in intersecting D-branes

NASA Astrophysics Data System (ADS)

Sethi, Varun; Chowdhury, Sudipto Paul; Sarkar, Swarnendu

2017-04-01

We continue with the analysis of finite temperature corrections to the Tachyon mass in intersecting branes which was initiated in [1]. In this paper we extend the computation to the case of intersecting D3 branes by considering a setup of two intersecting branes in flat-space background. A holographic model dual to BCS superconductor consisting of intersecting D8 branes in D4 brane background was proposed in [2]. The background considered here is a simplified configuration of this dual model. We compute the one-loop Tachyon amplitude in the Yang-Mills approximation and show that the result is finite. Analyzing the amplitudes further we numerically compute the transition temperature at which the Tachyon becomes massless. The analytic expressions for the one-loop amplitudes obtained here reduce to those for intersecting D1 branes obtained in [1] as well as those for intersecting D2 branes.

Extension of the root-locus method to a certain class of fractional-order systems.

PubMed

Merrikh-Bayat, Farshad; Afshar, Mahdi; Karimi-Ghartemani, Masoud

2009-01-01

In this paper, the well-known root-locus method is developed for the special subset of linear time-invariant systems commonly known as fractional-order systems. Transfer functions of these systems are rational functions with polynomials of rational powers of the Laplace variable s. Such systems are defined on a Riemann surface because of their multi-valued nature. A set of rules for plotting the root loci on the first Riemann sheet is presented. The important features of the classical root-locus method such as asymptotes, roots condition on the real axis and breakaway points are extended to the fractional case. It is also shown that the proposed method can assess the closed-loop stability of fractional-order systems in the presence of a varying gain in the loop. Moreover, the effect of perturbation on the root loci is discussed. Three illustrative examples are presented to confirm the effectiveness of the proposed algorithm.

An efficient method to compute microlensed light curves for point sources

NASA Technical Reports Server (NTRS)

Witt, Hans J.

1993-01-01

We present a method to compute microlensed light curves for point sources. This method has the general advantage that all microimages contributing to the light curve are found. While a source moves along a straight line, all micro images are located either on the primary image track or on the secondary image tracks (loops). The primary image track extends from - infinity to + infinity and is made of many sequents which are continuously connected. All the secondary image tracks (loops) begin and end on the lensing point masses. The method can be applied to any microlensing situation with point masses in the deflector plane, even for the overcritical case and surface densities close to the critical. Furthermore, we present general rules to evaluate the light curve for a straight track arbitrary placed in the caustic network of a sample of many point masses.

Virtual Sensor Web Architecture

NASA Astrophysics Data System (ADS)

Bose, P.; Zimdars, A.; Hurlburt, N.; Doug, S.

2006-12-01

NASA envisions the development of smart sensor webs, intelligent and integrated observation network that harness distributed sensing assets, their associated continuous and complex data sets, and predictive observation processing mechanisms for timely, collaborative hazard mitigation and enhanced science productivity and reliability. This paper presents Virtual Sensor Web Infrastructure for Collaborative Science (VSICS) Architecture for sustained coordination of (numerical and distributed) model-based processing, closed-loop resource allocation, and observation planning. VSICS's key ideas include i) rich descriptions of sensors as services based on semantic markup languages like OWL and SensorML; ii) service-oriented workflow composition and repair for simple and ensemble models; event-driven workflow execution based on event-based and distributed workflow management mechanisms; and iii) development of autonomous model interaction management capabilities providing closed-loop control of collection resources driven by competing targeted observation needs. We present results from initial work on collaborative science processing involving distributed services (COSEC framework) that is being extended to create VSICS.

Target-in-the-loop high-power adaptive phase-locked fiber laser array using single-frequency dithering technique

NASA Astrophysics Data System (ADS)

Tao, R.; Ma, Y.; Si, L.; Dong, X.; Zhou, P.; Liu, Z.

2011-11-01

We present a theoretical and experimental study of a target-in-the-loop (TIL) high-power adaptive phase-locked fiber laser array. The system configuration of the TIL adaptive phase-locked fiber laser array is introduced, and the fundamental theory for TIL based on the single-dithering technique is deduced for the first time. Two 10-W-level high-power fiber amplifiers are set up and adaptive phase locking of the two fiber amplifiers is accomplished successfully by implementing a single-dithering algorithm on a signal processor. The experimental results demonstrate that the optical phase noise for each beam channel can be effectively compensated by the TIL adaptive optics system under high-power applications and the fringe contrast on a remotely located extended target is advanced from 12% to 74% for the two 10-W-level fiber amplifiers.

Solar heat collector-generator for cooling purposes

NASA Astrophysics Data System (ADS)

Abdullah, K.

1982-01-01

The performance of an experimental LiBr-H2O solar collector powered absorption cooling system is described. A numerical model was developed of the energy, mass, and momentum balances across the heat-exchange loop to obtain the refrigerant vapor generation rate. The mechanism works by the thermosiphon principle, which eliminates mechanical devices from the loop. All leaks were fixed before measurements began with a test apparatus comprising a pyrex tube 1.87 m long with a 2.7 i.d. The refrigerant flow rate was monitored, along with temperature changes in the fluid and across the tube. Bubble initiation was observed from the free surface extending downward in the tube. Reynolds numbers varied from 6-43 in the liquid phase and 81-204 in the vapor phase. A formulation was made for the low-velocity two-phase flow and good agreement was demonstrated with the simulation.

On the conditions of exponential stability in active disturbance rejection control based on singular perturbation analysis

NASA Astrophysics Data System (ADS)

Shao, S.; Gao, Z.

2017-10-01

Stability of active disturbance rejection control (ADRC) is analysed in the presence of unknown, nonlinear, and time-varying dynamics. In the framework of singular perturbations, the closed-loop error dynamics are semi-decoupled into a relatively slow subsystem (the feedback loop) and a relatively fast subsystem (the extended state observer), respectively. It is shown, analytically and geometrically, that there exists a unique exponential stable solution if the size of the initial observer error is sufficiently small, i.e. in the same order of the inverse of the observer bandwidth. The process of developing the uniformly asymptotic solution of the system reveals the condition on the stability of the ADRC and the relationship between the rate of change in the total disturbance and the size of the estimation error. The differentiability of the total disturbance is the only assumption made.

Heating and cooling system for an on-board gas adsorbent storage vessel

DOEpatents

Tamburello, David A.; Anton, Donald L.; Hardy, Bruce J.; Corgnale, Claudio

2017-06-20

In one aspect, a system for controlling the temperature within a gas adsorbent storage vessel of a vehicle may include an air conditioning system forming a continuous flow loop of heat exchange fluid that is cycled between a heated flow and a cooled flow. The system may also include at least one fluid by-pass line extending at least partially within the gas adsorbent storage vessel. The fluid by-pass line(s) may be configured to receive a by-pass flow including at least a portion of the heated flow or the cooled flow of the heat exchange fluid at one or more input locations and expel the by-pass flow back into the continuous flow loop at one or more output locations, wherein the by-pass flow is directed through the gas adsorbent storage vessel via the by-pass line(s) so as to adjust an internal temperature within the gas adsorbent storage vessel.

Enhancement of vehicle dynamics via an innovative magnetorheological fluid limited slip differential

NASA Astrophysics Data System (ADS)

Russo, Riccardo; Strano, Salvatore; Terzo, Mario

2016-03-01

A new automotive controllable differential is proposed and tested, firstly in software environment and, successively, following a hardware in the loop procedure based on the employment of the physical prototype. The device is based on the employment of magnetorheological fluid, whose magnetization allows to generate the locking torque and, consequently, the corrective yaw moment. A vehicle model has been derived and adopted for the design of a yaw moment controller based on the sliding mode approach. Some feedbacks requested by the controller have been estimated by means of an extended Kalman filter. The obtained results show the effectiveness of the device in terms of vehicle dynamics improvement. Indeed, the results reached by the vehicle in presence of the new differential confirm the improved performances for both steady and unsteady state manoeuvres. Moreover, the hardware in the loop testing allows to overcome the limits due to the modelling of the differential, fully validating the physical prototype.

Imaging a Magnetic-breakout Solar Eruption

NASA Astrophysics Data System (ADS)

Chen, Yao; Du, Guohui; Zhao, Di; Wu, Zhao; Liu, Wei; Wang, Bing; Ruan, Guiping; Feng, Shiwei; Song, Hongqiang

2016-04-01

The fundamental mechanism initiating coronal mass ejections (CMEs) remains controversial. One of the leading theories is magnetic breakout, in which magnetic reconnection occurring high in the corona removes the confinement on an energized low-corona structure from the overlying magnetic field, thus allowing it to erupt. Here, we report critical observational evidence of this elusive breakout reconnection in a multi-polar magnetic configuration that leads to a CME and an X-class, long-duration flare. Its occurrence is supported by the presence of pairs of heated cusp-shaped loops around an X-type null point and signatures of reconnection inflows. Other peculiar features new to the breakout picture include sequential loop brightening, coronal hard X-rays at energies up to ˜100 keV, and extended high-corona X-rays above the later restored multi-polar structure. These observations, from a novel perspective with clarity never achieved before, present crucial clues to understanding the initiation mechanism of solar eruptions.

Novel experimental surgical strategy to prevent traumatic neuroma formation by combining a 3D-printed Y-tube with an autograft.

PubMed

Bolleboom, Anne; de Ruiter, Godard C W; Coert, J Henk; Tuk, Bastiaan; Holstege, Jan C; van Neck, Johan W

2018-02-09

OBJECTIVE Traumatic neuromas may develop after nerve injury at the proximal nerve stump, which can lead to neuropathic pain. These neuromas are often resistant to therapy, and excision of the neuroma frequently leads to recurrence. In this study, the authors present a novel surgical strategy to prevent neuroma formation based on the principle of centro-central anastomosis (CCA), but rather than directly connecting the nerve ends to an autograft, they created a loop using a 3D-printed polyethylene Y-shaped conduit with an autograft in the distal outlets. METHODS The 3D-printed Y-tube with autograft was investigated in a model of rat sciatic nerve transection in which the Y-tube was placed on the proximal sciatic nerve stump and a peroneal graft was placed between the distal outlets of the Y-tube to form a closed loop. This model was compared with a CCA model, in which a loop was created between the proximal tibial and peroneal nerves with a peroneal autograft. Additional control groups consisted of the closed Y-tube and the extended-arm Y-tube. Results were analyzed at 12 weeks of survival using nerve morphometry for the occurrence of neuroma formation and axonal regeneration in plastic semi-thin sections. RESULTS Among the different surgical groups, the Y-tube with interposed autograft was the only model that did not result in neuroma formation at 12 weeks of survival. In addition, a 13% reduction in the number of myelinated axons regenerating through the interposed autograft was observed in the Y-tube with autograft model. In the CCA model, the authors also observed a decrease of 17% in the number of myelinated axons, but neuroma formation was present in this model. The closed Y-tube resulted in minimal nerve regeneration inside the tube together with extensive neuroma formation before the entrance of the tube. The extended-arm Y-tube model clearly showed that the majority of the regenerating axons merged into the Y-tube arm, which was connected to the autograft, leaving the extended plastic arm almost empty. CONCLUSIONS This pilot study shows that our novel 3D-printed Y-tube model with interposed autograft prevents neuroma formation, making this a promising surgical tool for the management of traumatic neuromas.

Mineralization of TNT, RDX, and By-Products in an Anaerobic Granular Activated Carbon-Fluidized Bed Reactor

DTIC Science & Technology

2003-04-01

pipe fitters and safety personnel who constructed and installed the system. CERL personnel include Don Cropek, Pat Kemme, Neil Adrian and Clint Arnett...al. (2000), demonstrated the sequential conversion of the nitro-groups to amino-groups in TNT degradation, and Adrian and Sutherland , 1998...dinitrotoluene extended the research to TNT, RDX and pinkwater (Adrian and Sutherland , 1998, VanderLoop et al., 1998 and Hwang et al., 2000). Initial pilot

Output Feedback Pole-Placement in the Design of Compensators for Suboptimal Linear Quadratic Regulators.

DTIC Science & Technology

1979-06-01

also extended to the class of stabilizable systems and the required compensator shown to possess a separation property. Finally the design methodology...Page 1.1. Block diagram of transfer function given in (1.28) ........... 15 3.3.1. Compensator structure for controllable and stabilizable systems ...response will be stable. The implemented output feedback control law will stabilize the total closed loop system . n nn Let [uin and iJi= 1 be the

Persistence of evolutionary memory: primordial six-transmembrane helical domain mu opiate receptors selectively linked to endogenous morphine signaling.

PubMed

Kream, Richard M; Sheehan, Melinda; Cadet, Patrick; Mantione, Kirk J; Zhu, Wei; Casares, Federico; Stefano, George B

2007-12-01

Biochemical, molecular and pharmacological evidence for two unique six-transmembrane helical (TMH) domain opiate receptors expressed from the micro opioid receptor (MOR) gene have been shown. Designated micro3 and micro4 receptors, both protein species are Class A rhodopsin-like members of the superfamily of G-protein coupled receptors but are selectively tailored to mediate the cellular regulatory effects of endogenous morphine and related morphinan alkaloids via stimulation of nitric oxide (NO) production and release. Both micro3 and micro4 receptors lack an amino acid sequence of approximately 90 amino acids that constitute the extracellular N-terminal and TMH1 domains and part of the first intracellular loop of the micro1 receptor, but retain the empirically defined ligand binding pocket distributed across conserved TMH2, TMH3, and TMH7 domains of the micro1 sequence. Additionally, the receptor proteins are terminated by unique intracellular C-terminal amino acid sequences that serve as putative coupling or docking domains required for constitutive NO synthase activation. Because the recognition profile of micro3 and micro4 receptors is restricted to rigid benzylisoquinoline alkaloids typified by morphine and its extended family of chemical congeners, it is hypothesized that conformational stabilization provided by interaction of extended extracellular N-terminal protein domains and the extracellular loops is required for binding of endogenous opioid peptides as well as synthetic flexible opiate alkaloids.

Towards conformal loop quantum gravity

NASA Astrophysics Data System (ADS)

H-T Wang, Charles

2006-03-01

A discussion is given of recent developments in canonical gravity that assimilates the conformal analysis of gravitational degrees of freedom. The work is motivated by the problem of time in quantum gravity and is carried out at the metric and the triad levels. At the metric level, it is shown that by extending the Arnowitt-Deser-Misner (ADM) phase space of general relativity (GR), a conformal form of geometrodynamics can be constructed. In addition to the Hamiltonian and Diffeomorphism constraints, an extra first class constraint is introduced to generate conformal transformations. This phase space consists of York's mean extrinsic curvature time, conformal three-metric and their momenta. At the triad level, the phase space of GR is further enlarged by incorporating spin-gauge as well as conformal symmetries. This leads to a canonical formulation of GR using a new set of real spin connection variables. The resulting gravitational constraints are first class, consisting of the Hamiltonian constraint and the canonical generators for spin-gauge and conformorphism transformations. The formulation has a remarkable feature of being parameter-free. Indeed, it is shown that a conformal parameter of the Barbero-Immirzi type can be absorbed by the conformal symmetry of the extended phase space. This gives rise to an alternative approach to loop quantum gravity that addresses both the conceptual problem of time and the technical problem of functional calculus in quantum gravity.

Basal ganglia and gait control: apomorphine administration and internal pallidum stimulation in Parkinson's disease.

PubMed

Grasso, R; Peppe, A; Stratta, F; Angelini, D; Zago, M; Stanzione, P; Lacquaniti, F

1999-05-01

Gait coordination was analyzed (four-camera 100 Hz ELITE system) in two groups of idiopathic Parkinson disease (PD) patients. Five patients underwent continuous infusion of apomorphine and were recorded in two different sessions (APO OFF and APO ON) in the same day. Three patients with a previous chronic electrode implantation in both internal globi pallidi (GPi) were recorded in the same experimental session with the electrodes on and off (STIM ON and STIM OFF). The orientation of both the trunk and the lower-limb segments was described with respect to the vertical in the sagittal plane. Lower-limb inter-segmental coordination was evaluated by analyzing the co-variation between thigh, shank, and foot elevation angles by means of orthogonal planar regression. At least 30 gait cycles per experimental condition were processed. We found that the trunk was bent forward in STIM OFF, whereas it was better aligned with the vertical in STIM ON in both PD groups. The legs never fully extended during the gait cycle in STIM OFF, whereas they extended before heel strike in STIM ON. The multisegmental coordination of the lower limb changed almost in parallel with the changes in trunk orientation. In STIM OFF, both the shape and the spatial orientation of the planar gait loops (thigh angle vs. shank angle vs. foot angle) differed from those of physiological locomotion, whereas in STIM ON the gait loop tended to resume features closer to the control. Switching the electrodes on and off in patients with GPi electrodes resulted in quasi-parallel changes of the trunk inclination and of the planar gait loop. The bulk of the data suggest that the basal-ganglia circuitry may be relevant in locomotion by providing an appropriate spatio-temporal framework for the control of posture and movement in a gravity-based body-centered frame of reference. Pallido-thalamic and/or pallido-mesencephalic pathways may influence the timing of the inter-segmental coordination for gait.

Distributed cerebellar plasticity implements adaptable gain control in a manipulation task: a closed-loop robotic simulation

PubMed Central

Garrido, Jesús A.; Luque, Niceto R.; D'Angelo, Egidio; Ros, Eduardo

2013-01-01

Adaptable gain regulation is at the core of the forward controller operation performed by the cerebro-cerebellar loops and it allows the intensity of motor acts to be finely tuned in a predictive manner. In order to learn and store information about body-object dynamics and to generate an internal model of movement, the cerebellum is thought to employ long-term synaptic plasticity. LTD at the PF-PC synapse has classically been assumed to subserve this function (Marr, 1969). However, this plasticity alone cannot account for the broad dynamic ranges and time scales of cerebellar adaptation. We therefore tested the role of plasticity distributed over multiple synaptic sites (Hansel et al., 2001; Gao et al., 2012) by generating an analog cerebellar model embedded into a control loop connected to a robotic simulator. The robot used a three-joint arm and performed repetitive fast manipulations with different masses along an 8-shape trajectory. In accordance with biological evidence, the cerebellum model was endowed with both LTD and LTP at the PF-PC, MF-DCN and PC-DCN synapses. This resulted in a network scheme whose effectiveness was extended considerably compared to one including just PF-PC synaptic plasticity. Indeed, the system including distributed plasticity reliably self-adapted to manipulate different masses and to learn the arm-object dynamics over a time course that included fast learning and consolidation, along the lines of what has been observed in behavioral tests. In particular, PF-PC plasticity operated as a time correlator between the actual input state and the system error, while MF-DCN and PC-DCN plasticity played a key role in generating the gain controller. This model suggests that distributed synaptic plasticity allows generation of the complex learning properties of the cerebellum. The incorporation of further plasticity mechanisms and of spiking signal processing will allow this concept to be extended in a more realistic computational scenario. PMID:24130518

Crystal Structure of the Pseudomonas aeruginosa BEL-1 Extended-Spectrum β-Lactamase and Its Complexes with Moxalactam and Imipenem.

PubMed

Pozzi, Cecilia; De Luca, Filomena; Benvenuti, Manuela; Poirel, Laurent; Nordmann, Patrice; Rossolini, Gian Maria; Mangani, Stefano; Docquier, Jean-Denis

2016-12-01

BEL-1 is an acquired class A extended-spectrum β-lactamase (ESBL) found in Pseudomonas aeruginosa clinical isolates from Belgium which is divergent from other ESBLs (maximum identity of 54% with GES-type enzymes). This enzyme is efficiently inhibited by clavulanate, imipenem, and moxalactam. Crystals of BEL-1 were obtained at pH 5.6, and the structure of native BEL-1 was determined from orthorhombic and monoclinic crystal forms at 1.60-Å and 1.48-Å resolution, respectively. By soaking native BEL-1 crystals, complexes with imipenem (monoclinic form, 1.79-Å resolution) and moxalactam (orthorhombic form, 1.85-Å resolution) were also obtained. In the acyl-enzyme complexes, imipenem and moxalactam differ by the position of the α-substituent and of the carbonyl oxygen (in or out of the oxyanion hole). More surprisingly, the Ω-loop, which includes the catalytically relevant residue Glu166, was found in different conformations in the various subunits, resulting in the Glu166 side chain being rotated out of the active site or even in displacement of its Cα atom up to approximately 10 Å. A BEL-1 variant showing the single Leu162Phe substitution (BEL-2) confers a higher level of resistance to CAZ, CTX, and FEP and shows significantly lower K m values than BEL-1, especially with oxyiminocephalosporins. BEL-1 Leu162 is located at the beginning of the Ω-loop and is surrounded by Phe72, Leu139, and Leu148 (contact distances, 3.5 to 3.9 Å). This small hydrophobic cavity could not reasonably accommodate the bulkier Phe162 found in BEL-2 without altering neighboring residues or the Ω-loop itself, thus likely causing an important alteration of the enzyme kinetic properties. Copyright © 2016, American Society for Microbiology. All Rights Reserved.

Accelerated development and flight evaluation of active controls concepts for subsonic transport aircraft. Volume 1: Load alleviation/extended span development and flight tests

NASA Technical Reports Server (NTRS)

Johnston, J. F.

1979-01-01

Active wing load alleviation to extend the wing span by 5.8 percent, giving a 3 percent reduction in cruise drag is covered. The active wing load alleviation used symmetric motions of the outboard ailerons for maneuver load control (MLC) and elastic mode suppression (EMS), and stabilizer motions for gust load alleviation (GLA). Slow maneuvers verified the MLC, and open and closed-loop flight frequency response tests verified the aircraft dynamic response to symmetric aileron and stabilizer drives as well as the active system performance. Flight tests in turbulence verified the effectiveness of the active controls in reducing gust-induced wing loads. It is concluded that active wing load alleviation/extended span is proven in the L-1011 and is ready for application to airline service; it is a very practical way to obtain the increased efficiency of a higher aspect ratio wing with minimum structural impact.

Observation of laser beam profile progression inside an extended laser cavity

NASA Astrophysics Data System (ADS)

Wu, Frank F.; Farrell, Thomas C.

2013-03-01

This report presents the result of the laser beam profile progression in target-in-the-loop (TIL) system. This simulation experiment is to verify whether it is possible to form a tight hot spot similar to a single transversal mode in an extended laser cavity. Therefore, it is very important to observe the progression of the laser profile at a laser cavity mirror when a seeded high energy laser pulse is injected into the TIL system. The extended laser cavity is formed with a high reflectivity mirror on one end and an optical phase conjugated mirror as the second mirror, with potential disturbance media inside. The laser oscillation occurs only when it is triggered with a single frequency high energy laser pulse to overcome the threshold condition. With a laser cavity length of around 11 meters and a seeded laser pulse of 10 ns, we have been able to acquire and distinguish the laser beam profiles of each round-trip. Inserting a scattering media and other distortion elements can simulate atmospheric effects.

Extending double modulation: combinatorial rules for identifying the modulations necessary for determining elasticities in metabolic pathways.

PubMed

Giersch, C; Cornish-Bowden, A

1996-10-07

The double modulation method for determining the elasticities of pathway enzymes, originally devised by Kacser & Burns (Biochem. Soc. Trans. 7, 1149-1160, 1979), is extended to pathways of complex topological structure, including branching and feedback loops. An explicit system of linear equations for the unknown elasticities is derived. The constraints imposed on this linear system imply that modulations of more than one enzyme are not necessarily independent. Simple combinatorial rules are described for identifying without using any algebra the set of independent modulations that allow the determination of the elasticities of any enzyme. By repeated application, the minimum numbers of modulations required to determine the elasticities of all enzymes of a given pathway can be determined. The procedure is illustrated with numerous examples.

Observations with the GISMOS Airborne Radio Occultation System

NASA Astrophysics Data System (ADS)

Muradyan, Paytsar; Haase, Jennifer; Garrison, James; Lulich, Tyler; Xie, Feiqin

2010-05-01

The spatial sample density of temperature and moisture profiles derived from the current spaceborne GPS radio occultation (RO) constellation is limited by the number of occultation satellites in operation. With the current RO satellite configuration, only one RO profile per day is typically available in a 160,000 square kilometer area in the mid-latitude and tropics and slightly more in high latitudes. The airborne RO technique, which has the GPS receiver onboard an airplane, offers flexibility and much denser sampling for targeted observation within 400 km of the aircraft, and provides comparable high vertical resolution to that of the spaceborne case. With an airborne system, targeted measurements can be planned in an optimal geometry to study the accuracy of RO measurements in the lower troposphere where strong vertical gradients in moisture might lead to disruption of signal tracking. These dense measurements can also be used to test assimilation techniques of refractivity and lower tropospheric moisture derived from RO data. In February 2008, the GNSS Instrument System for Multistatic and Occultation Sensing (GISMOS), developed at Purdue University, was successfully deployed on the NSF HIAPER aircraft for series of research flights in the Gulf of Mexico coastal region to validate the airborne observing system. During this campaign, occultation observations were collected in conjunction with supplemental radiosonde and dropsonde soundings. RO signals were recorded using side-looking GPS antennas and dual frequency GPS receivers. However, these conventional phase-locked-loop GPS receivers cannot always track the signal in the lower troposphere, where there are rapid phase accelerations caused by highly variable moisture structures. To extend the observations deeper into the atmosphere, the raw signal from occulting satellites is recorded at 10MHz sampling interval by a GPS recording system (GRS). Open-loop (OL) tracking, which replaces the traditional GPS receiver feedback loop using an a priori estimate of Doppler frequency, was implemented in a software receiver and the data was post-processed after the flight. Such an extensive dataset can be of importance in studies aimed at improving signal processing performance for spaceborne as well as airborne RO measurements. We present data from the February 2008 campaign, and show several examples of occultations with clear atmospheric signals in the excess phase and Doppler. Many recordings that were made with conventional receivers descend below 5 km in the atmosphere. With an OL tracking procedure using the data recorded by the GRS, the measurements extended deeper into the atmosphere (~ 2km above surface). Raytracing was used to simulate the atmospheric excess phase profile from a nearby radiosonde sounding. The excess phase profiles acquired with both closed-loop and open-loop tracking show consistent patterns compared to the radiosonde observations.

Mobile and replicated alignment of arrays in data-parallel programs

NASA Technical Reports Server (NTRS)

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

1993-01-01

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

Heat Rejection Concepts for Lunar Fission Surface Power Applications

NASA Technical Reports Server (NTRS)

Siamidis, John

2006-01-01

This paper describes potential heat rejection design concepts for lunar surface Brayton power conversion systems. Brayton conversion systems are currently under study by NASA for surface power applications. Surface reactors may be used for the moon to power human outposts enabling extended stays and closed loop life support. The Brayton Heat Rejection System (HRS) must dissipate waste heat generated by the power conversion system due to inefficiencies in the thermal-to-electric conversion process. Space Brayton conversion system designs tend to optimize at efficiencies of about 20 to 25 percent with radiator temperatures in the 400 K to 600 K range. A notional HRS was developed for a 100 kWe-class Brayton power system that uses a pumped water heat transport loop coupled to a water heat pipe radiator. The radiator panels employ a tube and fin construction consisting of regularly-spaced circular heat pipes contained within two composite facesheets. The water heat pipes interface to the coolant through curved sections partially contained within the cooling loop. The paper evaluates various design parameters including radiator panel orientation, coolant flow path, and facesheet thickness. Parameters were varied to compare design options on the basis of H2O pump pressure rise and required power, heat pipe unit power and radial flux, radiator area, radiator panel areal mass, and overall HRS mass.

Multifunctional Dumbbell-Shaped DNA-Templated Selective Formation of Fluorescent Silver Nanoclusters or Copper Nanoparticles for Sensitive Detection of Biomolecules.

PubMed

Chen, Jinyang; Ji, Xinghu; Tinnefeld, Philip; He, Zhike

2016-01-27

In this work, a multifunctional template for selective formation of fluorescent silver nanoclusters (AgNCs) or copper nanoparticles (CuNPs) is put forward. This dumbbell-shaped (DS) DNA template is made up of two cytosine hairpin loops and an adenine-thymine-rich double-helical stem which is closed by the loops. The cytosine loops act as specific regions for the growth of AgNCs, and the double-helical stem serves as template for the CuNPs formation. By carefully investigating the sequence and length of DS DNA, we present the optimal design of the template. Benefiting from the smart design and facile synthesis, a simple, label-free, and ultrasensitive fluorescence strategy for adenosine triphosphate (ATP) detection is proposed. Through the systematic comparison, it is found that the strategy based on CuNPs formation is more sensitive for ATP assay than that based on AgNCs synthesis, and the detection limitation was found to be 81 pM. What's more, the CuNPs formation-based method is successfully applied in the detection of ATP in human serum as well as the determination of cellular ATP. In addition to small target molecule, the sensing strategy was also extended to the detection of biomacromolecule (DNA), which illustrates the generality of this biosensor.

Localizing softness and stress along loops in 3D topological metamaterials

NASA Astrophysics Data System (ADS)

Baardink, Guido; Souslov, Anton; Paulose, Jayson; Vitelli, Vincenzo

2018-01-01

Topological states can be used to control the mechanical properties of a material along an edge or around a localized defect. The rigidity of elastic networks is characterized by a topological invariant called the polarization; materials with a well-defined uniform polarization display a dramatic range of edge softness depending on the orientation of the polarization relative to the terminating surface. However, in all 3D mechanical metamaterials proposed to date, the topological modes are mixed with bulk soft modes, which organize themselves in Weyl loops. Here, we report the design of a 3D topological metamaterial without Weyl lines and with a uniform polarization that leads to an asymmetry between the number of soft modes on opposing surfaces. We then use this construction to localize topological soft modes in interior regions of the material by including defect lines—dislocation loops—that are unique to three dimensions. We derive a general formula that relates the difference in the number of soft modes and states of self-stress localized along the dislocation loop to the handedness of the vector triad formed by the lattice polarization, Burgers vector, and dislocation-line direction. Our findings suggest a strategy for preprogramming failure and softness localized along lines in 3D, while avoiding extended soft Weyl modes.

Dark matter direct detection of a fermionic singlet at one loop

NASA Astrophysics Data System (ADS)

Herrero-García, Juan; Molinaro, Emiliano; Schmidt, Michael A.

2018-06-01

The strong direct detection limits could be pointing to dark matter - nucleus scattering at loop level. We study in detail the prototype example of an electroweak singlet (Dirac or Majorana) dark matter fermion coupled to an extended dark sector, which is composed of a new fermion and a new scalar. Given the strong limits on colored particles from direct and indirect searches we assume that the fields of the new dark sector are color singlets. We outline the possible simplified models, including the well-motivated cases in which the extra scalar or fermion is a Standard Model particle, as well as the possible connection to neutrino masses. We compute the contributions to direct detection from the photon, the Z and the Higgs penguins for arbitrary quantum numbers of the dark sector. Furthermore, we derive compact expressions in certain limits, i.e., when all new particles are heavier than the dark matter mass and when the fermion running in the loop is light, like a Standard Model lepton. We study in detail the predicted direct detection rate and how current and future direct detection limits constrain the model parameters. In case dark matter couples directly to Standard Model leptons we find an interesting interplay between lepton flavor violation, direct detection and the observed relic abundance.

Derivation of three closed loop kinematic velocity models using normalized quaternion feedback for an autonomous redundant manipulator with application to inverse kinematics

DOE Office of Scientific and Technical Information (OSTI.GOV)

Unseren, M.A.

1993-04-01

The report discusses the orientation tracking control problem for a kinematically redundant, autonomous manipulator moving in a three dimensional workspace. The orientation error is derived using the normalized quaternion error method of Ickes, the Luh, Walker, and Paul error method, and a method suggested here utilizing the Rodrigues parameters, all of which are expressed in terms of normalized quaternions. The analytical time derivatives of the orientation errors are determined. The latter, along with the translational velocity error, form a dosed loop kinematic velocity model of the manipulator using normalized quaternion and translational position feedback. An analysis of the singularities associatedmore » with expressing the models in a form suitable for solving the inverse kinematics problem is given. Two redundancy resolution algorithms originally developed using an open loop kinematic velocity model of the manipulator are extended to properly take into account the orientation tracking control problem. This report furnishes the necessary mathematical framework required prior to experimental implementation of the orientation tracking control schemes on the seven axis CESARm research manipulator or on the seven-axis Robotics Research K1207i dexterous manipulator, the latter of which is to be delivered to the Oak Ridge National Laboratory in 1993.« less

Decentralized Control of Sound Radiation from an Aircraft-Style Panel Using Iterative Loop Recovery

NASA Technical Reports Server (NTRS)

Schiller, Noah H.; Cabell, Randolph H.; Fuller, Chris R.

2008-01-01

A decentralized LQG-based control strategy is designed to reduce low-frequency sound transmission through periodically stiffened panels. While modern control strategies have been used to reduce sound radiation from relatively simple structural acoustic systems, significant implementation issues have to be addressed before these control strategies can be extended to large systems such as the fuselage of an aircraft. For instance, centralized approaches typically require a high level of connectivity and are computationally intensive, while decentralized strategies face stability problems caused by the unmodeled interaction between neighboring control units. Since accurate uncertainty bounds are not known a priori, it is difficult to ensure the decentralized control system will be robust without making the controller overly conservative. Therefore an iterative approach is suggested, which utilizes frequency-shaped loop recovery. The approach accounts for modeling error introduced by neighboring control loops, requires no communication between subsystems, and is relatively simple. The control strategy is validated using real-time control experiments performed on a built-up aluminum test structure representative of the fuselage of an aircraft. Experiments demonstrate that the iterative approach is capable of achieving 12 dB peak reductions and a 3.6 dB integrated reduction in radiated sound power from the stiffened panel.

Formation of a repressive complex in the mammalian circadian clock is mediated by the secondary pocket of CRY1

DOE PAGES

Michael, Alicia K.; Fribourgh, Jennifer L.; Chelliah, Yogarany; ...

2017-01-31

The basic helix-loop-helix PAS domain (bHLH-PAS) transcription factor CLOCK:BMAL1 (brain and muscle Arnt-like protein 1) sits at the core of the mammalian circadian transcription/translation feedback loop. Precise control of CLOCK:BMAL1 activity by coactivators and repressors establishes the ~24-h periodicity of gene expression. Formation of a repressive complex, defined by the core clock proteins cryptochrome 1 (CRY1):CLOCK:BMAL1, plays an important role controlling the switch from repression to activation each day. Here in this paper, we show that CRY1 binds directly to the PAS domain core of CLOCK: BMAL1, driven primarily by interaction with the CLOCK PAS-B domain. Integrative modeling and solutionmore » X-ray scattering studies unambiguously position a key loop of the CLOCK PAS-B domain in the secondary pocket of CRY1, analogous to the antenna chromophore-binding pocket of photolyase. CRY1 docks onto the transcription factor alongside the PAS domains, extending above the DNA-binding bHLH domain. Single point mutations at the interface on either CRY1 or CLOCK disrupt formation of the ternary complex, highlighting the importance of this interface for direct regulation of CLOCK:BMAL1 activity by CRY1.« less

Modeling of testosterone regulation by pulse-modulated feedback: An experimental data study

NASA Astrophysics Data System (ADS)

Mattsson, Per; Medvedev, Alexander

2013-10-01

The continuous part of a hybrid (pulse-modulated) model of testosterone feedback regulation is extended with infinite-dimensional and nonlinear dynamics, to better explain the testosterone concentration profiles observed in clinical data. A linear least-squares based optimization algorithm is developed for the purpose of detecting impulses of gonadotropin-realsing hormone from measured concentration of luteinizing hormone. The parameters in the model are estimated from hormone concentration measured in human males, and simulation results from the full closed-loop system are provided.

A Review of Environmental and Engineering Studies Concerning Effects of Extended Season Navigation on the Great Lakes-St. Lawrence Seaway System

DTIC Science & Technology

1988-10-01

hydroelectric power companies set across the St. Lawrence River in early winter to ensure dependable electric power generation in winter. One scheme was to...leave part of the boom open, but connected, and pull it closed after the last ship passed through using an electric winch mounted on a cell structure...needing a supplemntal safety loop. It was electrically operated, submersible, sensitive, and fairly light. Eventually the tension link design, including

The Â-genus as a Projective Volume form on the Derived Loop Space

NASA Astrophysics Data System (ADS)

Grady, Ryan

2018-06-01

In the present work, we extend our previous work with Gwilliam by realizing \\hat {A}(X) as the projective volume form associated to the BV operator in our quantization of a one-dimensional sigma model. We also discuss the associated integration/expectation map. We work in the formalism of L ∞ spaces, objects of which are computationally convenient presentations for derived stacks. Both smooth and complex geometry embed into L ∞ spaces and we specialize our results in both of these cases.

Hardware implementation of Lorenz circuit systems for secure chaotic communication applications.

PubMed

Chen, Hsin-Chieh; Liau, Ben-Yi; Hou, Yi-You

2013-02-18

This paper presents the synchronization between the master and slave Lorenz chaotic systems by slide mode controller (SMC)-based technique. A proportional-integral (PI) switching surface is proposed to simplify the task of assigning the performance of the closed-loop error system in sliding mode. Then, extending the concept of equivalent control and using some basic electronic components, a secure communication system is constructed. Experimental results show the feasibility of synchronizing two Lorenz circuits via the proposed SMC. 

Earth observations taken by Expedition 38 crewmember

NASA Image and Video Library

2013-12-12

ISS038-E-015162 (12 Dec. 2013) --- One of the Expedition 38 crew members took this brightly lit night picture featuring much of the Houston metropolitan area. The central business district is in the exact center of the photo, with the Galleria area and uptown being in the lower left with Sugar Land being closer to the lower left corner. The 610 Loop and Beltway 8 encircle the city. The southeast sections extend past Hobby Airport to the NASA/Clear Lake area.

Earth observations taken by Expedition 38 crewmember

NASA Image and Video Library

2013-12-12

ISS038-E-015160 (12 Dec. 2013) --- One of the Expedition 38 crew members took this brightly lit night picture featuring much of the Houston metropolitan area. The central business district is in the exact center of the photo, with the Galleria area and uptown being in the lower left with Sugar Land being closer to the lower left corner. The 610 Loop and Beltway 8 encircle the city. The southeast sections extend past Hobby Airport to the NASA/Clear Lake area.

Cognitive Modeling for Agent-Based Simulation of Child Maltreatment

NASA Astrophysics Data System (ADS)

Hu, Xiaolin; Puddy, Richard

This paper extends previous work to develop cognitive modeling for agent-based simulation of child maltreatment (CM). The developed model is inspired from parental efficacy, parenting stress, and the theory of planned behavior. It provides an explanatory, process-oriented model of CM and incorporates causality relationship and feedback loops from different factors in the social ecology in order for simulating the dynamics of CM. We describe the model and present simulation results to demonstrate the features of this model.

Consistent maximum entropy representations of pipe flow networks

NASA Astrophysics Data System (ADS)

Waldrip, Steven H.; Niven, Robert K.; Abel, Markus; Schlegel, Michael

2017-06-01

The maximum entropy method is used to predict flows on water distribution networks. This analysis extends the water distribution network formulation of Waldrip et al. (2016) Journal of Hydraulic Engineering (ASCE), by the use of a continuous relative entropy defined on a reduced parameter set. This reduction in the parameters that the entropy is defined over ensures consistency between different representations of the same network. The performance of the proposed reduced parameter method is demonstrated with a one-loop network case study.

Heat exchanger and water tank arrangement for passive cooling system

DOEpatents

Gillett, James E.; Johnson, F. Thomas; Orr, Richard S.; Schulz, Terry L.

1993-01-01

A water storage tank in the coolant water loop of a nuclear reactor contains a tubular heat exchanger. The heat exchanger has tubesheets mounted to the tank connections so that the tubesheets and tubes may be readily inspected and repaired. Preferably, the tubes extend from the tubesheets on a square pitch and then on a rectangular pitch therebetween. Also, the heat exchanger is supported by a frame so that the tank wall is not required to support all of its weight.

Optimal energy-splitting method for an open-loop liquid crystal adaptive optics system.

PubMed

Cao, Zhaoliang; Mu, Quanquan; Hu, Lifa; Liu, Yonggang; Peng, Zenghui; Yang, Qingyun; Meng, Haoran; Yao, Lishuang; Xuan, Li

2012-08-13

A waveband-splitting method is proposed for open-loop liquid crystal adaptive optics systems (LC AOSs). The proposed method extends the working waveband, splits energy flexibly, and improves detection capability. Simulated analysis is performed for a waveband in the range of 350 nm to 950 nm. The results show that the optimal energy split is 7:3 for the wavefront sensor (WFS) and for the imaging camera with the waveband split into 350 nm to 700 nm and 700 nm to 950 nm, respectively. A validation experiment is conducted by measuring the signal-to-noise ratio (SNR) of the WFS and the imaging camera. The results indicate that for the waveband-splitting method, the SNR of WFS is approximately equal to that of the imaging camera with a variation in the intensity. On the other hand, the SNR of the WFS is significantly different from that of the imaging camera for the polarized beam splitter energy splitting scheme. Therefore, the waveband-splitting method is more suitable for an open-loop LC AOS. An adaptive correction experiment is also performed on a 1.2-meter telescope. A star with a visual magnitude of 4.45 is observed and corrected and an angular resolution ability of 0.31″ is achieved. A double star with a combined visual magnitude of 4.3 is observed as well, and its two components are resolved after correction. The results indicate that the proposed method can significantly improve the detection capability of an open-loop LC AOS.

Stepwise assembly of multiple Lin28 proteins on the terminal loop of let-7 miRNA precursors

PubMed Central

Desjardins, Alexandre; Bouvette, Jonathan; Legault, Pascale

2014-01-01

Lin28 inhibits the biogenesis of let-7 miRNAs through direct interactions with let-7 precursors. Previous studies have described seemingly inconsistent Lin28 binding sites on pre-let-7 RNAs. Here, we reconcile these data by examining the binding mechanism of Lin28 to the terminal loop of pre-let-7g (TL-let-7g) using biochemical and biophysical methods. First, we investigate Lin28 binding to TL-let-7g variants and short RNA fragments and identify three independent binding sites for Lin28 on TL-let-7g. We then determine that Lin28 assembles in a stepwise manner on TL-let-7g to form a stable 1:3 complex. We show that the cold-shock domain (CSD) of Lin28 is responsible for remodelling the terminal loop of TL-let-7g, whereas the NCp7-like domain facilitates the initial binding of Lin28 to TL-let-7g. This stable binding of multiple Lin28 molecules to the terminal loop of pre-let-7g extends to other precursors of the let-7 family, but not to other pre-miRNAs tested. We propose a model for stepwise assembly of the 1:1, 1:2 and 1:3 pre-let-7g/Lin28 complexes. Stepwise multimerization of Lin28 on pre-let-7 is required for maximum inhibition of Dicer cleavage for a least one member of the let-7 family and may be important for orchestrating the activity of the several factors that regulate let-7 biogenesis. PMID:24452802

Loop electrostatics modulates the intersubunit interactions in ferritin.

PubMed

Bernacchioni, Caterina; Ghini, Veronica; Pozzi, Cecilia; Di Pisa, Flavio; Theil, Elizabeth C; Turano, Paola

2014-11-21

Functional ferritins are 24-mer nanocages that self-assemble with extended contacts between pairs of 4-helix bundle subunits coupled in an antiparallel fashion along the C2 axes. The largest intersubunit interaction surface in the ferritin nanocage involves helices, but contacts also occur between groups of three residues midway in the long, solvent-exposed L-loops of facing subunits. The anchor points between intersubunit L-loop pairs are the salt bridges between the symmetry-related, conserved residues Asp80 and Lys82. The resulting quaternary structure of the cage is highly soluble and thermostable. Substitution of negatively charged Asp80 with a positively charged Lys in homopolymeric M ferritin introduces electrostatic repulsions that inhibit the oligomerization of the ferritin subunits. D80K ferritin was present in inclusion bodies under standard overexpressing conditions in E. coli, contrasting with the wild type protein. Small amounts of fully functional D80K nanocages formed when expression was slowed. The more positively charged surface results in a different solubility profile and D80K crystallized in a crystal form with a low density packing. The 3D structure of D80K variant is the same as wild type except for the side chain orientations of Lys80 and facing Lys82. When three contiguous Lys groups are introduced in D80KI81K ferritin variant the nanocage assembly is further inhibited leading to lower solubility and reduced thermal stability. Here, we demonstrate that the electrostatic pairing at the center of the L-loops has a specific kinetic role in the self-assembly of ferritin nanocages.

High-Altitude Closed Magnetic Loops at Mars Observed by MAVEN

NASA Astrophysics Data System (ADS)

Xu, Shaosui; Mitchell, David; Luhmann, Janet; Ma, Yingjuan; Fang, Xiaohua; Harada, Yuki; Hara, Takuya; Brain, David; Weber, Tristan; Mazelle, Christian; DiBraccio, Gina A.

2017-11-01

With electron and magnetic field data obtained by the Mars Atmosphere and Volatile EvolutioN (MAVEN) spacecraft, we have identified closed magnetic field lines, with both foot points embedded in the dayside ionosphere, extending up to 6,200 km altitude into the Martian tail. This topology is deduced from photoelectrons produced in the dayside ionosphere being observed traveling both parallel and antiparallel to the magnetic field. At trapped-zone pitch angles (within a range centered on 90° where electrons magnetically reflect before interacting with the atmosphere), cases with either solar wind electrons or photoelectrons have been found, indicating different formation mechanisms for these closed loops. These large closed loops are present in MHD simulations. The case with field-aligned photoelectrons mixed with solar wind electrons having trapped-zone pitch angles is likely to be associated with reconnection, while the case with photoelectrons at all pitch angles is probably due to closed field lines being pulled tailward by the surrounding plasma flow. By utilizing an algorithm for distinguishing photoelectrons from solar wind electrons in pitch angle-resolved energy spectra, we systematically map the spatial distribution and occurrence rate of these closed magnetic loops over the region sampled by the MAVEN orbit. We find that the occurrence rate ranges from a few percent to a few tens of percent outside of the optical shadow and less than one percent within the shadow. These observations can be used to investigate the general magnetic topology in the tail, which is relevant to cold ion escape, reconnection, and flux ropes.

The yeast retrotransposon Ty5 uses the anticodon stem-loop of the initiator methionine tRNA as a primer for reverse transcription.

PubMed Central

Ke, N; Gao, X; Keeney, J B; Boeke, J D; Voytas, D F

1999-01-01

Retrotransposons and retroviruses replicate by reverse transcription of an mRNA intermediate. Most retroelements initiate reverse transcription from a host-encoded tRNA primer. DNA synthesis typically extends from the 3'-OH of the acceptor stem, which is complementary to sequences on the retroelement mRNA (the primer binding site, PBS). However, for some retrotransposons, including the yeast Ty5 elements, sequences in the anticodon stem-loop of the initiator methionine tRNA (IMT) are complementary to the PBS. We took advantage of the genetic tractability of the yeast system to investigate the mechanism of Ty5 priming. We found that transposition frequencies decreased at least 800-fold for mutations in the Ty5 PBS that disrupt complementarity with the IMT. Similarly, transposition was reduced at least 200-fold for IMT mutations in the anticodon stem-loop. Base pairing between the Ty5 PBS and IMT is essential for transposition, as compensatory changes that restored base pairing between the two mutant RNAs restored transposition significantly. An analysis of 12 imt mutants with base changes outside of the region of complementarity failed to identify other tRNA residues important for transposition. In addition, assays carried out with heterologous IMTs from Schizosaccharomyces pombe and Arabidopsis thaliana indicated that residues outside of the anticodon stem-loop have at most a fivefold effect on transposition. Our genetic system should make it possible to further define the components required for priming and to understand the mechanism by which Ty5's novel primer is generated. PMID:10411136

Extended clinical and genetic spectrum associated with biallelic RTEL1 mutations.

PubMed

Touzot, Fabien; Kermasson, Laetitia; Jullien, Laurent; Moshous, Despina; Ménard, Christelle; Ikincioğullari, Aydan; Doğu, Figen; Sari, Sinan; Giacobbi-Milet, Vannina; Etzioni, Amos; Soulier, Jean; Londono-Vallejo, Arturo; Fischer, Alain; Callebaut, Isabelle; de Villartay, Jean-Pierre; Leblanc, Thierry; Kannengiesser, Caroline; Revy, Patrick

2016-11-29

Telomeres are repetitive hexameric sequences located at the end of linear chromosomes. They adopt a lariat-like structure, the T-loop, to prevent them from being recognized as DNA breaks by the DNA repair machinery. RTEL1 is a DNA helicase required for proper telomere replication and stability. In particular, it has been postulated that RTEL1 is involved in the opening of the T-loop during telomere replication to avoid sudden telomere deletion and telomere circle (T-circle) formation. In humans, biallelic RTEL1 mutations cause Hoyeraal-Hreidarsson syndrome (HH), a rare and severe telomere biology disorder characterized by intrauterine growth retardation, bone marrow failure, microcephaly and/or cerebellar hypoplasia, and immunodeficiency. To date, 18 different RTEL1 mutations have been described in 19 cases of HH with short telomeres. The impaired T-loop resolution has been proposed to be a major cause of telomere shortening in RTEL1 deficiency. However, the biological and clinical consequences of this disorder remain incompletely documented. Here, we describe 4 new patients harboring biallelic RTEL1 mutations, including 2 novel missense mutations located in the C-terminal end of RTEL1 (p.Cys1268Arg and p.Val1294Phe). Clinical characteristics from these 4 patients were collected as those from 4 other RTEL1-deficient patients previously reported. In addition, we assessed whether T-circles, the product of improper T-loop resolution, were detected in our RTEL1-deficient patients. Overall, our study broadens and refines the clinical and biological spectrum of human RTEL1 deficiency.

Extended clinical and genetic spectrum associated with biallelic RTEL1 mutations

PubMed Central

Kermasson, Laetitia; Jullien, Laurent; Moshous, Despina; Ménard, Christelle; Ikincioğullari, Aydan; Doğu, Figen; Sari, Sinan; Giacobbi-Milet, Vannina; Etzioni, Amos; Soulier, Jean; Londono-Vallejo, Arturo; Fischer, Alain; Callebaut, Isabelle; de Villartay, Jean-Pierre; Leblanc, Thierry; Kannengiesser, Caroline; Revy, Patrick

2016-01-01

Telomeres are repetitive hexameric sequences located at the end of linear chromosomes. They adopt a lariat-like structure, the T-loop, to prevent them from being recognized as DNA breaks by the DNA repair machinery. RTEL1 is a DNA helicase required for proper telomere replication and stability. In particular, it has been postulated that RTEL1 is involved in the opening of the T-loop during telomere replication to avoid sudden telomere deletion and telomere circle (T-circle) formation. In humans, biallelic RTEL1 mutations cause Hoyeraal-Hreidarsson syndrome (HH), a rare and severe telomere biology disorder characterized by intrauterine growth retardation, bone marrow failure, microcephaly and/or cerebellar hypoplasia, and immunodeficiency. To date, 18 different RTEL1 mutations have been described in 19 cases of HH with short telomeres. The impaired T-loop resolution has been proposed to be a major cause of telomere shortening in RTEL1 deficiency. However, the biological and clinical consequences of this disorder remain incompletely documented. Here, we describe 4 new patients harboring biallelic RTEL1 mutations, including 2 novel missense mutations located in the C-terminal end of RTEL1 (p.Cys1268Arg and p.Val1294Phe). Clinical characteristics from these 4 patients were collected as those from 4 other RTEL1-deficient patients previously reported. In addition, we assessed whether T-circles, the product of improper T-loop resolution, were detected in our RTEL1-deficient patients. Overall, our study broadens and refines the clinical and biological spectrum of human RTEL1 deficiency. PMID:29296694

A generalized analysis of hydrophobic and loop clusters within globular protein sequences

PubMed Central

Eudes, Richard; Le Tuan, Khanh; Delettré, Jean; Mornon, Jean-Paul; Callebaut, Isabelle

2007-01-01

Background Hydrophobic Cluster Analysis (HCA) is an efficient way to compare highly divergent sequences through the implicit secondary structure information directly derived from hydrophobic clusters. However, its efficiency and application are currently limited by the need of user expertise. In order to help the analysis of HCA plots, we report here the structural preferences of hydrophobic cluster species, which are frequently encountered in globular domains of proteins. These species are characterized only by their hydrophobic/non-hydrophobic dichotomy. This analysis has been extended to loop-forming clusters, using an appropriate loop alphabet. Results The structural behavior of hydrophobic cluster species, which are typical of protein globular domains, was investigated within banks of experimental structures, considered at different levels of sequence redundancy. The 294 more frequent hydrophobic cluster species were analyzed with regard to their association with the different secondary structures (frequencies of association with secondary structures and secondary structure propensities). Hydrophobic cluster species are predominantly associated with regular secondary structures, and a large part (60 %) reveals preferences for α-helices or β-strands. Moreover, the analysis of the hydrophobic cluster amino acid composition generally allows for finer prediction of the regular secondary structure associated with the considered cluster within a cluster species. We also investigated the behavior of loop forming clusters, using a "PGDNS" alphabet. These loop clusters do not overlap with hydrophobic clusters and are highly associated with coils. Finally, the structural information contained in the hydrophobic structural words, as deduced from experimental structures, was compared to the PSI-PRED predictions, revealing that β-strands and especially α-helices are generally over-predicted within the limits of typical β and α hydrophobic clusters. Conclusion The dictionary of hydrophobic clusters described here can help the HCA user to interpret and compare the HCA plots of globular protein sequences, as well as provides an original fundamental insight into the structural bricks of protein folds. Moreover, the novel loop cluster analysis brings additional information for secondary structure prediction on the whole sequence through a generalized cluster analysis (GCA), and not only on regular secondary structures. Such information lays the foundations for developing a new and original tool for secondary structure prediction. PMID:17210072

Pressurized thermal shock: TEMPEST computer code simulation of thermal mixing in the cold leg and downcomer of a pressurized water reactor. [Creare 61 and 64

DOE Office of Scientific and Technical Information (OSTI.GOV)

Eyler, L.L.; Trent, D.S.

The TEMPEST computer program was used to simulate fluid and thermal mixing in the cold leg and downcomer of a pressurized water reactor under emergency core cooling high-pressure injection (HPI), which is of concern to the pressurized thermal shock (PTS) problem. Application of the code was made in performing an analysis simulation of a full-scale Westinghouse three-loop plant design cold leg and downcomer. Verification/assessment of the code was performed and analysis procedures developed using data from Creare 1/5-scale experimental tests. Results of three simulations are presented. The first is a no-loop-flow case with high-velocity, low-negative-buoyancy HPI in a 1/5-scale modelmore » of a cold leg and downcomer. The second is a no-loop-flow case with low-velocity, high-negative density (modeled with salt water) injection in a 1/5-scale model. Comparison of TEMPEST code predictions with experimental data for these two cases show good agreement. The third simulation is a three-dimensional model of one loop of a full size Westinghouse three-loop plant design. Included in this latter simulation are loop components extending from the steam generator to the reactor vessel and a one-third sector of the vessel downcomer and lower plenum. No data were available for this case. For the Westinghouse plant simulation, thermally coupled conduction heat transfer in structural materials is included. The cold leg pipe and fluid mixing volumes of the primary pump, the stillwell, and the riser to the steam generator are included in the model. In the reactor vessel, the thermal shield, pressure vessel cladding, and pressure vessel wall are thermally coupled to the fluid and thermal mixing in the downcomer. The inlet plenum mixing volume is included in the model. A 10-min (real time) transient beginning at the initiation of HPI is computed to determine temperatures at the beltline of the pressure vessel wall.« less

A Parallel Vector Machine for the PM Programming Language

NASA Astrophysics Data System (ADS)

Bellerby, Tim

2016-04-01

PM is a new programming language which aims to make the writing of computational geoscience models on parallel hardware accessible to scientists who are not themselves expert parallel programmers. It is based around the concept of communicating operators: language constructs that enable variables local to a single invocation of a parallelised loop to be viewed as if they were arrays spanning the entire loop domain. This mechanism enables different loop invocations (which may or may not be executing on different processors) to exchange information in a manner that extends the successful Communicating Sequential Processes idiom from single messages to collective communication. Communicating operators avoid the additional synchronisation mechanisms, such as atomic variables, required when programming using the Partitioned Global Address Space (PGAS) paradigm. Using a single loop invocation as the fundamental unit of concurrency enables PM to uniformly represent different levels of parallelism from vector operations through shared memory systems to distributed grids. This paper describes an implementation of PM based on a vectorised virtual machine. On a single processor node, concurrent operations are implemented using masked vector operations. Virtual machine instructions operate on vectors of values and may be unmasked, masked using a Boolean field, or masked using an array of active vector cell locations. Conditional structures (such as if-then-else or while statement implementations) calculate and apply masks to the operations they control. A shift in mask representation from Boolean to location-list occurs when active locations become sufficiently sparse. Parallel loops unfold data structures (or vectors of data structures for nested loops) into vectors of values that may additionally be distributed over multiple computational nodes and then split into micro-threads compatible with the size of the local cache. Inter-node communication is accomplished using standard OpenMP and MPI. Performance analyses of the PM vector machine, demonstrating its scaling properties with respect to domain size and the number of processor nodes will be presented for a range of hardware configurations. The PM software and language definition are being made available under unrestrictive MIT and Creative Commons Attribution licenses respectively: www.pm-lang.org.

Fundamental Structure of Loop Quantum Gravity

NASA Astrophysics Data System (ADS)

Han, Muxin; Ma, Yongge; Huang, Weiming

In the recent twenty years, loop quantum gravity, a background independent approach to unify general relativity and quantum mechanics, has been widely investigated. The aim of loop quantum gravity is to construct a mathematically rigorous, background independent, non-perturbative quantum theory for a Lorentzian gravitational field on a four-dimensional manifold. In the approach, the principles of quantum mechanics are combined with those of general relativity naturally. Such a combination provides us a picture of, so-called, quantum Riemannian geometry, which is discrete on the fundamental scale. Imposing the quantum constraints in analogy from the classical ones, the quantum dynamics of gravity is being studied as one of the most important issues in loop quantum gravity. On the other hand, the semi-classical analysis is being carried out to test the classical limit of the quantum theory. In this review, the fundamental structure of loop quantum gravity is presented pedagogically. Our main aim is to help non-experts to understand the motivations, basic structures, as well as general results. It may also be beneficial to practitioners to gain insights from different perspectives on the theory. We will focus on the theoretical framework itself, rather than its applications, and do our best to write it in modern and precise langauge while keeping the presentation accessible for beginners. After reviewing the classical connection dynamical formalism of general relativity, as a foundation, the construction of the kinematical Ashtekar-Isham-Lewandowski representation is introduced in the content of quantum kinematics. The algebraic structure of quantum kinematics is also discussed. In the content of quantum dynamics, we mainly introduce the construction of a Hamiltonian constraint operator and the master constraint project. At last, some applications and recent advances are outlined. It should be noted that this strategy of quantizing gravity can also be extended to obtain other background-independent quantum gauge theories. There is no divergence within this background-independent and diffeomorphism-invariant quantization program of matter coupled to gravity.

Package-X 2.0: A Mathematica package for the analytic calculation of one-loop integrals

NASA Astrophysics Data System (ADS)

Patel, Hiren H.

2017-09-01

This article summarizes new features and enhancements of the first major update of Package-X. Package-X 2.0 can now generate analytic expressions for arbitrarily high rank dimensionally regulated tensor integrals with up to four distinct propagators, each with arbitrary integer weight, near an arbitrary even number of spacetime dimensions, giving UV divergent, IR divergent, and finite parts at (almost) any real-valued kinematic point. Additionally, it can generate multivariable Taylor series expansions of these integrals around any non-singular kinematic point to arbitrary order. All special functions and abbreviations output by Package-X 2.0 support Mathematica's arbitrary precision evaluation capabilities to deal with issues of numerical stability. Finally, tensor algebraic routines of Package-X have been polished and extended to support open fermion chains both on and off shell. The documentation (equivalent to over 100 printed pages) is accessed through Mathematica's Wolfram Documentation Center and contains information on all Package-X symbols, with over 300 basic usage examples, 3 project-scale tutorials, and instructions on linking to FEYNCALC and LOOPTOOLS. Program files doi:http://dx.doi.org/10.17632/yfkwrd4d5t.1 Licensing provisions: CC by 4.0 Programming language: Mathematica (Wolfram Language) Journal reference of previous version: H. H. Patel, Comput. Phys. Commun 197, 276 (2015) Does the new version supersede the previous version?: Yes Summary of revisions: Extension to four point one-loop integrals with higher powers of denominator factors, separate extraction of UV and IR divergent parts, testing for power IR divergences, construction of Taylor series expansions of one-loop integrals, numerical evaluation with arbitrary precision arithmetic, manipulation of fermion chains, improved tensor algebraic routines, and much expanded documentation. Nature of problem: Analytic calculation of one-loop integrals in relativistic quantum field theory. Solution method: Passarino-Veltman reduction formula, Denner-Dittmaier reduction formulae, and additional algorithms described in the manuscript. Restrictions: One-loop integrals are limited to those involving no more than four denominator factors.

Selectivity filters and cysteine-rich extracellular loops in voltage-gated sodium, calcium, and NALCN channels

PubMed Central

Stephens, Robert F.; Guan, W.; Zhorov, Boris S.; Spafford, J. David

2015-01-01

How nature discriminates sodium from calcium ions in eukaryotic channels has been difficult to resolve because they contain four homologous, but markedly different repeat domains. We glean clues from analyzing the changing pore region in sodium, calcium and NALCN channels, from single-cell eukaryotes to mammals. Alternative splicing in invertebrate homologs provides insights into different structural features underlying calcium and sodium selectivity. NALCN generates alternative ion selectivity with splicing that changes the high field strength (HFS) site at the narrowest level of the hourglass shaped pore where the selectivity filter is located. Alternative splicing creates NALCN isoforms, in which the HFS site has a ring of glutamates contributed by all four repeat domains (EEEE), or three glutamates and a lysine residue in the third (EEKE) or second (EKEE) position. Alternative splicing provides sodium and/or calcium selectivity in T-type channels with extracellular loops between S5 and P-helices (S5P) of different lengths that contain three or five cysteines. All eukaryotic channels have a set of eight core cysteines in extracellular regions, but the T-type channels have an infusion of 4–12 extra cysteines in extracellular regions. The pattern of conservation suggests a possible pairing of long loops in Domains I and III, which are bridged with core cysteines in NALCN, Cav, and Nav channels, and pairing of shorter loops in Domains II and IV in T-type channel through disulfide bonds involving T-type specific cysteines. Extracellular turrets of increasing lengths in potassium channels (Kir2.2, hERG, and K2P1) contribute to a changing landscape above the pore selectivity filter that can limit drug access and serve as an ion pre-filter before ions reach the pore selectivity filter below. Pairing of extended loops likely contributes to the large extracellular appendage as seen in single particle electron cryo-microscopy images of the eel Nav1 channel. PMID:26042044

Analysis of frequency noise properties of 729nm extended cavity diode laser with unbalanced Mach-Zehnder interferometer

NASA Astrophysics Data System (ADS)

Pham, Tuan M.; Čížek, Martin; Hucl, Václav; Lazar, Josef; Hrabina, Jan; Řeřucha, Šimon; Lešundák, Adam; Obšil, Petr; Filip, Radim; Slodička, Lukáš; Číp, Ondřej

2016-12-01

We report on the frequency noise investigation of a linewidth-suppressed Extended Cavity Diode Laser (ECDL), working at 729 nm. Since the ECDL is intended as an excitation laser for the forbidden transition in a trapped and laser cooled 40Ca+ ion, an Hz-level linewidth is required. We present the experimental design that comprises a two-stage linewidth narrowing and a facility for frequency and noise analysis. The linewidth is first narrowed with a phase lock loop of the ECDL onto a selected component of an optical frequency comb where the frequency noise was suppressed with a fast electronic servo-loop controller that drives the laser injection current with a high bandwidth. The second stage comprises locking the laser onto a selected mode of a high-finesse passive optical cavity. The frequency analysis used an unbalanced Mach-Zehnder interferometer with a fiber spool inserted in the reference arm in order to give a general insight into the signal properties by mixing two separated beams, one of them delayed by the spool, and processing it with a spectral analyzer. Such a frequency noise analysis reveals what are the most significant noises contributions to the laser linewidth, which is a crucial information in field of ion trapping and cooling. The presented experimental results show the effect of the linewidth narrowing with the first stage, where the linewidth of ECDL was narrowed down to a kHz level.

T-Duality in an H-Flux: Exchange of Momentum and Winding

NASA Astrophysics Data System (ADS)

Han, Fei; Mathai, Varghese

2018-02-01

Using our earlier proposal for Ramond-Ramond fields in an H-flux on loop space (Han et al. in Commun Math Phys 337(1):127-150, 2015. arXiv:1405.1320), we extend the Hori isomorphism in Bouwknegt et al. (Commun Math Phys 249:383-415, 2004. arXiv:hep-th/0306062; Phys Rev Lett 92:181601, 2004. arXiv:hep-th/0312052) from invariant differential forms, to invariant exotic differential forms such that the momentum and winding numbers are exchanged, filling in a gap in the literature. We also extend the compatibility of the action of invariant exact Courant algebroids on the T-duality isomorphism in Cavalcanti and Gualtieri (in: CRM proceedings of lecture notes, vol 50, pp 341-365, American Mathematical Society, Providence, 2010 ), to the T-duality isomorphism on exotic invariant differential forms.

Extension of D-H parameter method to hybrid manipulators used in robot-assisted surgery.

PubMed

Singh, Amanpreet; Singla, Ashish; Soni, Sanjeev

2015-10-01

The main focus of this work is to extend the applicability of D-H parameter method to develop a kinematic model of a hybrid manipulator. A hybrid manipulator is a combination of open- and closed-loop chains and contains planar and spatial links. It has been found in the literature that D-H parameter method leads to ambiguities, when dealing with closed-loop chains. In this work, it has been observed that the D-H parameter method, when applied to a hybrid manipulator, results in an orientational inconsistency, because of which the method cannot be used to develop the kinematic model. In this article, the concept of dummy frames is proposed to resolve the orientational inconsistency and to develop the kinematic model of a hybrid manipulator. Moreover, the prototype of 7-degree-of-freedom hybrid manipulator, known as a surgeon-side manipulator to assist the surgeon during a medical surgery, is also developed to validate the kinematic model derived in this work. © IMechE 2015.

Affine q-deformed symmetry and the classical Yang-Baxter σ-model

NASA Astrophysics Data System (ADS)

Delduc, F.; Kameyama, T.; Magro, M.; Vicedo, B.

2017-03-01

The Yang-Baxter σ-model is an integrable deformation of the principal chiral model on a Lie group G. The deformation breaks the G × G symmetry to U(1)rank( G) × G. It is known that there exist non-local conserved charges which, together with the unbroken U(1)rank( G) local charges, form a Poisson algebra [InlineMediaObject not available: see fulltext.], which is the semiclassical limit of the quantum group {U}_q(g) , with g the Lie algebra of G. For a general Lie group G with rank( G) > 1, we extend the previous result by constructing local and non-local conserved charges satisfying all the defining relations of the infinite-dimensional Poisson algebra [InlineMediaObject not available: see fulltext.], the classical analogue of the quantum loop algebra {U}_q(Lg) , where Lg is the loop algebra of g. Quite unexpectedly, these defining relations are proved without encountering any ambiguity related to the non-ultralocality of this integrable σ-model.

Three-Point Functions in c≤1 Liouville Theory and Conformal Loop Ensembles.

PubMed

Ikhlef, Yacine; Jacobsen, Jesper Lykke; Saleur, Hubert

2016-04-01

The possibility of extending the Liouville conformal field theory from values of the central charge c≥25 to c≤1 has been debated for many years in condensed matter physics as well as in string theory. It was only recently proven that such an extension-involving a real spectrum of critical exponents as well as an analytic continuation of the Dorn-Otto-Zamolodchikov-Zamolodchikov formula for three-point couplings-does give rise to a consistent theory. We show in this Letter that this theory can be interpreted in terms of microscopic loop models. We introduce in particular a family of geometrical operators, and, using an efficient algorithm to compute three-point functions from the lattice, we show that their operator algebra corresponds exactly to that of vertex operators V_{α[over ^]} in c≤1 Liouville theory. We interpret geometrically the limit α[over ^]→0 of V_{α[over ^]} and explain why it is not the identity operator (despite having conformal weight Δ=0).

Methane- and dissolved organic carbon-fueled microbial loop supports a tropical subterranean estuary ecosystem

USGS Publications Warehouse

Brankovits, D.; Pohlman, John; Niemann, H.; Leigh, M.B.; Leewis, M.C.; Becker, K. W.; Iliffe, T.M.; Alvarez. F.,; Lehmann, M.F.; Phillips, B.

2017-01-01

Subterranean estuaries extend inland into density-stratified coastal carbonate aquifers containing a surprising diversity of endemic animals (mostly crustaceans) within a highly oligotrophic habitat. How complex ecosystems (termed anchialine) thrive in this globally distributed, cryptic environment is poorly understood. Here, we demonstrate that a microbial loop shuttles methane and dissolved organic carbon (DOC) to higher trophic levels of the anchialine food web in the Yucatan Peninsula (Mexico). Methane and DOC production and consumption within the coastal groundwater correspond with a microbial community capable of methanotrophy, heterotrophy, and chemoautotrophy, based on characterization by 16S rRNA gene amplicon sequencing and respiratory quinone composition. Fatty acid and bulk stable carbon isotope values of cave-adapted shrimp suggest that carbon from methanotrophic bacteria comprises 21% of their diet, on average. These findings reveal a heretofore unrecognized subterranean methane sink and contribute to our understanding of the carbon cycle and ecosystem function of karst subterranean estuaries.

The Stability Region for Feedback Control of the Wake Behind Twin Oscillating Cylinders

NASA Astrophysics Data System (ADS)

Borggaard, Jeff; Gugercin, Serkan; Zietsman, Lizette

2016-11-01

Linear feedback control has the ability to stabilize vortex shedding behind twin cylinders where cylinder rotation is the actuation mechanism. Complete elimination of the wake is only possible for certain Reynolds numbers and cylinder spacing. This is related to the presence of asymmetric unstable modes in the linearized system. We investigate this region of parameter space using a number of closed-loop simulations that bound this region. We then consider the practical issue of designing feedback controls based on limited state measurements by building a nonlinear compensator using linear robust control theory with and incorporating the nonlinear terms in the compensator (e.g., using the extended Kalman filter). Interpolatory model reduction methods are applied to the large discretized, linearized Navier-Stokes system and used for computing the control laws and compensators. Preliminary closed-loop simulations of a three-dimensional version of this problem will also be presented. Supported in part by the National Science Foundation.

Architecting a Simulation Framework for Model Rehosting

NASA Technical Reports Server (NTRS)

Madden, Michael M.

2004-01-01

The utility of vehicle math models extends beyond human-in-the-loop simulation. It is desirable to deploy a given model across a multitude of applications that target design, analysis, and research. However, the vehicle model alone represents an incomplete simulation. One must also replicate the environment models (e.g., atmosphere, gravity, terrain) to achieve identical vehicle behavior across all applications. Environment models are increasing in complexity and represent a substantial investment to re-engineer for a new application. A software component that can be rehosted in each application is one solution to the deployment problem. The component must encapsulate both the vehicle and environment models. The component must have a well-defined interface that abstracts the bulk of the logic to operate the models. This paper examines the characteristics of a rehostable modeling component from the perspective of a human-in-the-loop simulation framework. The Langley Standard Real-Time Simulation in C++ (LaSRS++) is used as an example. LaSRS++ was recently redesigned to transform its modeling package into a rehostable component.

Dirac node arcs in PtSn 4

DOE PAGES

Wu, Yun; Wang, Lin -Lin; Mun, Eundeok; ...

2016-04-04

In topological quantum materials 1,2,3 the conduction and valence bands are connected at points or along lines in the momentum space. A number of studies have demonstrated that several materials are indeed Dirac/Weyl semimetals 4,5,6,7,8. However, there is still no experimental confirmation of materials with line nodes, in which the Dirac nodes form closed loops in the momentum space 2,3. Here we report the discovery of a novel topological structure—Dirac node arcs—in the ultrahigh magnetoresistive material PtSn 4 using laser-based angle-resolved photoemission spectroscopy data and density functional theory calculations. Unlike the closed loops of line nodes, the Dirac node arcmore » structure arises owing to the surface states and resembles the Dirac dispersion in graphene that is extended along a short line in the momentum space. Here, we propose that this reported Dirac node arc structure is a novel topological state that provides an exciting platform for studying the exotic properties of Dirac fermions.« less

Soft sensor based composition estimation and controller design for an ideal reactive distillation column.

PubMed

Vijaya Raghavan, S R; Radhakrishnan, T K; Srinivasan, K

2011-01-01

In this research work, the authors have presented the design and implementation of a recurrent neural network (RNN) based inferential state estimation scheme for an ideal reactive distillation column. Decentralized PI controllers are designed and implemented. The reactive distillation process is controlled by controlling the composition which has been estimated from the available temperature measurements using a type of RNN called Time Delayed Neural Network (TDNN). The performance of the RNN based state estimation scheme under both open loop and closed loop have been compared with a standard Extended Kalman filter (EKF) and a Feed forward Neural Network (FNN). The online training/correction has been done for both RNN and FNN schemes for every ten minutes whenever new un-trained measurements are available from a conventional composition analyzer. The performance of RNN shows better state estimation capability as compared to other state estimation schemes in terms of qualitative and quantitative performance indices. Copyright © 2010 ISA. Published by Elsevier Ltd. All rights reserved.

Determining the solar-flare photospheric scale height from SMM gamma-ray measurements

NASA Technical Reports Server (NTRS)

Lingenfelter, Richard E.

1991-01-01

A connected series of Monte Carlo programs was developed to make systematic calculations of the energy, temporal and angular dependences of the gamma-ray line and neutron emission resulting from such accelerated ion interactions. Comparing the results of these calculations with the Solar Maximum Mission/Gamma Ray Spectrometer (SMM/GRS) measurements of gamma-ray line and neutron fluxes, the total number and energy spectrum of the flare-accelerated ions trapped on magnetic loops at the Sun were determined and the angular distribution, pitch angle scattering, and mirroring of the ions on loop fields were constrained. Comparing the calculations with measurements of the time dependence of the neutron capture line emission, a determination of the He-3/H ratio in the photosphere was also made. The diagnostic capabilities of the SMM/GRS measurements were extended by developing a new technique to directly determine the effective photospheric scale height in solar flares from the neutron capture gamma-ray line measurements, and critically test current atmospheric models in the flare region.

Irradiation effects in UO2 and CeO2

NASA Astrophysics Data System (ADS)

Ye, Bei; Oaks, Aaron; Kirk, Mark; Yun, Di; Chen, Wei-Ying; Holtzman, Benjamin; Stubbins, James F.

2013-10-01

Single crystal CeO2, as a surrogate material to UO2, was irradiated with 500 keV xenon ions at 800 °C while being observed using in situ transmission electron microscopy (TEM). Experimental results show the formation and growth of defect clusters including dislocation loops and cavities as a function of increasing atomic displacement dose. At high dose, the dislocation loop structure evolves into an extended dislocation line structure, which appears to remain stable to the high dose levels examined in this study. A high concentration of cavities was also present in the microstructure. Despite high atomic displacement doses, the specimen remained crystalline to a cumulated dose of 5 × 1015 ions/cm2, which is consistent with the known stability of the fluorite structure under high dose irradiation. Kinetic Monte Carlo calculations show that oxygen mobility is substantially higher in hypo-stoichiometric UO2/CeO2 than hyper-stoichiometric systems. This result is consistent with the ability of irradiation damage to recover even at intermediate irradiation temperatures.

Remote sensing of ocean currents. [Loop Current in Gulf of Mexico

NASA Technical Reports Server (NTRS)

Maul, G. A. (Principal Investigator)

1974-01-01

The author has identified the following significant results. A time series of the Loop Current in the Gulf of Mexico, covering an annual cycle of growth, spreading, and decay, has been obtained in synchronization with ERTS-1. Computer enhanced images, which are necessary to extract useful oceanic information, show that the current can be observed either by color or sea state effects associated with the cyclonic boundary. The color effect relates to the spectral variations in the optical properties of the water and its suspended particles, and is studied by radiative transfer theory. Significant oceanic parameters identified are: the probability of forward scattering, and the ratio of scattering to total attenuation. Several spectra of upwelling diffuse light are computed as a function of the concentration of particles and yellow substance. These calculations compare favorably with experimental measurements and show that the ratio of channels method gives ambiguous interpretative results. These results are used to discuss features in images where surface measurements were obtained and are extended to tentative explanation in others.

SOFT X-RAY SPECTROSCOPY OF THE CYGNUS LOOP SUPERNOVA REMNANT

DOE Office of Scientific and Technical Information (OSTI.GOV)

Oakley, Phil; McEntaffer, Randall; Cash, Webster, E-mail: Oakley@mit.edu

2013-03-20

We present the results of a suborbital rocket flight whose scientific target was the Cygnus Loop Supernova Remnant. The payload consists of wire grid collimators, off-plane grating arrays, and gaseous electron multiplier (GEM) detectors. The system is designed for spectral measurements in the 17-107 A bandpass with a resolution up to {approx}60 ({lambda}/{Delta}{lambda}). The Extended X-ray Off-plane Spectrometer (EXOS) was launched on a Terrier-Black Brant rocket on 2009 November 13 from White Sands Missile Range and obtained 340 s of useable scientific data. The X-ray emission is dominated by O VII and O VIII, including the He-like O VII tripletmore » at {approx}22 A. Another emission feature at {approx}45 A is composed primarily of Si XI and Si XII. The best-fit model to this spectrum is an equilibrium plasma model at a temperature of log(T) = 6.4 (0.23 keV).« less

Confined Electroconvective and Flexoelectric Instabilities Deep in the Freedericksz State of Nematic CB7CB.

PubMed

Krishnamurthy, Kanakapura S; Palakurthy, Nani Babu; Yelamaggad, Channabasaveshwar V

2017-06-01

We report wormlike flexoelectric structures evolving deep in the Freedericksz state of a nematic layer of the liquid crystal cyanobiphenyl-(CH2) 7 -cyanobiphenyl. They form in the predominantly splay-bend thin boundary layers and are built up of solitary flexoelectric domains of the Bobylev-Pikin type. Their formation is possibly triggered by the gradient flexoelectric surface instability that remains optically discernible up to unusually high frequencies. The threshold voltage at which the worms form scales as square root of the frequency; in their extended state, worms often appear as labyrinthine structures on a section of loops that separate regions of opposite director deviation. Such asymmetric loops are also derived through pincement-like dissociation of ring-shaped walls. Formation of isolated domains of bulk electroconvection precedes the onset of surface instabilities. In essence, far above the Freedericksz threshold, the twisted nematic layer behaves as a combination of two orthogonally oriented planar half-layers destabilized by localized flexoelectric distortion.

Performance of the dark energy camera liquid nitrogen cooling system

NASA Astrophysics Data System (ADS)

Cease, H.; Alvarez, M.; Alvarez, R.; Bonati, M.; Derylo, G.; Estrada, J.; Flaugher, B.; Flores, R.; Lathrop, A.; Munoz, F.; Schmidt, R.; Schmitt, R. L.; Schultz, K.; Kuhlmann, S.; Zhao, A.

2014-01-01

The Dark Energy Camera, the Imager and its cooling system was installed onto the Blanco 4m telescope at the Cerro Tololo Inter-American Observatory in Chile in September 2012. The imager cooling system is a LN2 two-phase closed loop cryogenic cooling system. The cryogenic circulation processing is located off the telescope. Liquid nitrogen vacuum jacketed transfer lines are run up the outside of the telescope truss tubes to the imager inside the prime focus cage. The design of the cooling system along with commissioning experiences and initial cooling system performance is described. The LN2 cooling system with the DES imager was initially operated at Fermilab for testing, then shipped and tested in the Blanco Coudé room. Now the imager is operating inside the prime focus cage. It is shown that the cooling performance sufficiently cools the imager in a closed loop mode, which can operate for extended time periods without maintenance or LN2 fills.

Backbone dynamics of the antifungal Psd1 pea defensin and its correlation with membrane interaction by NMR spectroscopy.

PubMed

de Medeiros, Luciano Neves; Angeli, Renata; Sarzedas, Carolina G; Barreto-Bergter, Eliana; Valente, Ana Paula; Kurtenbach, Eleonora; Almeida, Fabio C L

2010-02-01

Plant defensins are cysteine-rich cationic peptides, components of the innate immune system. The antifungal sensitivity of certain exemplars was correlated to the level of complex glycosphingolipids in the membrane of fungi strains. Psd1 is a 46 amino acid residue defensin isolated from pea seeds which exhibit antifungal activity. Its structure is characterized by the so-called cysteine-stabilized alpha/beta motif linked by three loops as determined by two-dimensional NMR. In the present work we explored the measurement of heteronuclear Nuclear Overhauser Effects, R1 and R2 (15)N relaxation ratios, and chemical shift to probe the backbone dynamics of Psd1 and its interaction with membrane mimetic systems with phosphatidylcholine (PC) or dodecylphosphocholine (DPC) with glucosylceramide (CMH) isolated from Fusarium solani. The calculated R2 values predicted a slow motion around the highly conserved among Gly12 residue and also in the region of the Turn3 His36-Trp38. The results showed that Psd1 interacts with vesicles of PC or PC:CMH in slightly different forms. The interaction was monitored by chemical shift perturbation and relaxation properties. Using this approach we could map the loops as the binding site of Psd1 with the membrane. The major binding epitope showed conformation exchange properties in the mus-ms timescale supporting the conformation selection as the binding mechanism. Moreover, the peptide corresponding to part of Loop1 (pepLoop1: Gly12 to Ser19) is also able to interact with DPC micelles acquiring a stable structure and in the presence of DPC:CMH the peptide changes to an extended conformation, exhibiting NOE mainly with the carbohydrate and ceramide parts of CMH. Copyright 2009 Elsevier B.V. All rights reserved.

Structure and dynamics of coronal plasmas

NASA Technical Reports Server (NTRS)

Golub, Leon

1995-01-01

The Normal Incidence X-ray Telescope (NIXT) obtained a unique set of high resolution full disk solar images which were exposed simultaneously by X-rays in a passband at 63.5 A and by visible light. The perfect alignment of a photospheric visible light image with a coronal X-ray image enables us to present observations of X-ray intensity vs an accurately determined height above the visible limb. The height at which the observed X-ray intensity peak varies from 4000 km in active regions to 9000 km in quiet regions of the sun. The interpretation of the observations stems from the previously established fact that, for the coronal loops, emission in the NIXT bandpass peaks sharply just above the footpoints. Because there is not a sharp peak in the observed X-ray intensity vs off limb height, we conclude that the loop footpoints, when viewed at the limb, are obscured by absorption in chromospheric material along the line of sight. We calculate the X-ray intensity vs height predicted by a number of different idealizations of the solar atmosphere, and we compare these calculations with the observed X-ray intensity vs height. The calculations use existing coronal and chromospheric models. In order for the calculations to reproduce the observed off limb X-ray intensities, we are forced to assume an atmosphere in which the footpoints of coronal loops are interspersed along the line of sight with cooler chromospheric material extending to heights well above the loop footpoints. We argue that the absorption coefficient for NIXT X-rays by chromospheric material is roughly proportional to the neutral hydrogen density, and we estimate an average neutral hydrogen density and scale height implied by the data.

Rational Modulation of the Induced-Fit Conformational Change for Slow-Onset Inhibition in Mycobacterium tuberculosis InhA.

PubMed

Lai, Cheng-Tsung; Li, Huei-Jiun; Yu, Weixuan; Shah, Sonam; Bommineni, Gopal R; Perrone, Victoria; Garcia-Diaz, Miguel; Tonge, Peter J; Simmerling, Carlos

2015-08-04

Slow-onset enzyme inhibitors are the subject of considerable interest as an approach to increasing the potency of pharmaceutical compounds by extending the residence time of the inhibitor on the target (the lifetime of the drug-receptor complex). However, rational modulation of residence time presents significant challenges because it requires additional mechanistic insight, such as the nature of the transition state for postbinding isomerization. Our previous work, based on X-ray crystallography, enzyme kinetics, and molecular dynamics simulation, suggested that the slow step in inhibition of the Mycobacterium tuberculosis enoyl-ACP reductase InhA involves a change in the conformation of the substrate binding loop from an open state in the initial enzyme-inhibitor complex to a closed state in the final enzyme-inhibitor complex. Here, we use multidimensional free energy landscapes for loop isomerization to obtain a computational model for the transition state. The results suggest that slow-onset inhibitors crowd key side chains on helices that slide past each other during isomerization, resulting in a steric clash. The landscapes become significantly flatter when residues involved in the steric clash are replaced with alanine. Importantly, this lower barrier can be increased by rational inhibitor redesign to restore the steric clash. Crystallographic studies and enzyme kinetics confirm the predicted effects on loop structure and flexibility, as well as inhibitor residence time. These loss and regain of function studies validate our mechanistic hypothesis for interactions controlling substrate binding loop isomerization, providing a platform for the future design of inhibitors with longer residence times and better in vivo potency. Similar opportunities for slow-onset inhibition via the same mechanism are identified in other pathogens.

Charge and Geometry of Residues in the Loop 2 β Hairpin Differentially Affect Agonist and Ethanol Sensitivity in Glycine Receptors

PubMed Central

Perkins, Daya I.; Trudell, James R.; Asatryan, Liana; Alkana, Ronald L.

2012-01-01

Recent studies highlighted the importance of loop 2 of α1 glycine receptors (GlyRs) in the propagation of ligand-binding energy to the channel gate. Mutations that changed polarity at position 52 in the β hairpin of loop 2 significantly affected sensitivity to ethanol. The present study extends the investigation to charged residues. We found that substituting alanine with the negative glutamate at position 52 (A52E) significantly left-shifted the glycine concentration response curve and increased sensitivity to ethanol, whereas the negative aspartate substitution (A52D) significantly right-shifted the glycine EC50 but did not affect ethanol sensitivity. It is noteworthy that the uncharged glutamine at position 52 (A52Q) caused only a small right shift of the glycine EC50 while increasing ethanol sensitivity as much as A52E. In contrast, the shorter uncharged asparagine (A52N) caused the greatest right shift of glycine EC50 and reduced ethanol sensitivity to half of wild type. Collectively, these findings suggest that charge interactions determined by the specific geometry of the amino acid at position 52 (e.g., the 1-Å chain length difference between aspartate and glutamate) play differential roles in receptor sensitivity to agonist and ethanol. We interpret these results in terms of a new homology model of GlyR based on a prokaryotic ion channel and propose that these mutations form salt bridges to residues across the β hairpin (A52E-R59 and A52N-D57). We hypothesize that these electrostatic interactions distort loop 2, thereby changing agonist activation and ethanol modulation. This knowledge will help to define the key physical-chemical parameters that cause the actions of ethanol in GlyRs. PMID:22357974

Application of phase matching autofocus in airborne long-range oblique photography camera

NASA Astrophysics Data System (ADS)

Petrushevsky, Vladimir; Guberman, Asaf

2014-06-01

The Condor2 long-range oblique photography (LOROP) camera is mounted in an aerodynamically shaped pod carried by a fast jet aircraft. Large aperture, dual-band (EO/MWIR) camera is equipped with TDI focal plane arrays and provides high-resolution imagery of extended areas at long stand-off ranges, at day and night. Front Ritchey-Chretien optics is made of highly stable materials. However, the camera temperature varies considerably in flight conditions. Moreover, a composite-material structure of the reflective objective undergoes gradual dehumidification in dry nitrogen atmosphere inside the pod, causing some small decrease of the structure length. The temperature and humidity effects change a distance between the mirrors by just a few microns. The distance change is small but nevertheless it alters the camera's infinity focus setpoint significantly, especially in the EO band. To realize the optics' resolution potential, the optimal focus shall be constantly maintained. In-flight best focus calibration and temperature-based open-loop focus control give mostly satisfactory performance. To get even better focusing precision, a closed-loop phase-matching autofocus method was developed for the camera. The method makes use of an existing beamsharer prism FPA arrangement where aperture partition exists inherently in an area of overlap between the adjacent detectors. The defocus is proportional to an image phase shift in the area of overlap. Low-pass filtering of raw defocus estimate reduces random errors related to variable scene content. Closed-loop control converges robustly to precise focus position. The algorithm uses the temperature- and range-based focus prediction as an initial guess for the closed-loop phase-matching control. The autofocus algorithm achieves excellent results and works robustly in various conditions of scene illumination and contrast.

Time-dependent mass of cosmological perturbations in the hybrid and dressed metric approaches to loop quantum cosmology

NASA Astrophysics Data System (ADS)

Elizaga Navascués, Beatriz; Martín de Blas, Daniel; Mena Marugán, Guillermo A.

2018-02-01

Loop quantum cosmology has recently been applied in order to extend the analysis of primordial perturbations to the Planck era and discuss the possible effects of quantum geometry on the cosmic microwave background. Two approaches to loop quantum cosmology with admissible ultraviolet behavior leading to predictions that are compatible with observations are the so-called hybrid and dressed metric approaches. In spite of their similarities and relations, we show in this work that the effective equations that they provide for the evolution of the tensor and scalar perturbations are somewhat different. When backreaction is neglected, the discrepancy appears only in the time-dependent mass term of the corresponding field equations. We explain the origin of this difference, arising from the distinct quantization procedures. Besides, given the privileged role that the big bounce plays in loop quantum cosmology, e.g. as a natural instant of time to set initial conditions for the perturbations, we also analyze the positivity of the time-dependent mass when this bounce occurs. We prove that the mass of the tensor perturbations is positive in the hybrid approach when the kinetic contribution to the energy density of the inflaton dominates over its potential, as well as for a considerably large sector of backgrounds around that situation, while this mass is always nonpositive in the dressed metric approach. Similar results are demonstrated for the scalar perturbations in a sector of background solutions that includes the kinetically dominated ones; namely, the mass then is positive for the hybrid approach, whereas it typically becomes negative in the dressed metric case. More precisely, this last statement is strictly valid when the potential is quadratic for values of the inflaton mass that are phenomenologically favored.

Breaking a habit: a further role of the phonological loop in action control.

PubMed

Saeki, Erina; Baddeley, Alan D; Hitch, Graham J; Saito, Satoru

2013-10-01

Recent research has suggested that keeping track of a task goal in rapid task switching may depend on the phonological loop component of working memory. In this study, we investigated whether the phonological loop plays a similar role when a single switch extending over several trials is required after many trials on which one has performed a competing task. Participants were shown pairs of digits varying in numerical and physical size, and they were required to decide which digit was numerically or physically larger. An experimental cycle consisted of four blocks of 24 trials. In Experiment 1, participants in the task change groups performed the numerical-size judgment task during the first three blocks, and then changed to the physical-size judgment task in the fourth. Participants in the continuation groups performed only the physical-size judgment task throughout all four blocks. We found negative effects of articulatory suppression on the fourth block, but only in the task change groups. Experiment 2 was a replication, with the modification that both groups received identical instructions and practice. Experiment 3 was a further replication using numerical-size judgment as the target task. The results showed a pattern similar to that from Experiment 1, with negative effects of articulatory suppression found only in the task change group. The congruity of numerical and physical size had a reliable effect on performance in all three experiments, but unlike the task change, it did not reliably interact with articulatory suppression. The results suggest that in addition to its well-established role in rapid task switching, the phonological loop also contributes to active goal maintenance in longer-term action control.

The mechanics of trick roping

NASA Astrophysics Data System (ADS)

Brun, Pierre-Thomas

2014-03-01

Trick roping evolved from humble origins as a cattle-catching tool into a sport that delights audiences the world over with its complex patterns or ``tricks,'' such as the Merry-Go-Round , the Wedding-Ring, the Spoke-Jumping, the Texas Skip... Its implement is the lasso, a length of rope with a small loop (``honda'') at one end through which the other end is passed to form a large loop. Here, we study the physics of the simplest rope trick, the Flat Loop, in which the motion of the lasso is forced by a uniform circular motion of the cowboy's/cowgirl's hand in a horizontal plane. To avoid accumulating twist in the rope, the cowboy/cowgirl rolls it between his/her thumb and forefinger while spinning it. The configuration of the rope is stationary in a reference frame that rotates with the hand. Exploiting this fact we derive a dynamical ``string'' model in which line tension is balanced by the centrifugal force and the rope's weight. Using a numerical continuation method, we calculate the steady shapes of a lasso with a fixed honda, examine their stability, and determine a bifurcation diagram exhibiting coat-hanger shapes and whirling modes in addition to flat loops. We then extend the model to a honda with finite sliding friction by using matched asymptotic expansions to determine the structure of the boundary layer where bending forces are significant, thereby obtaining a macroscopic criterion for frictional sliding of the honda. We compare our theoretical results with high-speed videos of a professional trick roper and experiments performed using a laboratory ``robo-cowboy.'' Finally, we conclude with a practical guidance on how to spin a lasso in the air based on the results of our analysis. With the support of Univ. Paris Sud (Lab. FAST/CNRS) and UPMC (d'Alembert/CNRS).

Fluctuations and correlations of conserved charges in QCD at finite temperature with effective models

NASA Astrophysics Data System (ADS)

Fu, Wei-Jie; Liu, Yu-Xin; Wu, Yue-Liang

2010-01-01

We study fluctuations of conserved charges including baryon number, electric charge, and strangeness as well as the correlations among these conserved charges in the 2+1 flavor Polyakov-Nambu-Jona-Lasinio model at finite temperature. The calculated results are compared with those obtained from recent lattice calculations performed with an improved staggered fermion action at two values of the lattice cutoff with almost physical up and down quark masses and a physical value for the strange quark mass. We find that our calculated results are well consistent with those obtained in lattice calculations except for some quantitative differences for fluctuations related with strange quarks. Our calculations indicate that there is a pronounced cusp in the ratio of the quartic to quadratic fluctuations of baryon number, i.e. χ4B/χ2B, at the critical temperature during the phase transition, which confirms that χ4B/χ2B is a useful probe of the deconfinement and chiral phase transition.

Open string with a background B field as the first order mechanics, noncommutativity, and soldering formalism

DOE Office of Scientific and Technical Information (OSTI.GOV)

Deriglazov, A. A.; Neves, C.; Oliveira, W.

2007-09-15

To study noncommutativity properties of the open string with constant B field, we construct a mechanical action that reproduces classical dynamics of the string sector under consideration. It allows one to apply the Dirac quantization procedure for constrained systems in a direct and unambiguous way. The mechanical action turns out to be the first order system without taking the strong field limit B{yields}{infinity}. In particular, it is true for the zero mode of the string coordinate, which means that the noncommutativity is an intrinsic property of this mechanical system. We describe the arbitrariness in the relation existing between the mechanicalmore » and the string variables and show that noncommutativity of the string variables on the boundary can be removed. This is in correspondence with the result of Seiberg and Witten on the relation among noncommutative and ordinary Yang-Mills theories. The recently developed soldering formalism helps us to establish a connection between the original open string action and the Polyakov action.« less

High order field-to-field corrections for imaging and overlay to achieve sub 20-nm lithography requirements

NASA Astrophysics Data System (ADS)

Mulkens, Jan; Kubis, Michael; Hinnen, Paul; de Graaf, Roelof; van der Laan, Hans; Padiy, Alexander; Menchtchikov, Boris

2013-04-01

Immersion lithography is being extended to the 20-nm and 14-nm node and the lithography performance requirements need to be tightened further to enable this shrink. In this paper we present an integral method to enable high-order fieldto- field corrections for both imaging and overlay, and we show that this method improves the performance with 20% - 50%. The lithography architecture we build for these higher order corrections connects the dynamic scanner actuators with the angle resolved scatterometer via a separate application server. Improvements of CD uniformity are based on enabling the use of freeform intra-field dose actuator and field-to-field control of focus. The feedback control loop uses CD and focus targets placed on the production mask. For the overlay metrology we use small in-die diffraction based overlay targets. Improvements of overlay are based on using the high order intra-field correction actuators on a field-tofield basis. We use this to reduce the machine matching error, extending the heating control and extending the correction capability for process induced errors.

Tapping the Value Potential of Extended Asset Services - Experiences from Finnish Companies

NASA Astrophysics Data System (ADS)

Kortelainen, Helena; Hanski, Jyri; Valkokari, Pasi; Ahonen, Toni

2017-09-01

Recent developments in information technology and business models enable a wide variety of new services for companies looking for growth in services. Currently, manufacturing companies have been actively developing and providing novel asset based services such as condition monitoring and remote control. However, there is still untapped potential in extending the service delivery to the long-term co-operative development of physical assets over the whole lifecycle. Close collaboration with the end-customer and other stakeholders is needed in order to understand the value generation options. In this paper, we assess some of the asset services manufacturing companies are currently developing. The descriptions of the asset services are based on the results of an industrial workshop in which the companies presented their service development plans. The service propositions are compared with the Total Cost of Ownership and the closed loop life cycle frameworks. Based on the comparison, gaps that indicate potential for extended asset service concepts are recognised. In conclusion, we argue that the manufacturing companies do not recognise the whole potential for asset based services and for optimizing the performance of the end customers' processes.

Structure and thermodynamics of effector molecule binding to the nitrogen signal transduction PII protein GlnZ from Azospirillum brasilense.

PubMed

Truan, Daphné; Bjelić, Saša; Li, Xiao-Dan; Winkler, Fritz K

2014-07-29

The trimeric PII signal transduction proteins regulate the function of a variety of target proteins predominantly involved in nitrogen metabolism. ATP, ADP and 2-oxoglutarate (2-OG) are key effector molecules influencing PII binding to targets. Studies of PII proteins have established that the 20-residue T-loop plays a central role in effector sensing and target binding. However, the specific effects of effector binding on T-loop conformation have remained poorly documented. We present eight crystal structures of the Azospirillum brasilense PII protein GlnZ, six of which are cocrystallized and liganded with ADP or ATP. We find that interaction with the diphosphate moiety of bound ADP constrains the N-terminal part of the T-loop in a characteristic way that is maintained in ADP-promoted complexes with target proteins. In contrast, the interactions with the triphosphate moiety in ATP complexes are much more variable and no single predominant interaction mode is apparent except for the ternary MgATP/2-OG complex. These conclusions can be extended to most investigated PII proteins of the GlnB/GlnK subfamily. Unlike reported for other PII proteins, microcalorimetry reveals no cooperativity between the three binding sites of GlnZ trimers for any of the three effectors under carefully controlled experimental conditions. Copyright © 2014 Elsevier Ltd. All rights reserved.

Curvature and torsion in growing actin networks

NASA Astrophysics Data System (ADS)

Shaevitz, Joshua W.; Fletcher, Daniel A.

2008-06-01

Intracellular pathogens such as Listeria monocytogenes and Rickettsia rickettsii move within a host cell by polymerizing a comet-tail of actin fibers that ultimately pushes the cell forward. This dense network of cross-linked actin polymers typically exhibits a striking curvature that causes bacteria to move in gently looping paths. Theoretically, tail curvature has been linked to details of motility by considering force and torque balances from a finite number of polymerizing filaments. Here we track beads coated with a prokaryotic activator of actin polymerization in three dimensions to directly quantify the curvature and torsion of bead motility paths. We find that bead paths are more likely to have low rather than high curvature at any given time. Furthermore, path curvature changes very slowly in time, with an autocorrelation decay time of 200 s. Paths with a small radius of curvature, therefore, remain so for an extended period resulting in loops when confined to two dimensions. When allowed to explore a three-dimensional (3D) space, path loops are less evident. Finally, we quantify the torsion in the bead paths and show that beads do not exhibit a significant left- or right-handed bias to their motion in 3D. These results suggest that paths of actin-propelled objects may be attributed to slow changes in curvature, possibly associated with filament debranching, rather than a fixed torque.

Characterization of fine-grain piezoceramic stack actuators

NASA Astrophysics Data System (ADS)

Davis, Christopher L.; Morris, Donald G.; Calkins, Frederick T.

2001-07-01

Samples of fine grain piezoelectric ceramics (less than or equal to 1 micrometers ) exhibit increased mechanical strength and improved machinability over conventional materials, which should result in actuators which have increased reliability with fewer rejected parts. The focus of the work presented here is to compare the properties of several fine grain and conventional actuators provided by TRS Ceramics. Specimens are constructed of TRS200 (a PZT-5A or DOD Type II equivalent material) and TRS600 (a PZT-5H or DOD Type VI equivalent material). All of the actuators consist of ceramic wafers bonded together with electrodes between them to form a stack. Several actuator overall dimensions and two wafer thicknesses (250 micrometers and 500 micrometers ) are investigated as well as material which has been subjected to hot isopress. The two main figures of merit in the stack actuator comparisons are free strain and blocked stress. Strain and stress loops are measured under a variety of field levels, including negative fields up to the coercive limit (full butterfly loops were not performed). Also compared are values of energy density and hysteresis in the strain, stress and electric displacement vs. field loops. Stack longevity is addressed through duration tests in which stacks are used to drive representative mechanical impedance for an extended period. Results show that fine grain stacks completed 109 continuous actuation cycles with no sign of performance degradation.

Development of a 0.014-in., anti-solenoid loop MR imaging guidewire for intravascular 3.0-T MR imaging.

PubMed

Gu, Huidong; Zhang, Feng; Meng, Yanfeng; Qiu, Bensheng; Yang, Xiaoming

2011-09-01

This study aimed to develop a 0.014-in., anti-solenoid loop (ASL) magnetic resonance imaging guidewire (MRIG) for intravascular 3.0-T MR imaging. We first designed the ASL MRIG, which was made of a coaxial cable with its extended inner conductor and outer conductor connected to two micro-anti-solenoids. We then evaluated in vitro the functionality of the ASL MRIG by imaging a "vessel" in a phantom and achieving signal-to-noise ratio (SNR) and SNR contour map of the new 0.014-in. ASL MRIG. Subsequently, we validated in vivo the feasibility of using the ASL MRIG to generate intravenous 3.0-T MR images of parallel iliofemoral arteries of near-human-sized living pigs. In vitro evaluation showed that the 0.014-in. ASL MRIG functioned well as a receiver coil with the 3.0-T MR scanner, clearly displaying the vessel wall with even distribution of MR signals and SNR contours from the ASL MRIG. Of the in vivo studies, the new ASL MRIG enabled us to successfully generate intravenous 3.0-T MR imaging of the iliofemoral arteries. This study confirms that it is possible to build such small-looped MRIG at 0.014 in. for intravascular 3.0-T MR imaging. Copyright © 2011 Elsevier Inc. All rights reserved.

Structure of the myotonic dystrophy type 2 RNA and designed small molecules that reduce toxicity.

PubMed

Childs-Disney, Jessica L; Yildirim, Ilyas; Park, HaJeung; Lohman, Jeremy R; Guan, Lirui; Tran, Tuan; Sarkar, Partha; Schatz, George C; Disney, Matthew D

2014-02-21

Myotonic dystrophy type 2 (DM2) is an incurable neuromuscular disorder caused by a r(CCUG) expansion (r(CCUG)(exp)) that folds into an extended hairpin with periodically repeating 2×2 nucleotide internal loops (5'CCUG/3'GUCC). We designed multivalent compounds that improve DM2-associated defects using information about RNA-small molecule interactions. We also report the first crystal structure of r(CCUG) repeats refined to 2.35 Å. Structural analysis of the three 5'CCUG/3'GUCC repeat internal loops (L) reveals that the CU pairs in L1 are each stabilized by one hydrogen bond and a water-mediated hydrogen bond, while CU pairs in L2 and L3 are stabilized by two hydrogen bonds. Molecular dynamics (MD) simulations reveal that the CU pairs are dynamic and stabilized by Na(+) and water molecules. MD simulations of the binding of the small molecule to r(CCUG) repeats reveal that the lowest free energy binding mode occurs via the major groove, in which one C residue is unstacked and the cross-strand nucleotides are displaced. Moreover, we modeled the binding of our dimeric compound to two 5'CCUG/3'GUCC motifs, which shows that the scaffold on which the RNA-binding modules are displayed provides an optimal distance to span two adjacent loops.

Structure of the Myotonic Dystrophy Type 2 RNA and Designed Small Molecules That Reduce Toxicity

PubMed Central

Park, HaJeung; Lohman, Jeremy R.; Guan, Lirui; Tran, Tuan; Sarkar, Partha; Schatz, George C.; Disney, Matthew D.

2014-01-01

Myotonic dystrophy type 2 (DM2) is an untreatable neuromuscular disorder caused by a r(CCUG) expansion (r(CCUG)exp) that folds into an extended hairpin with periodically repeating 2×2 nucleotide internal loops (5’CCUG/3’GUCC). We designed multivalent compounds that improve DM2-associated defects using information about RNA-small molecule interactions. We also report the first crystal structure of r(CCUG)exp refined to 2.35 Å. Structural analysis of the three 5’CCUG/3’GUCC repeat internal loops (L) reveals that the CU pairs in L1 are each stabilized by one hydrogen bond and a water-mediated hydrogen bond while CU pairs in L2 and L3 are stabilized by two hydrogen bonds. Molecular dynamics (MD) simulations reveal that the CU pairs are dynamic and stabilized by Na+ and water molecules. MD simulations of the binding of the small molecule to r(CCUG) repeats reveal that the lowest free energy binding mode occurs via the major groove, in which one C residue is unstacked and the cross-strand nucleotides are displaced. Moreover, we modeled the binding of our dimeric compound to two 5’CCUG/3’GUCC motifs, which shows that the scaffold on which the RNA-binding modules are displayed provides an optimal distance to span two adjacent loops. PMID:24341895

A laboratory breadboard system for dual-arm teleoperation

NASA Technical Reports Server (NTRS)

Bejczy, A. K.; Szakaly, Z.; Kim, W. S.

1990-01-01

The computing architecture of a novel dual-arm teleoperation system is described. The novelty of this system is that: (1) the master arm is not a replica of the slave arm; it is unspecific to any manipulator and can be used for the control of various robot arms with software modifications; and (2) the force feedback to the general purpose master arm is derived from force-torque sensor data originating from the slave hand. The computing architecture of this breadboard system is a fully synchronized pipeline with unique methods for data handling, communication and mathematical transformations. The computing system is modular, thus inherently extendable. The local control loops at both sites operate at 100 Hz rate, and the end-to-end bilateral (force-reflecting) control loop operates at 200 Hz rate, each loop without interpolation. This provides high-fidelity control. This end-to-end system elevates teleoperation to a new level of capabilities via the use of sensors, microprocessors, novel electronics, and real-time graphics displays. A description is given of a graphic simulation system connected to the dual-arm teleoperation breadboard system. High-fidelity graphic simulation of a telerobot (called Phantom Robot) is used for preview and predictive displays for planning and for real-time control under several seconds communication time delay conditions. High fidelity graphic simulation is obtained by using appropriate calibration techniques.

Evaluating the role of coherent delocalized phonon-like modes in DNA cyclization

DOE PAGES

Alexandrov, Ludmil B.; Rasmussen, Kim Ø.; Bishop, Alan R.; ...

2017-08-29

The innate flexibility of a DNA sequence is quantified by the Jacobson-Stockmayer’s J-factor, which measures the propensity for DNA loop formation. Recent studies of ultra-short DNA sequences revealed a discrepancy of up to six orders of magnitude between experimentally measured and theoretically predicted J-factors. These large differences suggest that, in addition to the elastic moduli of the double helix, other factors contribute to loop formation. We develop a new theoretical model that explores how coherent delocalized phonon-like modes in DNA provide single-stranded ”flexible hinges” to assist in loop formation. We also combine the Czapla-Swigon-Olson structural model of DNA with ourmore » extended Peyrard-Bishop-Dauxois model and, without changing any of the parameters of the two models, apply this new computational framework to 86 experimentally characterized DNA sequences. Our results demonstrate that the new computational framework can predict J-factors within an order of magnitude of experimental measurements for most ultra-short DNA sequences, while continuing to accurately describe the J-factors of longer sequences. Furthermore, we demonstrate that our computational framework can be used to describe the cyclization of DNA sequences that contain a base pair mismatch. Overall, our results support the conclusion that coherent delocalized phonon-like modes play an important role in DNA cyclization.« less

Evaluating the role of coherent delocalized phonon-like modes in DNA cyclization

DOE Office of Scientific and Technical Information (OSTI.GOV)

Alexandrov, Ludmil B.; Rasmussen, Kim Ø.; Bishop, Alan R.

The innate flexibility of a DNA sequence is quantified by the Jacobson-Stockmayer’s J-factor, which measures the propensity for DNA loop formation. Recent studies of ultra-short DNA sequences revealed a discrepancy of up to six orders of magnitude between experimentally measured and theoretically predicted J-factors. These large differences suggest that, in addition to the elastic moduli of the double helix, other factors contribute to loop formation. We develop a new theoretical model that explores how coherent delocalized phonon-like modes in DNA provide single-stranded ”flexible hinges” to assist in loop formation. We also combine the Czapla-Swigon-Olson structural model of DNA with ourmore » extended Peyrard-Bishop-Dauxois model and, without changing any of the parameters of the two models, apply this new computational framework to 86 experimentally characterized DNA sequences. Our results demonstrate that the new computational framework can predict J-factors within an order of magnitude of experimental measurements for most ultra-short DNA sequences, while continuing to accurately describe the J-factors of longer sequences. Furthermore, we demonstrate that our computational framework can be used to describe the cyclization of DNA sequences that contain a base pair mismatch. Overall, our results support the conclusion that coherent delocalized phonon-like modes play an important role in DNA cyclization.« less

Open Ephys: an open-source, plugin-based platform for multichannel electrophysiology

NASA Astrophysics Data System (ADS)

Siegle, Joshua H.; Cuevas López, Aarón; Patel, Yogi A.; Abramov, Kirill; Ohayon, Shay; Voigts, Jakob

2017-08-01

Objective. Closed-loop experiments, in which causal interventions are conditioned on the state of the system under investigation, have become increasingly common in neuroscience. Such experiments can have a high degree of explanatory power, but they require a precise implementation that can be difficult to replicate across laboratories. We sought to overcome this limitation by building open-source software that makes it easier to develop and share algorithms for closed-loop control. Approach. We created the Open Ephys GUI, an open-source platform for multichannel electrophysiology experiments. In addition to the standard ‘open-loop’ visualization and recording functionality, the GUI also includes modules for delivering feedback in response to events detected in the incoming data stream. Importantly, these modules can be built and shared as plugins, which makes it possible for users to extend the functionality of the GUI through a simple API, without having to understand the inner workings of the entire application. Main results. In combination with low-cost, open-source hardware for amplifying and digitizing neural signals, the GUI has been used for closed-loop experiments that perturb the hippocampal theta rhythm in a phase-specific manner. Significance. The Open Ephys GUI is the first widely used application for multichannel electrophysiology that leverages a plugin-based workflow. We hope that it will lower the barrier to entry for electrophysiologists who wish to incorporate real-time feedback into their research.

Interface Matters: The Stiffness Route to Stability of a Thermophilic Tetrameric Malate Dehydrogenase

PubMed Central

Kalimeri, Maria; Girard, Eric; Madern, Dominique; Sterpone, Fabio

2014-01-01

In this work we investigate by computational means the behavior of two orthologous bacterial proteins, a mesophilic and a thermophilic tetrameric malate dehydrogenase (MalDH), at different temperatures. Namely, we quantify how protein mechanical rigidity at different length- and time-scales correlates to protein thermophilicity as commonly believed. In particular by using a clustering analysis strategy to explore the conformational space of the folded proteins, we show that at ambient conditions and at the molecular length-scale the thermophilic variant is indeed more rigid that the mesophilic one. This rigidification is the result of more efficient inter-domain interactions, the strength of which is further quantified via ad hoc free energy calculations. When considered isolated, the thermophilic domain is indeed more flexible than the respective mesophilic one. Upon oligomerization, the induced stiffening of the thermophilic protein propagates from the interface to the active site where the loop, controlling the access to the catalytic pocket, anchors down via an extended network of ion-pairs. On the contrary in the mesophilic tetramer the loop is highly mobile. Simulations at high temperature, could not re-activate the mobility of the loop in the thermophile. This finding opens questions on the similarities of the binding processes for these two homologues at their optimal working temperature and suggests for the thermophilic variant a possible cooperative role of cofactor/substrate. PMID:25437494

Interface matters: the stiffness route to stability of a thermophilic tetrameric malate dehydrogenase.

PubMed

Kalimeri, Maria; Girard, Eric; Madern, Dominique; Sterpone, Fabio

2014-01-01

In this work we investigate by computational means the behavior of two orthologous bacterial proteins, a mesophilic and a thermophilic tetrameric malate dehydrogenase (MalDH), at different temperatures. Namely, we quantify how protein mechanical rigidity at different length- and time-scales correlates to protein thermophilicity as commonly believed. In particular by using a clustering analysis strategy to explore the conformational space of the folded proteins, we show that at ambient conditions and at the molecular length-scale the thermophilic variant is indeed more rigid that the mesophilic one. This rigidification is the result of more efficient inter-domain interactions, the strength of which is further quantified via ad hoc free energy calculations. When considered isolated, the thermophilic domain is indeed more flexible than the respective mesophilic one. Upon oligomerization, the induced stiffening of the thermophilic protein propagates from the interface to the active site where the loop, controlling the access to the catalytic pocket, anchors down via an extended network of ion-pairs. On the contrary in the mesophilic tetramer the loop is highly mobile. Simulations at high temperature, could not re-activate the mobility of the loop in the thermophile. This finding opens questions on the similarities of the binding processes for these two homologues at their optimal working temperature and suggests for the thermophilic variant a possible cooperative role of cofactor/substrate.

Trans-kingdom mimicry underlies ribosome customization by a poxvirus kinase.

PubMed

Jha, Sujata; Rollins, Madeline G; Fuchs, Gabriele; Procter, Dean J; Hall, Elizabeth A; Cozzolino, Kira; Sarnow, Peter; Savas, Jeffrey N; Walsh, Derek

2017-06-29

Ribosomes have the capacity to selectively control translation through changes in their composition that enable recognition of specific RNA elements. However, beyond differential subunit expression during development, evidence for regulated ribosome specification within individual cells has remained elusive. Here we report that a poxvirus kinase phosphorylates serine/threonine residues in the human small ribosomal subunit protein, receptor for activated C kinase (RACK1), that are not phosphorylated in uninfected cells or cells infected by other viruses. These modified residues cluster in an extended loop in RACK1, phosphorylation of which selects for translation of viral or reporter mRNAs with 5' untranslated regions that contain adenosine repeats, so-called polyA-leaders. Structural and phylogenetic analyses revealed that although RACK1 is highly conserved, this loop is variable and contains negatively charged amino acids in plants, in which these leaders act as translational enhancers. Phosphomimetics and inter-species chimaeras have shown that negative charge in the RACK1 loop dictates ribosome selectivity towards viral RNAs. By converting human RACK1 to a charged, plant-like state, poxviruses remodel host ribosomes so that adenosine repeats erroneously generated by slippage of the viral RNA polymerase confer a translational advantage. Our findings provide insight into ribosome customization through trans-kingdom mimicry and the mechanics of species-specific leader activity that underlie poxvirus polyA-leaders.

Trans-kingdom mimicry underlies ribosome customization by a poxvirus kinase

PubMed Central

Jha, Sujata; Rollins, Madeline G.; Fuchs, Gabriele; Procter, Dean J.; Hall, Elizabeth A.; Cozzolino, Kira; Sarnow, Peter; Savas, Jeffrey N.; Walsh, Derek

2017-01-01

Ribosomes have the capacity to selectively control translation through changes in their composition that enable recognition of specific RNA elements1. However, beyond differential subunit expression during development2,3, evidence for regulated ribosome specification within individual cells has remained elusive1. Here, we report that a poxvirus kinase phosphorylates serine/threonine residues in the small ribosomal subunit protein, Receptor for Activated C Kinase (RACK1) that are not phosphorylated in uninfected cells or cells infected by other viruses. These modified residues cluster in an extended loop in RACK1, phosphorylation of which selects for translation of viral or reporter mRNAs whose 5’ untranslated regions (UTRs) contain adenosine repeats, so-called polyA-leaders. Structural and phylogenetic analysis revealed that although RACK1 is highly conserved, this loop is variable and contains negatively charged amino acids in plants, where these leaders act as translational enhancers for poorly understood reasons. Phosphomimetics and inter-species chimeras demonstrated that negative charge in the RACK1 loop dictates ribosome selectivity towards viral RNAs. By converting human RACK1 to a charged, plant-like state, poxviruses remodel host ribosomes so that adenosine repeats erroneously generated by slippage of the viral RNA polymerase4 confer a translational advantage. Our findings uncover ribosome customization through a novel trans-kingdom mimicry and the mechanics of species-specific leader activity that underlie the enigmatic poxvirus polyA-leaders4. PMID:28636603

Algorithmic transformation of multi-loop master integrals to a canonical basis with CANONICA

NASA Astrophysics Data System (ADS)

Meyer, Christoph

2018-01-01

The integration of differential equations of Feynman integrals can be greatly facilitated by using a canonical basis. This paper presents the Mathematica package CANONICA, which implements a recently developed algorithm to automatize the transformation to a canonical basis. This represents the first publicly available implementation suitable for differential equations depending on multiple scales. In addition to the presentation of the package, this paper extends the description of some aspects of the algorithm, including a proof of the uniqueness of canonical forms up to constant transformations.

Heat exchanger and water tank arrangement for passive cooling system

DOEpatents

Gillett, J.E.; Johnson, F.T.; Orr, R.S.; Schulz, T.L.

1993-11-30

A water storage tank in the coolant water loop of a nuclear reactor contains a tubular heat exchanger. The heat exchanger has tube sheets mounted to the tank connections so that the tube sheets and tubes may be readily inspected and repaired. Preferably, the tubes extend from the tube sheets on a square pitch and then on a rectangular pitch there between. Also, the heat exchanger is supported by a frame so that the tank wall is not required to support all of its weight. 6 figures.