Generating substrate bound functional chemokine gradients in vitro
DEFF Research Database (Denmark)
Hjortø, Gertrud Malene; Hansen, Morten; Larsen, Niels Bent;
2009-01-01
Microcontact printing (mCP) is employed to generate discontinuous microscale gradients of active fractalkine, a chemokine expressed by endothelial cells near sites of inflammation where it is believed to form concentration gradients descending away from the inflamed area. In vivo, fractalkine is ...
Substrate-bound protein gradients to study haptotaxis.
Ricoult, Sébastien G; Kennedy, Timothy E; Juncker, David
2015-01-01
Cells navigate in response to inhomogeneous distributions of extracellular guidance cues. The cellular and molecular mechanisms underlying migration in response to gradients of chemical cues have been investigated for over a century. Following the introduction of micropipettes and more recently microfluidics for gradient generation, much attention and effort was devoted to study cellular chemotaxis, which is defined as guidance by gradients of chemical cues in solution. Haptotaxis, directional migration in response to gradients of substrate-bound cues, has received comparatively less attention; however, it is increasingly clear that in vivo many physiologically relevant guidance proteins - including many secreted cues - are bound to cellular surfaces or incorporated into extracellular matrix and likely function via a haptotactic mechanism. Here, we review the history of haptotaxis. We examine the importance of the reference surface, the surface in contact with the cell that is not covered by the cue, which forms a gradient opposing the gradient of the protein cue and must be considered in experimental designs and interpretation of results. We review and compare microfluidics, contact printing, light patterning, and 3D fabrication to pattern substrate-bound protein gradients in vitro. The range of methods to create substrate-bound gradients discussed herein makes possible systematic analyses of haptotactic mechanisms. Furthermore, understanding the fundamental mechanisms underlying cell motility will inform bioengineering approaches to program cell navigation and recover lost function.
Substrate-Bound Protein Gradients to Study Haptotaxis
Directory of Open Access Journals (Sweden)
Sebastien G. Ricoult
2015-03-01
Full Text Available Cells navigate in response to inhomogeneous distributions of extracellular guidance cues. The cellular and molecular mechanisms underlying migration in response to gradients of chemical cues have been investigated for over a century. Following the introduction of micropipettes and more recently microfluidics for gradient generation, much attention and effort was devoted to study cellular chemotaxis, which is defined as guidance by gradients of chemical cues in solution. Haptotaxis, directional migration in response to gradients of substrate-bound cues, has received comparatively less attention; however it is increasingly clear that in vivo many physiologically relevant guidance proteins – including many secreted cues – are bound to cellular surfaces or incorporated into extracellular matrix and likely function via a haptotactic mechanism. Here, we review the history of haptotaxis. We examine the importance of the reference surface, the surface in contact with the cell that is not covered by the cue, which forms a gradient opposing the gradient of the protein cue and must be considered in experimental designs and interpretation of results. We review and compare microfluidics, contact-printing, light patterning and 3D fabrication to pattern substrate-bound protein gradients in vitro, and focus on their application to study axon guidance. The range of methods to create substrate-bound gradients discussed herein make possible systematic analyses of haptotactic mechanisms. Furthermore, understanding the fundamental mechanisms underlying cell motility will inform bioengineering approaches to program cell navigation and recover lost function.
Energy Technology Data Exchange (ETDEWEB)
Fricke-Begemann, T., E-mail: fricke-begemann@llg-ev.de; Ihlemann, J. [Laser-Laboratorium Göttingen e.V., Hans-Adolf-Krebs-Weg 1, 37077 Göttingen (Germany); Wang, N.; Peretzki, P.; Seibt, M. [IV. Physikalisches Institut, Universität Göttingen, Friedrich-Hund-Platz 1, 37077 Göttingen (Germany)
2015-09-28
Silicon nanocrystals have been generated by laser induced phase separation in SiO{sub x} films. A continuous wave laser emitting at 405 nm is focused to a 6 μm diameter spot on 530 nm thick SiO{sub x} films deposited on fused silica substrates. Irradiation of lines is accomplished by focus scanning. The samples are investigated by atomic force microscopy, TEM, Raman spectroscopy, and photoluminescence measurements. At a laser power of 35 mW corresponding to an irradiance of about 1.2 × 10{sup 5 }W/cm{sup 2}, the formation of Si-nanocrystals in the film without any deterioration of the surface is observed. At higher laser power, the central irradiated region is oxidized to SiO{sub 2} and exhibits some porous character, while the surface remains optically smooth, and nanocrystals are observed beside and beneath this oxidized region. Amorphous Si-nanoclusters are formed at lower laser power and around the lines written at high power.
Structure of RNA 3'-phosphate cyclase bound to substrate RNA.
Desai, Kevin K; Bingman, Craig A; Cheng, Chin L; Phillips, George N; Raines, Ronald T
2014-10-01
RNA 3'-phosphate cyclase (RtcA) catalyzes the ATP-dependent cyclization of a 3'-phosphate to form a 2',3'-cyclic phosphate at RNA termini. Cyclization proceeds through RtcA-AMP and RNA(3')pp(5')A covalent intermediates, which are analogous to intermediates formed during catalysis by the tRNA ligase RtcB. Here we present a crystal structure of Pyrococcus horikoshii RtcA in complex with a 3'-phosphate terminated RNA and adenosine in the AMP-binding pocket. Our data reveal that RtcA recognizes substrate RNA by ensuring that the terminal 3'-phosphate makes a large contribution to RNA binding. Furthermore, the RNA 3'-phosphate is poised for in-line attack on the P-N bond that links the phosphorous atom of AMP to N(ε) of His307. Thus, we provide the first insights into RNA 3'-phosphate termini recognition and the mechanism of 3'-phosphate activation by an Rtc enzyme.
Sharp Bounds by Probability-Generating Functions and Variable Drift
DEFF Research Database (Denmark)
Doerr, Benjamin; Fouz, Mahmoud; Witt, Carsten
2011-01-01
We introduce to the runtime analysis of evolutionary algorithms two powerful techniques: probability-generating functions and variable drift analysis. They are shown to provide a clean framework for proving sharp upper and lower bounds. As an application, we improve the results by Doerr et al. (G...
The crystal structure of tryptophan hydroxylase with bound amino acid substrate
DEFF Research Database (Denmark)
Windahl, Michael Skovbo; Petersen, Charlotte Rode; Christensen, Hans Erik Mølager
2008-01-01
acid hydroxylase with bound natural amino acid substrate. The iron coordination can be described as distorted trigonal bipyramidal coordination with His273, His278, and Glu318 (partially bidentate) and one imidazole as ligands. The tryptophan stacks against Pro269 with a distance of 3.9 Å between...... of the neurotransmitter and hormone serotonin (5-hydroxytryptamine). We have determined the 1.9 Å resolution crystal structure of the catalytic domain (Δ1−100/Δ415−445) of chicken TPH isoform 1 (TPH1) in complex with the tryptophan substrate and an iron-bound imidazole. This is the first structure of any aromatic amino...
Flexible and foldable paper-substrate thermoelectric generator (teg)
Rojas, Jhonathan Prieto
2017-08-24
Flexible and foldable paper-substrate thermoelectric generators (TEGs) and methods for making the paper-substrate TEGs are disclosed. A method includes depositing a plurality of thermocouples in series on a paper substrate to create a paper-substrate TEG, wherein the plurality of thermocouples is deposited between two contact points of the paper-substrate TEG. The method may also include setting the power density and maximum achievable temperature gradient of the paper-substrate TEG by folding the paper-substrate TEG. A paper-substrate TEG apparatus may include a paper substrate and a plurality of thermocouples deposited in series on the paper substrate between two contact points of the paper-substrate TEG, wherein the power density and maximum achievable temperature gradient of the paper-substrate TEG is set by folding the paper-substrate TEG.
Substrate protein folds while it is bound to the ATP-independent chaperone Spy.
Stull, Frederick; Koldewey, Philipp; Humes, Julia R; Radford, Sheena E; Bardwell, James C A
2016-01-01
Chaperones assist in the folding of many proteins in the cell. Although the most well-studied chaperones use cycles of ATP binding and hydrolysis to assist in protein folding, a number of chaperones have been identified that promote folding in the absence of high-energy cofactors. Precisely how ATP-independent chaperones accomplish this feat is unclear. Here we characterized the kinetic mechanism of substrate folding by the small ATP-independent chaperone Spy from Escherichia coli. Spy rapidly associates with its substrate, immunity protein 7 (Im7), thereby eliminating Im7's potential for aggregation. Remarkably, Spy then allows Im7 to fully fold into its native state while it remains bound to the surface of the chaperone. These results establish a potentially widespread mechanism whereby ATP-independent chaperones assist in protein refolding. They also provide compelling evidence that substrate proteins can fold while being continuously bound to a chaperone.
Crystal Structure of Inhibitor-Bound P450BM-3 Reveals Open Conformation of Substrate Access Channel
Energy Technology Data Exchange (ETDEWEB)
Haines, Donovan C.; Chen, Baozhi; Tomchick, Diana R.; Bondlela, Muralidhar; Hegde, Amita; Machius, Mischa; Peterson, Julian A. (Texas); (UTSMC)
2008-08-19
P450BM-3 is an extensively studied P450 cytochrome that is naturally fused to a cytochrome P450 reductase domain. Crystal structures of the heme domain of this enzyme have previously generated many insights into features of P450 structure, substrate binding specificity, and conformational changes that occur on substrate binding. Although many P450s are inhibited by imidazole, this compound does not effectively inhibit P450BM-3. {omega}-Imidazolyl fatty acids have previously been found to be weak inhibitors of the enzyme and show some unusual cooperativity with the substrate lauric acid. We set out to improve the properties of these inhibitors by attaching the {omega}-imidazolyl fatty acid to the nitrogen of an amino acid group, a tactic that we used previously to increase the potency of substrates. The resulting inhibitors were significantly more potent than their parent compounds lacking the amino acid group. A crystal structure of one of the new inhibitors bound to the heme domain of P450BM-3 reveals that the mode of interaction of the amino acid group with the enzyme is different from that previously observed for acyl amino acid substrates. Further, required movements of residues in the active site to accommodate the imidazole group provide an explanation for the low affinity of imidazole itself. Finally, the previously observed cooperativity with lauric acid is explained by a surprisingly open substrate-access channel lined with hydrophobic residues that could potentially accommodate lauric acid in addition to the inhibitor itself.
The crystal structure of tryptophan hydroxylase with bound amino acid substrate
DEFF Research Database (Denmark)
Windahl, Michael Skovbo; Petersen, Charlotte Rode; Christensen, Hans Erik Mølager
2008-01-01
124−Asp139 and Ile367−Thr369 close around the active site. Similar structural changes are seen in the catalytic domain of phenylalanine hydroxylase (PAH) upon binding of substrate analogues norleucine and thienylalanine to the PAH·BH4 complex. In fact, the chicken TPH1·Trp·imidazole structure......Tryptophan hydroxylase (TPH) is a mononuclear non-heme iron enzyme, which catalyzes the reaction between tryptophan, O2, and tetrahydrobiopterin (BH4) to produce 5-hydroxytryptophan and 4a-hydroxytetrahydrobiopterin. This is the first and rate-limiting step in the biosynthesis...... of the neurotransmitter and hormone serotonin (5-hydroxytryptamine). We have determined the 1.9 Å resolution crystal structure of the catalytic domain (Δ1−100/Δ415−445) of chicken TPH isoform 1 (TPH1) in complex with the tryptophan substrate and an iron-bound imidazole. This is the first structure of any aromatic amino...
Generation of microdischarges in diamond substrates
Mitea, S.; Zeleznik, M.; Bowden, M. D.; May, P. W.; Fox, N. A.; Hart, J. N.; Fowler, C.; Stevens, R.; StJ Braithwaite, N.
2012-04-01
We report the generation of microdischarges in devices composed of microcrystalline diamond. Discharges were generated in device structures with microhollow cathode discharge geometries. One structure consisted of an insulating diamond wafer coated with boron-doped diamond layers on both sides. A second structure consisted of an insulating diamond wafer coated with metal layers on both sides. In each case, a single sub-millimetre hole was machined through the conductor-insulator-conductor structure. The discharges were generated in a helium atmosphere. Breakdown voltages were around 500 V and discharge currents in the range 0.1-2.5 mA were maintained by a sustaining dc voltage of 300 V.
Power generation assets. Energy constraints, upper bounds and hedging strategies
Energy Technology Data Exchange (ETDEWEB)
Enge, Thomas
2010-09-20
The overall topic of this thesis is the valuation of power generation assets under energy and risk constraints. Our focus is on the modeling aspect i.e. to find the right balance between accuracy and computational feasibility. We define a new not yet investigated unit commitment problem that introduces an energy constraint to a thermal power plant. We define a continuous stochastic dynamic program with a nested mixed integer program (MIP). We introduce a fast implementation approach by replacing the MIP with an efficient matrix calculation and use principal component analysis to reduce the number of risk factors. We also provide a fast heuristic valuation approach for comparison. As both models can only provide lower bounds of the asset value, we investigate the theory of upper bounds for a proper validation of our power plant results. We review the primal dual algorithm for swing options by Meinshausen and Hambly and in particular clarify their notation and implementation. Then we provide an extension for swing options with multiple exercises at the same stage that we developed together with Prof. Bender, University of Braunschweig. We outline Prof. Bender's proof and describe the implementation in detail. Finally we provide a risk analysis for our thermal power plant. In particular we investigate strategies to reduce spot price risk to which power plants are significantly exposed. First, we focus on the measurement of spot price risk and propose three appropriate risk figures (Forward delta as opposed to Futures delta, synthetic spot delta and Earnings-at-Risk) and illustrate their application using a business case. Second we suggest risk mitigation strategies for both periods, before and in delivery. The latter tries to alter the dispatch policy i.e. pick less risky hours and accept a (desirably only slightly) smaller return. We introduce a benchmark that weighs risk versus return and that we will call EaR-efficient option value. We propose a mitigation
Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA
Energy Technology Data Exchange (ETDEWEB)
Liang, Bo; Zhou, Jing; Kahen, Elliot; Terns, Rebecca M.; Terns, Michael P.; Li, Hong; (Inst. Mol. BioScience); (FSU); (Georgia)
2009-09-29
Box H/ACA small nucleolar and Cajal body ribonucleoprotein particles comprise the most complex pseudouridine synthases and are essential for ribosome and spliceosome maturation. The multistep and multicomponent-mediated enzyme mechanism remains only partially understood. Here we report a crystal structure at 2.35 {angstrom} of a substrate-bound functional archaeal enzyme containing three of the four proteins, Cbf5, Nop10 and L7Ae, and a box H/ACA RNA that reveals detailed information about the protein-only active site. The substrate RNA, containing 5-fluorouridine at the modification position, is fully docked and catalytically rearranged by the enzyme in a manner similar to that seen in two stand-alone pseudouridine synthases. Structural analysis provides a mechanism for plasticity in the diversity of guide RNA sequences used and identifies a substrate-anchoring loop of Cbf5 that also interacts with Gar1 in unliganded structures. Activity analyses of mutated proteins and RNAs support the structural findings and further suggest a role of the Cbf5 loop in regulation of enzyme activity.
Structure of a functional ribonucleoprotein pseudouridine synthase bound to a substrate RNA.
Liang, Bo; Zhou, Jing; Kahen, Elliot; Terns, Rebecca M; Terns, Michael P; Li, Hong
2009-07-01
Box H/ACA small nucleolar and Cajal body ribonucleoprotein particles comprise the most complex pseudouridine synthases and are essential for ribosome and spliceosome maturation. The multistep and multicomponent-mediated enzyme mechanism remains only partially understood. Here we report a crystal structure at 2.35 A of a substrate-bound functional archaeal enzyme containing three of the four proteins, Cbf5, Nop10 and L7Ae, and a box H/ACA RNA that reveals detailed information about the protein-only active site. The substrate RNA, containing 5-fluorouridine at the modification position, is fully docked and catalytically rearranged by the enzyme in a manner similar to that seen in two stand-alone pseudouridine synthases. Structural analysis provides a mechanism for plasticity in the diversity of guide RNA sequences used and identifies a substrate-anchoring loop of Cbf5 that also interacts with Gar1 in unliganded structures. Activity analyses of mutated proteins and RNAs support the structural findings and further suggest a role of the Cbf5 loop in regulation of enzyme activity.
Dutta, Debodyuti; Mishra, Sabyashachi
2016-01-21
Conformational dynamics in large biomolecular systems is often associated with their physiological roles. The dynamics of a dimeric microbial enzyme, DapE, with great potential as an antibiotic target, has been studied employing long molecular dynamics simulations of the enzyme in apo form and in substrate bound complex form. The essential dynamics of the apo enzyme and the enzyme-substrate complex are extracted from the principal component analysis of the simulations of these two systems where the first two principal components are analyzed in detail. The essential motion of the enzyme in the substrate bound form exhibits a folding motion of its two catalytic domains over the two dimerization domains, which results in repulsion of water molecules away from the active site of the enzyme-substrate complex. This folding motion also leads to a stabilizing binding free energy of the substrate arising from the favorable interaction of the substrate and side chains of the enzyme. The dynamics in the enzyme-substrate complex results in stronger interaction between the catalytic and dimerization domains reflected by an increased number of inter-domain hydrogen bonds. The substrate, located in the catalytic domain of DapE, establishes contacts with the side chains of the dimerization domain of DapE by extended chains of hydrogen bonds, which emphasizes the role of the dimerization domain in substrate binding.
Funk, Michael A.; Marsh, E. Neil G.; Drennan, Catherine L.
2015-01-01
Various bacteria perform anaerobic degradation of small hydrocarbons as a source of energy and cellular carbon. To activate non-reactive hydrocarbons such as toluene, enzymes conjugate these molecules to fumarate in a radical-catalyzed, C—C bond-forming reaction. We have determined x-ray crystal structures of the glycyl radical enzyme that catalyzes the addition of toluene to fumarate, benzylsuccinate synthase (BSS), in two oligomeric states with fumarate alone or with both substrates. We find that fumarate is secured at the bottom of a long active site cavity with toluene bound directly above it. The two substrates adopt orientations that appear ideal for radical-mediated C—C bond formation; the methyl group of toluene is positioned between fumarate and a cysteine that forms a thiyl radical during catalysis, which is in turn adjacent to the glycine that serves as a radical storage residue. Toluene is held in place by fumarate on one face and tight packing by hydrophobic residues on the other face and sides. These hydrophobic residues appear to become ordered, thus encapsulating toluene, only in the presence of BSSβ, a small protein subunit that forms a tight complex with BSSα, the catalytic subunit. Enzymes related to BSS are able to metabolize a wide range of hydrocarbons through attachment to fumarate. Using our structures as a guide, we have constructed homology models of several of these “X-succinate synthases” and determined conservation patterns that will be useful in understanding the basis for catalysis and specificity in this family of enzymes. PMID:26224635
Constraining a fourth generation of quarks. Non-perturbative Higgs boson mass bounds
Energy Technology Data Exchange (ETDEWEB)
Bulava, J. [European Lab. for Particle Physics (CERN), Geneva (Switzerland); Jansen, K. [Deutsches Elektronen-Synchrotron (DESY), Zeuthen (Germany). John von Neumann-Inst. fuer Computing NIC; Nagy, A. [Deutsches Elektronen-Synchrotron (DESY), Zeuthen (Germany). John von Neumann-Inst. fuer Computing NIC; Humboldt-Universitaet, Berlin (Germany). Inst. fuer Physik
2013-01-15
We present a non-perturbative determination of the upper and lower Higgs boson mass bounds with a heavy fourth generation of quarks from numerical lattice computations in a chirally symmetric Higgs-Yukawa model. We find that the upper bound only moderately rises with the quark mass while the lower bound increases significantly, providing additional constraints on the existence of a straight-forward fourth quark generation. We examine the stability of the lower bound under the addition of a higher dimensional operator to the scalar field potential using perturbation theory, demonstrating that it is not significantly altered for small values of the coupling of this operator. For a Higgs boson mass of {proportional_to}125 GeV we find that the maximum value of the fourth generation quark mass is {proportional_to}300 GeV, which is already in conflict with bounds from direct searches.
The Cayley transform of the generator of a bounded $C_0$-semigroup
Gomilko, A.; Zwart, H.J.
2007-01-01
Let $A$ be the generator of a uniformly bounded $C_0$-semigroup on the Banach space $X$. We present sufficient conditions on the resolvent $(A-\\lambda I)^{-1},$ $Re(\\lambda)>0,$ under which the Cayley transform $V=(A+I)(A-I)^{-1}$ is a power-bounded operator, i.e., $\\sup_{n\\in N}\\,\\|V^n\\|\\,<\\infty.
Hyland, Callen; Dufrense, Eric R.; Forscher, Paul
2014-04-01
We have investigated Aplysia hemolymph as a source of endogenous factors to promote regeneration of bag cell neurons. We describe a novel synergistic effect between substrate-bound hemolymph proteins and laminin. This combination increased outgrowth and branching relative to either laminin or hemolymph alone. Notably, the addition of hemolymph to laminin substrates accelerated growth cone migration rate over ten-fold. Our results indicate that the active factor is either a high molecular weight protein or protein complex and is not the respiratory protein hemocyanin. Substrate-bound factor(s) from central nervous system-conditioned media also had a synergistic effect with laminin, suggesting a possible cooperation between humoral proteins and nervous system extracellular matrix. Further molecular characterization of active factors and their cellular targets is warranted on account of the magnitude of the effects reported here and their potential relevance for nervous system repair.
Jett, John E; Lederman, David; Wollenberg, Lance A; Li, Debin; Flora, Darcy R; Bostick, Christopher D; Tracy, Timothy S; Gannett, Peter M
2013-03-13
Electron transfer in cytochrome P450 enzymes is a fundamental process for activity. It is difficult to measure electron transfer in these enzymes because under the conditions typically used they exist in a variety of states. Using nanotechnology-based techniques, gold conducting nanopillars were constructed in an indexed array. The P450 enzyme CYP2C9 was attached to each of these nanopillars, and conductivity measurements made using conducting probe atomic force microscopy under constant force conditions. The conductivity measurements were made on CYP2C9 alone and with bound substrates, a bound substrate-effector pair, and a bound inhibitor. Fitting of the data with the Poole-Frenkel model indicates a correlation between the barrier height for electron transfer and the ease of CYP2C9-mediated metabolism of the bound substrates, though the spin state of iron is not well correlated. The approach described here should have broad application to the measurement of electron transfer in P450 enzymes and other metalloenzymes.
Initial data generating bounded solutions of linear discrete equations
Directory of Open Access Journals (Sweden)
Jaromír Baštinec
2006-01-01
Full Text Available A lot of papers are devoted to the investigation of the problem of prescribed behavior of solutions of discrete equations and in numerous results sufficient conditions for existence of at least one solution of discrete equations having prescribed asymptotic behavior are indicated. Not so much attention has been paid to the problem of determining corresponding initial data generating such solutions. We fill this gap for the case of linear equations in this paper. The initial data mentioned are constructed with use of two convergent monotone sequences. An illustrative example is considered, too.
Directory of Open Access Journals (Sweden)
Masaru Yokoyama
2017-07-01
Full Text Available Feline calicivirus (FCV protease functions to cleave viral precursor proteins during productive infection. Previous studies have mapped a protease-coding region and six cleavage sites in viral precursor proteins. However, how the FCV protease interacts with its substrates remains unknown. To gain insights into the interactions, we constructed a molecular model of the FCV protease bound with the octapeptide containing a cleavage site of the capsid precursor protein by homology modeling and docking simulation. The complex model was used to screen for the substrate mimic from a chemical library by pharmacophore-based in silico screening. With this structure-based approach, we identified a compound that has physicochemical features and arrangement of the P3 and P4 sites of the substrate in the protease, is predicted to bind to FCV proteases in a mode similar to that of the authentic substrate, and has the ability to inhibit viral protease activity in vitro and in the cells, and to suppress viral replication in FCV-infected cells. The complex model was further subjected to molecular dynamics simulation to refine the enzyme-substrate interactions in solution. The simulation along with a variation study predicted that the authentic substrate and anti-FCV compound share a highly conserved binding site. These results suggest the validity of our in silico model for elucidating protease-substrate interactions during FCV replication and for developing antivirals.
Yokoyama, Masaru; Oka, Tomoichiro; Takagi, Hirotaka; Kojima, Hirotatsu; Okabe, Takayoshi; Nagano, Tetsuo; Tohya, Yukinobu; Sato, Hironori
2017-01-01
Feline calicivirus (FCV) protease functions to cleave viral precursor proteins during productive infection. Previous studies have mapped a protease-coding region and six cleavage sites in viral precursor proteins. However, how the FCV protease interacts with its substrates remains unknown. To gain insights into the interactions, we constructed a molecular model of the FCV protease bound with the octapeptide containing a cleavage site of the capsid precursor protein by homology modeling and docking simulation. The complex model was used to screen for the substrate mimic from a chemical library by pharmacophore-based in silico screening. With this structure-based approach, we identified a compound that has physicochemical features and arrangement of the P3 and P4 sites of the substrate in the protease, is predicted to bind to FCV proteases in a mode similar to that of the authentic substrate, and has the ability to inhibit viral protease activity in vitro and in the cells, and to suppress viral replication in FCV-infected cells. The complex model was further subjected to molecular dynamics simulation to refine the enzyme-substrate interactions in solution. The simulation along with a variation study predicted that the authentic substrate and anti-FCV compound share a highly conserved binding site. These results suggest the validity of our in silico model for elucidating protease-substrate interactions during FCV replication and for developing antivirals.
On a bound for the diameter of Cayley networks of symmetric groups generated by transposition trees
Ganesan, Ashwin
2011-01-01
A problem of both theoretical and practical interest is to determine estimates or bounds for the diameter of Cayley graphs of groups, and to know for which cases the bounds are exact or how far away the bounds can be from the true value in the worst case. Let $\\Gamma$ be a Cayley graph of the symmetric group on $n$ letters generated by a transposition tree $T$. In \\cite{Akers:Krishnamurthy:1989} \\cite{Hahn:Sabidussi:1997}, it is shown that the diameter of $\\Gamma$ is bounded as $$\\diam(\\Gamma) \\le \\max_{\\pi \\in S_n} {c(\\pi)-n+\\sum_{i=1}^n \\dist_T(i,\\pi(i))},$$ where $c(\\pi)$ denotes the number of cycles in $\\pi$, and $\\dist_T$ is the distance function in $T$. In this work, we assess the sharpness and strictness of this upper bound. We show that the upper bound is exact for all trees of maximum diameter and also for all trees of minimum diameter, and we exhibit some families of trees (that are non-extremal) for which the bound is strict. We then show that for every $n$, there exists a tree on $n$ vertices, suc...
Quasi-bound states, resonance tunnelling, and tunnelling times generated by twin symmetric barriers
Indian Academy of Sciences (India)
A Uma Maheswari; P Prema; S Mahadevan; C S Shastry
2009-12-01
In analogy with the definition of resonant or quasi-bound states used in three-dimensional quantal scattering, we define the quasi-bound states that occur in one-dimensional transmission generated by twin symmetric potential barriers and evaluate their energies and widths using two typical examples: (i) twin rectangular barrier and (ii) twin Gaussian-type barrier. The energies at which reflectionless transmission occurs correspond to these states and the widths of the transmission peaks are also the same as those of quasi-bound states. We compare the behaviour of the magnitude of wave functions of quasi-bound states with those for bound states and with the above-barrier state wave function. We deduce a Breit–Wigner-type resonance formula which neatly describes the variation of transmission coefficient as a function of energy at below-barrier energies. Similar formula with additional empirical term explains approximately the peaks of transmission coefficients at above-barrier energies as well. Further, we study the variation of tunnelling time as a function of energy and compare the same with transmission, reflection time and Breit–Wigner delay time around a quasi-bound state energy. We also find that tunnelling time is of the same order of magnitude as lifetime of the quasi-bound state, but somewhat larger.
Energy Technology Data Exchange (ETDEWEB)
Mast, N.; White, M.A.; Bjorkhem, I.; Johnson, E.F.; Stout, C.D.; Pikuleva, I.A.
2009-05-19
By converting cholesterol to 24S-hydroxycholesterol, cytochrome P450 46A1 (CYP46A1) initiates the major pathway for cholesterol removal from the brain. Two crystal structures of CYP46A1 were determined. First is the 1.9-{angstrom} structure of CYP46A1 complexed with a high-affinity substrate cholesterol 3-sulfate (CH-3S). The second structure is that of the substrate-free CYP46A1 at 2.4-{angstrom} resolution. CH-3S is bound in the productive orientation and occupies the entire length of the banana-shaped hydrophobic active-site cavity. A unique helix B{prime}-C loop insertion (residues 116-120) contributes to positioning cholesterol for oxygenation catalyzed by CYP46A1. A comparison with the substrate-free structure reveals substantial substrate-induced conformational changes in CYP46A1 and suggests that structurally distinct compounds could bind in the enzyme active site. In vitro assays were performed to characterize the effect of different therapeutic agents on cholesterol hydroxylase activity of purified full-length recombinant CYP46A1, and several strong inhibitors and modest coactivators of CYP46A1 were identified. Structural and biochemical data provide evidence that CYP46A1 activity could be altered by exposure to some therapeutic drugs and potentially other xenobiotics.
Directory of Open Access Journals (Sweden)
de Hong Yan
2015-01-01
Full Text Available In order to improve mycelium-bound ester hydrolases activities of Aspergillus oryzae Cs007, the main production conditions were investigated. The ester hydrolases activities were simultaneously determined by titration assay and spectrophotometric assay methods, using olive oil and p-nitrophenyl esters as substrates, respectively. The optimum carbon source and nitrogen source were olive oil and peptone, with the concentrations of 1% and 2.2%, respectively. The effects of carbon source, nitrogen source and their concentrations on the production of enzymes were identical when the enzymes activities were assayed by the two methods. The mycelium-bound enzymes showed hydrolytic activity toward all the tested p-nitrophenyl esters, triglycerides and fatty acid ethyl esters. But it showed greater preference for long-chain triglycerides and short-chain p-nitrophenyl esters.
Energy Technology Data Exchange (ETDEWEB)
Loeb, K.E.; Westre, T.E.; Hedman, B.; Hodgson, K.O.; Solomon, E.I. [Stanford Univ., CA (United States); Kappock, T.J.; Mitic, N.; Glasfeld, E.; Caradonna, J.P. [Yale Univ., New Haven, CT (United States)
1997-02-26
The geometric structure of the catalytically relevant ferrous active site of phenylalanine hydroxylase (PAH) has been investigated using magnetic circular dichroism (MCD) and X-ray absorption (XAS) spectroscopies. From the excited state ligand field transitions in the MCD spectrum, the temperature and field dependence of these transitions, and the XAS pre-edge shapes and intensities, the resting ferrous site of the `tense` from PAH is six-coordinate distorted octahedral. The low ligand field strength observed in the MCD spectrum results from significant oxygen ligation and longer Fe-O/N bond distances relative to model complexes as determined from an EXAFS analysis. Substrate-induced allosteric activation ({approx}34 kcal/mol) does not alter the structure of the iron site in the `relaxed` form of PAH compared to the substrate-bound `tense` state. Thus, while activation is necessary for the enzyme to achieve complete catalytic competence, it does not appear to affect the geometry of the catalytically relevent six-coordinate ferrous active site and only directly influences the surrounding protein conformation. In contrast, substrate addition results in a geometric and electronic structural change at the iron center which may help orient the substrate for completely coupled hydroxylation. 106 refs., 10 figs., 6 tabs.
Tight bound on coherent-state-based entanglement generation over lossy channels
Azuma, Koji; Koashi, Masato; Imoto, Nobuyuki
2009-01-01
The first stage of the hybrid quantum repeaters is entanglement generation based on transmission of pulses in coherent states over a lossy channel. Protocols to make entanglement with only one type of error are favorable for rendering subsequent entanglement distillation efficient. Here we provide the tight upper bound on performances of these protocols that is determined only by the channel loss. In addition, we show that this bound is achievable by utilizing a proposed protocol [arXiv:0811.3100] composed of a simple combination of linear optical elements and photon-number-resolving detectors.
Essential motions in a fungal lipase with bound substrate, covalently attached inhibitor and product
DEFF Research Database (Denmark)
Peters, Günther H.J.; Bywater, R.P.
2002-01-01
of response along the pathway suggesting that binding, catalysis and product clearance occur along different energy surfaces. Motions in the enzyme with a covalently attached ligand are more complex and occur along several eigenvectors. The magnitudes of the fluctuations in these individual subspaces...... are significantly smaller than those observed for the substrate and product molecules, indicating that the energy surface is shallow and that a relatively large number of conformational substates are accessible. On the other hand, substrate binding and product release occur at distinct modes of the protein...... flexibility suggesting that these processes occur along rough energy surfaces with only a few minima. Detailed energetic analyses along the trajectories indicated that in all cases binding is dominated by van der Waals interactions. The carboxylate form of the product is stabilized by a tight hydrogen bond...
Brummett, Adam E; Dey, Mishtu
2016-11-08
The marine microbial catabolism of dimethylsulfoniopropionate (DMSP) by the lyase pathway liberates ∼300 million tons of dimethyl sulfide (DMS) per year, which plays a major role in the biogeochemical cycling of sulfur. Recent biochemical and structural studies of some DMSP lyases, including DddQ, reveal the importance of divalent transition metal ions in assisting DMSP cleavage. While DddQ is believed to be zinc-dependent primarily on the basis of structural studies, excess zinc inhibits the enzyme. We examine the importance of iron in regulating the DMSP β-elimination reaction catalyzed by DddQ as our as-isolated purple-colored enzyme possesses ∼0.5 Fe/subunit. The UV-visible spectrum exhibited a feature at 550 nm, consistent with a tyrosinate-Fe(III) ligand-to-metal charge transfer transition. Incubation of as-isolated DddQ with added iron increases the intensity of the 550 nm peak, whereas addition of dithionite causes a bleaching as Fe(III) is reduced. Both the Fe(III) oxidized and Fe(II) reduced species are active, with similar kcat values and 2-fold differences in their Km values for DMSP. The slow turnover of Fe(III)-bound DddQ allowed us to capture a substrate-bound form of the enzyme. Our DMSP-Fe(III)-DddQ structure reveals conformational changes associated with substrate binding and shows that DMSP is positioned optimally to bind iron and is in the proximity of Tyr 120 that acts as a Lewis base to initiate catalysis. The structures of Tris-, DMSP-, and acrylate-bound forms of Fe(III)-DddQ reported here illustrate various states of the enzyme along the reaction pathway. These results provide new insights into DMSP lyase catalysis and have broader significance for understanding the mechanism of oceanic DMS production.
Effects of a potential fourth fermion generation on the Higgs boson mass bounds
Gerhold, P; Kallarackal, J
2010-01-01
We study the effect of a potential fourth fermion generation on the upper and lower Higgs boson mass bounds. This investigation is based on the numerical evaluation of a chirally invariant lattice Higgs-Yukawa model emulating the same Higgs-fermion coupling structure as in the Higgs sector of the electroweak Standard Model. In particular, the considered model obeys a Ginsparg-Wilson version of the underlying $SU(2)_L\\times U(1)_Y$ symmetry, being a global symmetry here due to the neglection of gauge fields in this model. We present our results on the modification of the upper and lower Higgs boson mass bounds induced by the presence of a hypothetical very heavy fourth quark doublet. Finally, we compare these findings to the standard scenario of three fermion generations.
Effects of a potential fourth fermion generation on the upper and lower Higgs boson mass bounds
Gerhold, Philipp; Kallarackal, Jim
2010-01-01
We study the effect of a potential fourth fermion generation on the upper and lower Higgs boson mass bounds. This investigation is based on the numerical evaluation of a chirally invariant lattice Higgs-Yukawa model emulating the same Higgs-fermion coupling structure as in the Higgs sector of the electroweak Standard Model. In particular, the considered model obeys a Ginsparg-Wilson version of the underlying ${SU}(2)_L\\times {U}(1)_Y$ symmetry, being a global symmetry here due to the neglection of gauge fields in this model. We present our results on the modification of the upper and lower Higgs boson mass bounds induced by the presence of a hypothetical very heavy fourth quark doublet. Finally, we compare these findings to the standard scenario of three fermion generations.
Higgs boson mass bounds in the presence of a very heavy fourth quark generation
Gerhold, P; Kallarackal, J
2010-01-01
We study the effect of a potential fourth quark generation on the upper and lower Higgs boson mass bounds. This investigation is based on the numerical evaluation of a chirally invariant lattice Higgs-Yukawa model emulating the same Higgs-fermion coupling structure as in the Higgs sector of the electroweak Standard Model. In particular, the considered model obeys a Ginsparg-Wilson version of the underlying ${SU}(2)_L\\times {U}(1)_Y$ symmetry, being a global symmetry here due to the neglection of gauge fields in this model. We present our results on the modification of the upper and lower Higgs boson mass bounds induced by the presence of a hypothetical very heavy fourth quark doublet. Finally, we compare these findings to the standard scenario of three fermion generations.
The magnetic field generated by an electron bound in angular-momentum eigenstates
Ayuel, K
1999-01-01
The magnetic field generated by an electron bound in a spherically symmetric potential is calculated for eigenstates of the orbital and total angular momentum. General expressions are presented for the current density in such states and the magnetic field is calculated through the vector potential, which is obtained from the current density by direct integration. The method is applied to the hydrogen atom, for which we reproduce and extend known results.
Crystal Structure of the FimD Usher Bound to its Cognate FimC-FimH Substrate
Energy Technology Data Exchange (ETDEWEB)
G Phan; H Remaut; T Wang; W Allen; K Pirker; A Lebedev; N Henderson; S Geibel; E Volkan; et al.
2011-12-31
Type 1 pili are the archetypal representative of a widespread class of adhesive multisubunit fibres in Gram-negative bacteria. During pilus assembly, subunits dock as chaperone-bound complexes to an usher, which catalyses their polymerization and mediates pilus translocation across the outer membrane. Here we report the crystal structure of the full-length FimD usher bound to the FimC-FimH chaperone-adhesin complex and that of the unbound form of the FimD translocation domain. The FimD-FimC-FimH structure shows FimH inserted inside the FimD 24-stranded {beta}-barrel translocation channel. FimC-FimH is held in place through interactions with the two carboxy-terminal periplasmic domains of FimD, a binding mode confirmed in solution by electron paramagnetic resonance spectroscopy. To accommodate FimH, the usher plug domain is displaced from the barrel lumen to the periplasm, concomitant with a marked conformational change in the {beta}-barrel. The amino-terminal domain of FimD is observed in an ideal position to catalyse incorporation of a newly recruited chaperone-subunit complex. The FimD-FimC-FimH structure provides unique insights into the pilus subunit incorporation cycle, and captures the first view of a protein transporter in the act of secreting its cognate substrate.
Bounds on the entropy generated when timing information is extracted from microscopic systems
Janzing, D; Janzing, Dominik; Beth, Thomas
2003-01-01
We consider Hamiltonian quantum systems with energy bandwidth \\Delta E and show that each measurement that determines the time up to an error \\Delta t generates at least the entropy (\\hbar/(\\Delta t \\Delta E))^2/2. Our result describes quantitatively to what extent all timing information is quantum information in systems with limited energy. It provides a lower bound on the dissipated energy when timing information of microscopic systems is converted to classical information. This is relevant for low power computation since it shows the amount of heat generated whenever a band limited signal controls a classical bit switch. Our result provides a general bound on the information-disturbance trade-off for von-Neumann measurements that distinguish states on the orbits of continuous unitary one-parameter groups with bounded spectrum. In contrast, information gain without disturbance is possible for some completely positive semi-groups. This shows that readout of timing information can be possible without entropy ...
Electricity generation and microbial community response to substrate changes in microbial fuel cell
DEFF Research Database (Denmark)
Zhang, Yifeng; Min, Booki; Huang, L.;
2011-01-01
The effect of substrate changes on the performance and microbial community of two-chamber microbial fuel cells (MFCs) was investigated in this study. The MFCs enriched with a single substrate (e.g., acetate, glucose, or butyrate) had different acclimatization capability to substrate changes....... The MFC enriched with glucose showed rapid and higher power generation, when glucose was switched with acetate or butyrate. However, the MFC enriched with acetate needed a longer adaptation time for utilizing glucose. Microbial community was also changed when the substrate was changed. Clostridium...... of substrate fed to MFC is a very important parameter for reactor performance and microbial community, and significantly affects power generation in MFCs....
Macroscopic manipulation of high-order-harmonic generation through bound-state coherent control.
Hadas, Itai; Bahabad, Alon
2014-12-19
We propose a paradigm for macroscopic control of high-order harmonic generation by modulating the bound-state population of the medium atoms. A unique result of this scheme is that apart from regular spatial quasi-phase-matching (QPM), also purely temporal QPM of the emitted radiation can be established. Our simulations demonstrate temporal QPM by inducing homogenous Rabi oscillations in the medium and also spatial QPM by creating a grating of population inversion using the process of rapid adiabatic passage. In the simulations a scaled version of high-order harmonic generation is used: a far off-resonance 2.6 μm source generates UV-visible high-order harmonics from alkali-metal-atom vapor, while a resonant near IR source is used to coherently control the medium.
Cramer-Rao Bounds and Coherence Performance Analysis for Next Generation Radar with Pulse Trains
Directory of Open Access Journals (Sweden)
Ning Zhang
2013-04-01
Full Text Available We study the Cramer-Rao bounds of parameter estimation and coherence performance for the next generation radar (NGR. In order to enhance the performance of NGR, the signal model of NGR with master-slave architecture based on a single pulse is extended to the case of pulse trains, in which multiple pulses are emitted from all sensors and then integrated spatially and temporally in a unique master sensor. For the MIMO mode of NGR where orthogonal waveforms are emitted, we derive the closed-form Cramer-Rao bound (CRB for the estimates of generalized coherence parameters (GCPs, including the time delay differences, total phase differences and Doppler frequencies with respect to different sensors. For the coherent mode of NGR where the coherent waveforms are emitted after pre-compensation using the estimates of GCPs, we develop a performance bound of signal-to-noise ratio (SNR gain for NGR based on the aforementioned CRBs, taking all the estimation errors into consideration. It is shown that greatly improved estimation accuracy and coherence performance can be obtained with pulse trains employed in NGR. Numerical examples demonstrate the validity of the theoretical results.
Ultraheavy Yukawa-bound states of fourth-generation at Large Hadron Collider
Indian Academy of Sciences (India)
Ts Enkhbat
2012-10-01
A study of bound states of the fourth-generation quarks in the range of 500–700 GeV is presented, where the binding energies are expected to be mainly of Yukawa origin, with QCD subdominant. Near degeneracy of their masses exhibits a new `isospin'. The production of a colour- octet, isosinglet vector meson via $q\\bar{q} → g$ is the most interesting. Its leading decay modes are $_{8}^{±} W^{\\mp}$, $_{8}^{0} Z^{0}$, and constituent quark decay, with $q\\bar{q}$ and $t\\bar{t'}$ and $b\\bar{b'}$ subdominant. The colour octet, isovector pseudoscalar 8 meson decays via constituent quark decay, or to $W g$. This work calls for more detailed study of fourth-generation phenomena at LHC.
Novel Virtual Substrates for Future Generation IR Photodetectors
2014-12-23
substrates, J. Cryst. Growth, submitted for publication. [4] X.-H. Zhao, M.J. DiNezza, S. Liu, P.A.R.D. Jayathilaka, O.C. Noriega , T.H. Myers,, and Y.- H...Pathiraja A. R. D. Jayathilaka, Odille C. Noriega , Thomas H. Myers, and Yong-Hang Zhang, "Temperature-dependent time-resolved photoluminescence study of...X.-H Zhao, M. J. DiNezza, S. Liu, E. G. LeBlanc, P. Jayathilaka, O. C. Noriega , T. H. Myers, and Y.-H. Zhang, "CdTe/MgCdTe Double Heterostructures
Quick, Matthias; Winther, Anne-Marie Lund; Shi, Lei; Nissen, Poul; Weinstein, Harel; Javitch, Jonathan A
2009-04-07
The first crystal structure of the neurotransmitter/sodium symporter homolog LeuT revealed an occluded binding pocket containing leucine and 2 Na(+); later structures showed tricyclic antidepressants (TCAs) in an extracellular vestibule approximately 11 A above the bound leucine and 2 Na(+). We recently found this region to be a second binding (S2) site and that binding of substrate to this site triggers Na(+)-coupled substrate symport. Here, we show a profound inhibitory effect of n-octyl-beta-d-glucopyranoside (OG), the detergent used for LeuT crystallization, on substrate binding to the S2 site. In parallel, we determined at 2.8 A the structure of LeuT-E290S, a mutant that, like LeuT-WT, binds 2 substrate molecules. This structure was similar to that of WT and clearly revealed an OG molecule in the S2 site. We also observed electron density at the S2 site in LeuT-WT crystals, and this also was accounted for by an OG molecule in that site. Computational analyses, based on the available crystal structures of LeuT, indicated the nature of structural arrangements in the extracellular region of LeuT that differentiate the actions of substrates from inhibitors bound in the S2 site. We conclude that the current LeuT crystal structures, all of which have been solved in OG, represent functionally blocked forms of the transporter, whereas a substrate bound in the S2 site will promote a different state that is essential for Na(+)-coupled symport.
Zhang, Jiqiang; Zheng, Ping; Zhang, Meng; Chen, Hui; Chen, Tingting; Xie, Zuofu; Cai, Jing; Abbas, Ghulam
2013-12-01
Effect of substrate concentration on substrate degradation and electricity generation in anodic denitrification microbial fuel cell (AD-MFC) was investigated over a broad range of substrate concentrations. Substrate degradation rates and power generation could be promoted with increasing substrate concentration in a certain range, but both of them would be inhibited at high substrate concentrations. Maximum denitrification rate of 1.26 ± 0.01 kg NO(-)-N/m(3)d and maximum output voltage of 1016.75 ± 4.74 mV could be achieved when initial NO3(-)-N concentration was 1999.95 ± 2.86 mg/L. Based on Han-Levenspiel model, kinetics of substrate degradation and power generation in the AD-MFC were established. According to the kinetic model, the half-saturation coefficient and the critical inhibitory concentration for nitrate were more than 200 and 4300 mg/L, respectively. The results demonstrated that AD-MFC was capable of treating nitrate-containing wastewater and generating electricity simultaneously, and tolerant to high strength nitrate-containing wastewater.
Quick, Matthias; Winther, Anne-Marie Lund; Shi, Lei; Nissen, Poul; Weinstein, Harel; Javitch, Jonathan A.
2009-01-01
The first crystal structure of the neurotransmitter/sodium symporter homolog LeuT revealed an occluded binding pocket containing leucine and 2 Na+; later structures showed tricyclic antidepressants (TCAs) in an extracellular vestibule ≈11 Å above the bound leucine and 2 Na+. We recently found this region to be a second binding (S2) site and that binding of substrate to this site triggers Na+-coupled substrate symport. Here, we show a profound inhibitory effect of n-octyl-β-d-glucopyranoside (...
Quick, Matthias; Winther, Anne-Marie Lund; Shi, Lei; Nissen, Poul; Weinstein, Harel; Javitch, Jonathan A.
2009-01-01
The first crystal structure of the neurotransmitter/sodium symporter homolog LeuT revealed an occluded binding pocket containing leucine and 2 Na+; later structures showed tricyclic antidepressants (TCAs) in an extracellular vestibule ≈11 Å above the bound leucine and 2 Na+. We recently found this region to be a second binding (S2) site and that binding of substrate to this site triggers Na+-coupled substrate symport. Here, we show a profound inhibitory effect of n-octyl-β-d-glucopyranoside (...
Shi, Kun; Houston, Douglas R; Berghuis, Albert M
2011-07-19
Aminoglycoside 2''-phosphotransferase IVa [APH(2'')-IVa] is a member of a family of bacterial enzymes responsible for medically relevant resistance to antibiotics. APH(2'')-IVa confers high-level resistance against several clinically used aminoglycoside antibiotics in various pathogenic Enterococcus species by phosphorylating the drug, thereby preventing it from binding to its ribosomal target and producing a bactericidal effect. We describe here three crystal structures of APH(2'')-IVa, one in its apo form and two in complex with a bound antibiotic, tobramycin and kanamycin A. The apo structure was refined to a resolution of 2.05 Å, and the APH(2'')-IVa structures with tobramycin and kanamycin A bound were refined to resolutions of 1.80 and 2.15 Å, respectively. Comparison among the structures provides insight concerning the substrate selectivity of this enzyme. In particular, conformational changes upon substrate binding, involving rotational shifts of two distinct segments of the enzyme, are observed. These substrate-induced shifts may also rationalize the altered substrate preference of APH(2'')-IVa in comparison to those of other members of the APH(2'') subfamily, which are structurally closely related. Finally, analysis of the interactions between the enzyme and aminoglycoside reveals a distinct binding mode as compared to the intended ribosomal target. The differences in the pattern of interactions can be utilized as a structural basis for the development of improved aminoglycosides that are not susceptible to these resistance factors.
Lee, Byoung-Sun; Park, Boongik; Yang, Ho-Sung; Han, Jin Woo; Choong, Chweelin; Bae, Jihyun; Lee, Kihwan; Yu, Woong-Ryeol; Jeong, Unyong; Chung, U-In; Park, Jong-Jin; Kim, Ohyun
2014-03-12
We report the effects of various substrates and substrate thicknesses on electrospun poly(vinylidene fluoride) (PVDF)-nanofiber-based energy harvesters. The electrospun PVDF nanofibers showed an average diameter of 84.6 ± 23.5 nm. A high relative β-phase fraction (85.2%) was achieved by applying high voltage during electrospinning. The prepared PVDF nanofibers thus generated considerable piezoelectric potential in accordance with the sound-driven mechanical vibrations of the substrates. Slide glass, poly(ethylene terephthalate), poly(ethylene naphthalate), and paper substrates were used to investigate the effects of the intrinsic and extrinsic substrate properties on the piezoelectricity of the energy harvesters. The thinnest paper substrate (66 μm) with a moderate Young's modulus showed the highest voltage output (0.4885 V). We used high-performance 76, 66, and 33 μm thick papers to determine the effect of paper thickness on the output voltage. The thinnest paper substrate resulted in the highest voltage output (0.7781 V), and the numerical analyses of the sound-driven mechanical deformation strongly support the hypothesis that substrate thickness has a considerable effect on piezoelectric performance.
Califano, Joseph P; Reinhart-King, Cynthia A
2009-01-01
While the growth factors and cytokines known to influence angiogenesis and vasculogenesis have garnered widespread attention, less is known about how the mechanical environment affects blood vessel formation and cell assembly. In this study, we investigate the relationship between substrate elasticity, endothelial cell-cell connectivity and traction force generation. We find that on more compliant substrates, endothelial cells self-assemble into network-like structures independently of additional exogenous growth factors or cytokines. These networks form from the assembly of sub-confluent endothelial cells on compliant (E = 200-1000Pa) substrates, and results from both the proliferation and migration of endothelial cells. Interestingly, stabilization of these cell-cell connections and networks requires fibronectin polymerization. Traction Force Microscopy measurements indicate that individual endothelial cells on compliant substrates exert forces which create substrate stains that propagate from the cell edge. We speculate that these strains draw the cells together and initiate self-assembly. Notably, endothelial cell network formation on compliant substrates is dynamic and transient; as cell number and substrate strains increase, the networks fill in through collective cell movements from the network edges. Our results indicate that network formation is mediated in part by substrate mechanics and that cellular traction force may promote cell-cell assembly by directing cell migration.
Lee, H.; Angus, R. H.; Storer, A. C.; Carey, P. R.
1989-12-01
Resonance Raman (RR) spectroscopy is used to probe the structure of the substrate in the substrate-enzyme complex N-pentafluorobenzoyl) glycine (dithioacyl) papain (C 6F 5C(=O) NHCH 2C(=S)S-papain). This system was chosen since the high electron withdrawing capacity of the C 6F 5 group markedly affects electron density of the -NH- moiety which, in turn, is known to change catalytic activity. The RR spectrum of the enzyme-substrate complex is interpreted by reference to the model compound N-(pentafluorobenzoyl) glycine ethyl dithioester (C 6F 5(CO))NHCH 2C(=S)SC 2H 5. The RR spectra of this compound in aqueous or organic solvents can be understood in terms of the known conformational states of N-acylglycine dithioesters. Comparison of model with enzyme-substrate RR spectra shows that the substrate is binding in the active site in a conformer known as conformer B characterized by a small-NHCH 2CS(thiol) torsional angle and close N-to-S (thiol) contact. Kinetic rate-structure correlations are developed involving k3, the rate constant for deacylation, and the strength of the N-to-S (thiol) interaction. N-(Pentafluorobenzoyl) glycine dithioacyl papain fits the rate-structure correlation whereas the corresponding pentafluorobenzoyl glycine thiol intermediate does not. It is proposed that the difference in the size of the CS compared to the CO group brings about a small change in the dithioacyl papain compared to the thiolacyl papain conformation such that enzyme-substrate contacts involving ortho and meta F atoms in the thiol acyl enzyme case are weakened or removed in the case of the dithioacyl papain.
Substrates and pathway of electricity generation in a nitrification-based microbial fuel cell.
Chen, Hui; Zheng, Ping; Zhang, Jiqiang; Xie, Zuofu; Ji, Junyuan; Ghulam, Abbas
2014-06-01
Nitrification-based microbial fuel cell (N-MFC) is a novel inorganic microbial fuel cell based on nitrification in the anode compartment. So far, little information is available on the substrates and pathway of N-MFC. The results of this study indicated that apart from the primary nitrification substrate (ammonium), the intermediates (hydroxylamine and nitrite) could also serve as anodic fuel to generate current, and the end product nitrate showed an inhibitory effect on electricity generation. Based on the research, a pathway of electricity generation was proposed for N-MFC: ammonium was oxidized first to nitrite by ammonia-oxidizing bacteria (AOB), then the nitrite in anolyte and the potassium permanganate in catholyte constituted a chemical cell to generate current. In other words, the electricity generation in N-MFC was not only supported by microbial reaction as we expected, but both biological and electrochemical reactions contributed.
Generation of self-clusters of galectin-1 in the farnesyl-bound form
Yamaguchi, Kazumi; Niwa, Yusuke; Nakabayashi, Takakazu; Hiramatsu, Hirotsugu
2016-09-01
Ras protein is involved in a signal transduction cascade in cell growth, and cluster formation of H-Ras and human galectin-1 (Gal-1) complex is considered to be crucial to achieve its physiological roles. It is considered that the complex is formed through interactions between Gal-1 and the farnesyl group (farnesyl-dependent model), post-translationally modified to the C-terminal Cys, of H-Ras. We investigated the role of farnesyl-bound Gal-1 in the cluster formation by analyzing the structure and properties of Gal-1 bound to farnesyl thiosalicylic acid (FTS), a competitive inhibitor of the binding of H-Ras to Gal-1. Gal-1 exhibited self-cluster formation upon interaction with FTS, and small- and large-size clusters were formed depending on FTS concentration. The galactoside-binding pocket of Gal-1 in the FTS-bound form was found to play an important role in small-size cluster formation. Large-size clusters were likely formed by the interaction among the hydrophobic sites of Gal-1 in the FTS-bound form. The present results indicate that Gal-1 in the FTS-bound form has the ability to form self-clusters as well as intrinsic lectin activity. Relevance of the self-clustering of FTS-bound Gal-1 to the cluster formation of the H-Ras-Gal-1complex was discussed by taking account of the farnesyl-dependent model and another (Raf-dependent) model.
Katsuki, Kiyoi; Bekku, Hiroshi; Kawakami, Akira; Locklin, Jason; Patton, Derek; Tanaka, Kuniaki; Advincula, Rigoberto; Usui, Hiroaki
2005-01-01
Vinyl polymer thin films having carbazole units were prepared by a new method combining physical vapor deposition and self-assembled monolayer (SAM) techniques. 3-(N-carbazolyl)propyl acrylate monomer was evaporated onto a gold substrate that had a VAZO 56 (DuPont) initiator attached as a SAM. The VAZO initiator was activated by irradiating ultraviolet light after depositing the monomer. Although the polymerization reaction can proceed even without the surface initiator, the SAM was effective in improving the surface smoothness, thermal stability, and film-substrate adhesion as a consequence of the formation of covalent chemical bonds between the film and the substrate. Thermal activation of the initiator was examined for the deposition polymerization of 9-H-carbazole-9-ethylmethacryrate. Substrate heating during the evaporation was not effective for accumulating thin films. On the other hand, performing postdeposition annealing on the film after deposition at room temperature resulted in the formation of a polymer thin film chemically bound to the substrate.
Savostianova, N A
2016-01-01
Graphene is a nonlinear material which can be used as a saturable absorber, frequency mixer and frequency multiplier. We investigate the third harmonic generation from graphene lying on different substrates, consisting of a dielectric (dispersionless or polar), metalized or non-metalized on the back side. We show that the third harmonic intensity emitted from graphene lying on a substrate, can be increased by orders of magnitude as compared to the isolated graphene, due the LO-phonon resonances in a polar dielectric or due to the interference effects in the substrates metalized on the back side. In some frequency intervals, the presence of the polar dielectric substrate compensates the strongly decreasing with $\\omega$ frequency dependence of the third-order conductivity of graphene making the response almost frequency independent.
Perez, Camilo; Faust, Belinda; Mehdipour, Ahmad Reza; Francesconi, Kevin A.; Forrest, Lucy R.; Ziegler, Christine
2014-07-01
The Na+-coupled betaine symporter BetP shares a highly conserved fold with other sequence unrelated secondary transporters, for example, with neurotransmitter symporters. Recently, we obtained atomic structures of BetP in distinct conformational states, which elucidated parts of its alternating-access mechanism. Here, we report a structure of BetP in a new outward-open state in complex with an anomalous scattering substrate, adding a fundamental piece to an unprecedented set of structural snapshots for a secondary transporter. In combination with molecular dynamics simulations these structural data highlight important features of the sequential formation of the substrate and sodium-binding sites, in which coordinating water molecules play a crucial role. We observe a strictly interdependent binding of betaine and sodium ions during the coupling process. All three sites undergo progressive reshaping and dehydration during the alternating-access cycle, with the most optimal coordination of all substrates found in the closed state.
Syvitski, Ray T; Li, Yiming; Auclair, Karine; Ortiz De Montellano, Paul R; La Mar, Gerd N
2002-12-04
Solution 1H NMR is used to probe the environments of the donor protons of eight strong hydrogen bonds on the distal side of the heme substrate in the cyanide-inhibited, substrate-bound complex of human heme oxygenase, hHO. It is demonstrated that significant magnetization transfer from the bulk water signal to the eight labile protons does not result from chemical exchange, but from direct nuclear Overhauser effect due to the dipolar interaction of these labile protons with "ordered" water molecules. The enzyme labile proton to water proton distances are estimated at approximately 3 A. It is proposed that the role of the strong hydrogen-bonding network is to immobilize numerous water molecules which both stabilize the activated hydroperoxy species and funnel protons to the active site.
Directory of Open Access Journals (Sweden)
Dirk Cannon
2017-06-01
Full Text Available State-of-the-art wind power forecasts beyond a few hours ahead rely on global numerical weather prediction models to forecast the future large-scale atmospheric state. Often they provide initial and boundary conditions for nested high resolution simulations. In this paper, both upper and lower bounds on forecast range are identified within which global ensemble forecasts provide skilful information for system-wide wind power applications. An upper bound on forecast range is associated with the limit of predictability, beyond which forecasts have no more skill than predictions based on climatological statistics. A lower bound is defined at the lead time beyond which the resolved uncertainty associated with estimating the future large-scale atmospheric state is larger than the unresolved uncertainty associated with estimating the system-wide wind power response to a given large-scale state.The bounds of skilful ensemble forecast range are quantified for three leading global forecast systems. The power system of Great Britain (GB is used as an example because independent verifying data is available from National Grid. The upper bound defined by forecasts of GB-total wind power generation at a specific point in time is found to be 6–8 days. The lower bound is found to be 1.4–2.4 days. Both bounds depend on the global forecast system and vary seasonally. In addition, forecasts of the probability of an extreme power ramp event were found to possess a shorter limit of predictability (4.5–5.5 days. The upper bound on this forecast range can only be extended by improving the global forecast system (outside the control of most users or by changing the metric used in the probability forecast. Improved downscaling and microscale modelling of the wind farm response may act to decrease the lower bound. The potential gain from such improvements have diminishing returns beyond the short-range (out to around 2 days.
NADH-generating substrates reduce peroxyl radical toxicity in RL-34 cells.
Antosiewicz, J; Spodnik, J H; Teranishi, M; Herman-Antosiewicz, A; Kurono, Ch; Soji, T; Woźniak, M; Borkowska, A; Wakabayashi, T
2009-11-01
There is general agreement that oxidative stress may induce apoptotic and necrotic cell death. Recently it has been shown that NADH can be considered an important antioxidant as it reacts with peroxyl and alkoxyl radicals under in vitro conditions. Therefore, in the present study we hypothesized that an increase in intracellular NADH using specific substrates will protect RL-34 cells against cytotoxicity of 2'-azobis (2-amidinopropane) dihydrochloride (AAPH), which is a peroxyl radical generating compound. Cells treated for 24 hours with 6.0 mM AAPH were severely damaged: mitochondria were vacuolated, and the level of free radicals significantly increased. Both apoptotic and necrotic cells were detected (11.1% and 11.4%, respectively) even after 5 hours of treatment. Pretreatment of the cells with substrates which increase the intracellular level of NADH, such as lactate, beta-hydroxybutyrate, and ethanol, distinctly inhibited AAPH-induced reactive oxygen species (ROS) formation and cell death. On the other hand, acetoacetate (AcA), which decrease the intracellular level of NADH, had opposite effects. Interestingly, NADH-generating substrates augment, while AcA reduced superoxide radical formation induced by AAPH. These results may suggest that although NADH generating substrates may exert some deleterious effects within a cell by inducing reductive stress, they diminish alkoxyl or peroxyl radical cytotoxicity. The protection is associated with a decrease in ROS formation measured by dichlorofluorescein, but with an increase in superoxide radical formation.
Sun, Hong-xiang; Zhang, Shu-yi; Xia, Jian-ping
2015-06-01
The propagation characteristics of laser-generated Rayleigh waves in coating-substrate structures with anisotropic and viscoelastic properties have been investigated quantitatively. Based on the plane strain theory, finite element models for simulating laser-generated Rayleigh waves in coating-substrate structures are established, in which the carbon fiber-reinforced epoxy matrix composite and aluminum are used as the coating and/or the substrate alternately. The numerical results exhibit that the characteristics of the laser-generated Rayleigh waves, including attenuation, velocity, and dispersion, are mainly and closely related to the anisotropic and viscoelastic properties of the composite in the coating-substrate structures.
Neurochemical substrates and neuroanatomical generators of the event-related P300
Frodl-Bauch, Thomas; Bottlender, Ronald; Hegerl, Ulrich
1999-01-01
The present review focuses on the current knowledge of the neurochemical processes and neuronal structures involved in the generation of P300. The increasing knowledge in this area facilitates the physiological interpretation of P300 findings as well as the link between P300 research and other research findings in biological psychiatry. Concerning the question of neurochemical substrates, the glutamatergic, GABAergic, cholinergic, noradrenergic, dopaminergic and serotonergic influences on P30...
A simple biosynthetic pathway for large product generation from small substrate amounts
Djordjevic, Marko; Djordjevic, Magdalena
2012-10-01
A recently emerging discipline of synthetic biology has the aim of constructing new biosynthetic pathways with useful biological functions. A major application of these pathways is generating a large amount of the desired product. However, toxicity due to the possible presence of toxic precursors is one of the main problems for such production. We consider here the problem of generating a large amount of product from a potentially toxic substrate. To address this, we propose a simple biosynthetic pathway, which can be induced in order to produce a large number of the product molecules, by keeping the substrate amount at low levels. Surprisingly, we show that the large product generation crucially depends on fast non-specific degradation of the substrate molecules. We derive an optimal induction strategy, which allows as much as three orders of magnitude increase in the product amount through biologically realistic parameter values. We point to a recently discovered bacterial immune system (CRISPR/Cas in E. coli) as a putative example of the pathway analysed here. We also argue that the scheme proposed here can be used not only as a stand-alone pathway, but also as a strategy to produce a large amount of the desired molecules with small perturbations of endogenous biosynthetic pathways.
Groups in Which 2-Generator Subgroups Are Nilpotent of Bounded Class
Institute of Scientific and Technical Information of China (English)
Costantino Delizia
2001-01-01
In this paper, we study some properties of groups in which subgroups with a fixed number of generators are nilpotent. In particular, we discuss nilpotency of torsion-free groups in which 2-generator subgroups are nilpotent of class at most 4.
Energy Technology Data Exchange (ETDEWEB)
Barta, Michael L.; Skaff, D. Andrew; McWhorter, William J.; Herdendorf, Timothy J.; Miziorko, Henry M.; Geisbrecht, Brian V. (UMKC)
2011-10-28
The polyisoprenoid compound undecaprenyl phosphate is required for biosynthesis of cell wall peptidoglycans in Gram-positive bacteria, including pathogenic Enterococcus, Streptococcus, and Staphylococcus spp. In these organisms, the mevalonate pathway is used to produce the precursor isoprenoid, isopentenyl 5-diphosphate. Mevalonate diphosphate decarboxylase (MDD) catalyzes formation of isopentenyl 5-diphosphate in an ATP-dependent irreversible reaction and is therefore an attractive target for inhibitor development that could lead to new antimicrobial agents. To facilitate exploration of this possibility, we report the crystal structure of Staphylococcus epidermidis MDD (1.85 {angstrom} resolution) and, to the best of our knowledge, the first structures of liganded MDD. These structures include MDD bound to the mevalonate 5-diphosphate analogs diphosphoglycolyl proline (2.05 {angstrom} resolution) and 6-fluoromevalonate diphosphate (FMVAPP; 2.2 {angstrom} resolution). Comparison of these structures provides a physical basis for the significant differences in K{sub i} values observed for these inhibitors. Inspection of enzyme/inhibitor structures identified the side chain of invariant Ser{sup 192} as making potential contributions to catalysis. Significantly, Ser {yields} Ala substitution of this side chain decreases k{sub cat} by {approx}10{sup 3}-fold, even though binding interactions between FMVAPP and this mutant are similar to those observed with wild type MDD, as judged by the 2.1 {angstrom} cocrystal structure of S192A with FMVAPP. Comparison of microbial MDD structures with those of mammalian counterparts reveals potential targets at the active site periphery that may be exploited to selectively target the microbial enzymes. These studies provide a structural basis for previous observations regarding the MDD mechanism and inform future work toward rational inhibitor design.
DEFF Research Database (Denmark)
Sun, Guotao; Thygesen, Anders; Meyer, Anne S.
2016-01-01
responses to substrate loading rates and external resistance. At the lowest external resistance of 27 and highest substrate loading rate of 2 g chemical oxygen demand (COD) per Lday, FeC-MFC generated highest average current density (1630 mA/m(2)) followed by AiC-MFC (802 mA/m(2)) and DOC-MFC (184 mA/m(2......)). Electrochemical impedance spectroscopy (EIS) was used to determine the impedance of the cathodes. It was thereby confirmed that the FeC-MFC produced the highest current density with the lowest internal resistance for the cathode. However, in a setup using bioethanol effluent, the AiC-MFC was concluded...
Jump-type Hunt processes generated by lower bounded semi-Dirichlet forms
Fukushima, Masatoshi; 10.1214/10-AOP633
2012-01-01
Let $E$ be a locally compact separable metric space and $m$ be a positive Radon measure on it. Given a nonnegative function $k$ defined on $E\\times E$ off the diagonal whose anti-symmetric part is assumed to be less singular than the symmetric part, we construct an associated regular lower bounded semi-Dirichlet form $\\eta$ on $L^2(E;m)$ producing a Hunt process $X^0$ on $E$ whose jump behaviours are governed by $k$. For an arbitrary open subset $D\\subset E$, we also construct a Hunt process $X^{D,0}$ on $D$ in an analogous manner. When $D$ is relatively compact, we show that $X^{D,0}$ is censored in the sense that it admits no killing inside $D$ and killed only when the path approaches to the boundary. When $E$ is a $d$-dimensional Euclidean space and $m$ is the Lebesgue measure, a typical example of $X^0$ is the stable-like process that will be also identified with the solution of a martingale problem up to an $\\eta$-polar set of starting points. Approachability to the boundary $\\partial D$ in finite time o...
Ducassou, Lionel; Dhers, Laura; Jonasson, Gabriella; Pietrancosta, Nicolas; Boucher, Jean-Luc; Mansuy, Daniel; André, François
2017-09-01
Human cytochrome P450 2U1 (CYP2U1) is an orphan CYP that exhibits several distinctive characteristics among the 57 human CYPs with a highly conserved sequence in almost all living organisms. We compared its protein sequence with those of the 57 human CYPs and constructed a 3D structure of a full-length CYP2U1 model bound to a POPC membrane. We also performed docking experiments of arachidonic acid (AA) and N-arachidonoylserotonin (AS) in this model. The protein sequence of CYP2U1 displayed two unique characteristics when compared to those of the human CYPs, the presence of a longer N-terminal region upstream of the putative trans-membrane helix (TMH) containing 8 proline residues, and of an insert of about 20 amino acids containing 5 arginine residues between helices A' and A. Its N-terminal part upstream of TMH involved an additional short terminal helix, in a manner similar to what was reported in the crystal structure of Saccharomyces cerevisiae CYP51. Our model also showed a specific interaction between the charged residues of insert AA' and phosphate groups of lipid polar heads, suggesting a possible role of this insert in substrate recruitment. Docking of AA and AS in this model showed these substrates in channel 2ac, with the terminal alkyl chain of AA or the indole ring of AS close to the heme, in agreement with the reported CYP2U1-catalyzed AA and AS hydroxylation regioselectivities. This model should be useful to find new endogenous or exogenous CYP2U1 substrates and to interpret the regioselectivity of their hydroxylation. Copyright © 2017 Elsevier B.V. and Société Française de Biochimie et Biologie Moléculaire (SFBBM). All rights reserved.
Identification and tracking of hairpin vortex auto-generation in turbulent wall-bounded flow
Huang, Yangzi; Green, Melissa
2016-11-01
Hairpin vortices have been widely accepted as component structures of turbulent boundary layers. Their properties (size, vorticity, energy) and dynamic phenomena (origin, growth, breakdown) have been shown to correlate to the complex, multi-scaled turbulent motions observed in both experiments and simulations. As established in the literature, the passage of a hairpin vortex creates a wall-normal ejection of fluid, which encounters the high-speed freestream resulting in near-wall shear and increased drag. A previously generated simulation of an isolated hairpin vortex is used to study the auto-generation of a secondary vortex structure. Eulerian methods such as the Q criterion and Γ2 function, as well as Lagrangian methods are used to visualize the three-dimensional hairpin vortices and the auto-generation process. The circulation development and wall-normal location of both primary and secondary hairpin heads are studied to determine if there is a correlation between the strength and height of the primary hairpin vortex with the secondary hairpin vortex auto-generation.
Min, Booki; Logan, Bruce E
2004-11-01
A microbial fuel cell (MFC) is a device that converts organic matter to electricity using microorganisms as the biocatalyst. Most MFCs contain two electrodes separated into one or two chambers that are operated as a completely mixed reactor. In this study, a flat plate MFC (FPMFC) was designed to operate as a plug flow reactor (no mixing) using a combined electrode/proton exchange membrane (PEM) system. The reactor consisted of a single channel formed between two nonconductive plates that were separated into two halves by the electrode/PEM assembly. Each electrode was placed on an opposite side of the PEM, with the anode facing the chamber containing the liquid phase and the cathode facing a chamber containing only air. Electricity generation using the FPMFC was examined by continuously feeding a solution containing wastewater, or a specific substrate, into the anode chamber. The system was initially acclimated for 1 month using domestic wastewater orwastewater enriched with a specific substrate such as acetate. Average power density using only domestic wastewater was 72+/-1 mW/m2 at a liquid flow rate of 0.39 mL/min [42% COD (chemical oxygen demand) removal, 1.1 h HRT (hydraulic retention time)]. At a longer HRT = 4.0 h, there was 79% COD removal and an average power density of 43+/-1 mW/m2. Power output was found to be a function of wastewater strength according to a Monod-type relationship, with a half-saturation constant of Ks = 461 or 719 mg COD/L. Power generation was sustained at high rates with several organic substrates (all at approximately 1000 mg COD/L), including glucose (212+/-2 mW/ m2), acetate (286+/-3 mW/m2), butyrate (220+/-1 mW/ m2), dextran (150+/-1 mW/m2), and starch (242+/-3 mW/ m2). These results demonstrate the versatility of power generation in a MFC with a variety of organic substrates and show that power can be generated at a high rate in a continuous flow reactor system.
Joanne Wang, C; Li, Xiong; Lin, Benjamin; Shim, Sangwoo; Ming, Guo-Li; Levchenko, Andre
2008-02-01
Neuronal growth cones contain sophisticated molecular machinery precisely regulating their migration in response to complex combinatorial gradients of diverse external cues. The details of this regulation are still largely unknown, in part due to limitations of the currently available experimental techniques. Microfluidic devices have been shown to be capable of generating complex, stable and precisely controlled chemical gradients, but their use in studying growth cone migration has been limited in part due to the effects of shear stress. Here we describe a microfluidics-based turning-assay chip designed to overcome this issue. In addition to generating precise gradients of soluble guidance cues, the chip can also fabricate complex composite gradients of diffusible and surface-bound guidance cues that mimic the conditions the growth cones realistically counter in vivo. Applying this assay to Xenopus embryonic spinal neurons, we demonstrate that the presence of a surface-bound laminin gradient can finely tune the polarity of growth cone responses (repulsion or attraction) to gradients of brain-derived neurotrophic factor (BDNF), with the guidance outcome dependent on the mean BDNF concentration. The flexibility inherent in this assay holds significant potential for refinement of our understanding of nervous system development and regeneration, and can be extended to elucidate other cellular processes involving chemotaxis of shear sensitive cells.
Directory of Open Access Journals (Sweden)
Laurie B. Hazeltine
2012-01-01
Full Text Available Human pluripotent stem cell (hPSC- derived cardiomyocytes have potential applications in drug discovery, toxicity testing, developmental studies, and regenerative medicine. Before these cells can be reliably utilized, characterization of their functionality is required to establish their similarity to native cardiomyocytes. We tracked fluorescent beads embedded in 4.4–99.7 kPa polyacrylamide hydrogels beneath contracting neonatal rat cardiomyocytes and cardiomyocytes generated from hPSCs via growth-factor-induced directed differentiation to measure contractile output in response to changes in substrate mechanics. Contraction stress was determined using traction force microscopy, and morphology was characterized by immunocytochemistry for α-actinin and subsequent image analysis. We found that contraction stress of all types of cardiomyocytes increased with substrate stiffness. This effect was not linked to beating rate or morphology. We demonstrated that hPSC-derived cardiomyocyte contractility responded appropriately to isoprenaline and remained stable in culture over a period of 2 months. This study demonstrates that hPSC-derived cardiomyocytes have appropriate functional responses to substrate stiffness and to a pharmaceutical agent, which motivates their use in further applications such as drug evaluation and cardiac therapies.
Martin-Lopez, Sonia; Abrardi, Laura; Corredera, Pedro; Gonzalez-Herraez, Miguel; Mussot, Arnaud
2008-04-28
A common issue in fiber-based supercontinuum (SC) generation under continuous-wave pumping is that the spectral width of the resulting source is related to the input power of the pump laser used. An increase of the input pump power leads to an increase of the spectral width obtained at the fiber output, and therefore, the average power spectral density (APSD) over the SC spectrum does not grow according to the input power. For some applications it would be desired to have a fixed spectral width in the SC and to increase the average PSD proportionally to the input pump power. In this paper we demonstrate experimentally that SC generation under continuous-wave (CW) pumping can be spectrally bounded by using a fiber with two zero-dispersion wavelengths (ZDWs). Beyond a certain pump power, the spectral width of the SC source remains fixed, and the APSD of the SC grows with the pump power. In our experiment we generate a reasonably flat, spectrally-bounded SC spanning from 1550 nm to 1700 nm. The spectra l width of the source is shown to be constant between 3 and 6 W of pump power. Over this range, the increase in input power is directly translated in an increase in the output APSD. The experimental results are confirmed by numerical simulations, which also highlight the sensitivity of this configuration to variations in the fiber dispersion curve. We believe that these results open the way for tailoring the spectral width of high-APSD CW SC by adjusting the fiber dispersion.
Titomir, L I; Barinova, N E
2001-01-01
Using the equations of electrodynamics of stationary currents, relationships were derived for calculating the characteristics of electric and magnetic fields of an elementary (dipole) bioelectric generator in a heterogeneous medium consisting of two regions namely, an anisotropic conducting region corresponding to the excitable myocardium tissue and an isotropic conducting or dielectric region corresponding to the space outside the myocardium where the measurement is made. The shape of distributions of the electric potential and magnetic induction at the myocardium surface was determined, and the effect of anisotropy on these distributions was estimate. Formulas for the identification of the local excited zone within the myocardium from electric and magnetic measurements outside the excitable tissue or on its surface were obtained.
Magnetic loop generation by collisionless gravitationally bound plasmas in axisymmetric tori.
Cremaschini, Claudio; Stuchlík, Zdeněk
2013-04-01
Current-carrying string loops are adopted in astrophysics to model the dynamics of isolated flux tubes of magnetized plasma expected to arise in the gravitational field of compact objects, such as black holes. Recent studies suggest that they could provide a framework for the acceleration and collimation of jets of plasma observed in these systems. However, the problem remains of the search of physical mechanisms which can consistently explain the occurrence of such plasma toroidal structures characterized by nonvanishing charge currents and are able to self-generate magnetic loops. In this paper, the problem is addressed in the context of Vlasov-Maxwell theory for nonrelativistic collisionless plasmas subject to both gravitational and electromagnetic fields. A kinetic treatment of quasistationary axisymmetric configurations of charged particles exhibiting epicyclic motion is obtained. Explicit solutions for the species equilibrium phase-space distribution function are provided. These are shown to have generally a non-Maxwellian character and to be characterized by nonuniform fluid fields and temperature anisotropy. Calculation of the relevant fluid fields and analysis of the Ampere equation then show the existence of nonvanishing current densities. As a consequence, the occurrence of a kinetic dynamo is proved, which can explain the self-generation of both azimuthal and poloidal magnetic fields by the plasma itself. This mechanism can operate in the absence of instabilities, turbulence, or accretion phenomena and is intrinsically kinetic in character. In particular, several kinetic effects contribute to it, identified here with finite Larmor radius, diamagnetic and energy-correction effects together with temperature anisotropy, and non-Maxwellian features of the equilibrium distribution function.
Directory of Open Access Journals (Sweden)
Guotao Sun
2016-05-01
Full Text Available Implementation of microbial fuel cells (MFCs for electricity production requires effective current generation from waste products via robust cathode reduction. Three cathode types using dissolved oxygen cathodes (DOCs, ferricyanide cathodes (FeCs and air cathodes (AiCs were therefore assessed using bioethanol effluent, containing 20.5 g/L xylose, 1.8 g/L arabinose and 2.5 g/L propionic acid. In each set-up the anode and cathode had an electrode surface area of 88 cm2, which was used for calculation of the current density. Electricity generation was evaluated by quantifying current responses to substrate loading rates and external resistance. At the lowest external resistance of 27 Ω and highest substrate loading rate of 2 g chemical oxygen demand (COD per L·day, FeC-MFC generated highest average current density (1630 mA/m2 followed by AiC-MFC (802 mA/m2 and DOC-MFC (184 mA/m2. Electrochemical impedance spectroscopy (EIS was used to determine the impedance of the cathodes. It was thereby confirmed that the FeC-MFC produced the highest current density with the lowest internal resistance for the cathode. However, in a setup using bioethanol effluent, the AiC-MFC was concluded to be the most sustainable option since it does not require ferricyanide. The data offer a new add-on option to the straw biorefinery by using bioethanol effluent for microbial electricity production.
Chan, Albert H; Yi, Sung Wook; Terwilliger, Austen L; Maresso, Anthony W; Jung, Michael E; Clubb, Robert T
2015-10-16
The endospore forming bacterium Bacillus anthracis causes lethal anthrax disease in humans and animals. The ability of this pathogen to replicate within macrophages is dependent upon the display of bacterial surface proteins attached to the cell wall by the B. anthracis Sortase A ((Ba)SrtA) enzyme. Previously, we discovered that the class A (Ba)SrtA sortase contains a unique N-terminal appendage that wraps around the body of the protein to contact the active site of the enzyme. To gain insight into its function, we determined the NMR structure of (Ba)SrtA bound to a LPXTG sorting signal analog. The structure, combined with dynamics, kinetics, and whole cell protein display data suggest that the N terminus modulates substrate access to the enzyme. We propose that it may increase the efficiency of protein display by reducing the unproductive hydrolytic cleavage of enzyme-protein covalent intermediates that form during the cell wall anchoring reaction. Notably, a key active site loop (β7/β8 loop) undergoes a disordered to ordered transition upon binding the sorting signal, potentially facilitating recognition of lipid II.
Directory of Open Access Journals (Sweden)
Chen Yun
2012-07-01
Full Text Available Abstract Background Gain-of-function mutations of tyrosine kinase FLT3 are frequently found in acute myeloid leukemia (AML. This has made FLT3 an important marker for disease diagnosis and a highly attractive target for therapeutic drug development. This study is intended to generate a sensitive substrate for assays of the FLT3 enzymatic activity. Methods We expressed in Escherichia coli cells a glutathione S-transferase (GST fusion protein designated GST-FLT3S, which contains a peptide sequence derived from an autophosphorylation site of FLT3. The protein was used to analyze tyrosine kinase activity of baculovirus-expressed FLT3 and crude cell extracts of bone marrow cells from AML patients. It was also employed to perform FLT3 kinase assays for FLT3 inhibitor screening. Results GST-FLT3S in solution or on beads was strongly phosphorylated by recombinant proteins carrying the catalytic domain of wild type FLT3 and FLT3D835 mutants, with the latter exhibiting much higher activity and efficiency. GST-FLT3S was also able to detect elevated tyrosine kinase activity in bone marrow cell extracts from AML patients. A small-scale inhibitor screening led to identification of several potent inhibitors of wild type and mutant forms of FLT3. Conclusions GST-FLT3S is a sensitive protein substrate for FLT3 assays. It may find applications in diagnosis of diseases related to abnormal FLT3 activity and in inhibitor screening for drug development.
A parallel synthesis scheme for generating libraries of DNA polymerase substrates and inhibitors.
Strobel, Heike; Dugué, Laurence; Marlière, Philippe; Pochet, Sylvie
2002-12-02
We report a combinatorial approach aimed at producing in a single step a large family of nucleoside triphosphate derivatives that could be tested for their ability to be substrates for DNA polymerases. We propose as a unique triphosphate building block a nucleotide with a hydrazine function anchored to an imidazole ring. Condensation between the 5'-triphosphate derivative of 1-(2-deoxy-beta-D-erythro-pentofuranosyl)-imidazole-4-hydrazide (dY(NH(2))TP) and any aldehyde or ketone, followed by reduction of the intermediate hydrazones dXmTP, resulted in the corresponding hydrazides (dXnTP). Following this scheme, a series of aldehydes having various aromatic parts yielded a number of adducts dY(NHR)TP. Vent (exo-) DNA polymerase is found to be able to catalyse the single incorporation of these bulky triphosphate derivatives. Subsequent extensions of the modified pairs with canonical triphosphates resulted mainly in abortive elongations at primer+2, except after the incorporation of dY(NHben)TP and, to a lesser extent, dY(NHphe)TP opposite C. These results illustrate the potential of this parallel synthetic scheme for generating new substrates or inhibitors of replication in a single step.
Mussel- and Diatom-Inspired Micropattern Generation of Silica on a Solid Substrate
Energy Technology Data Exchange (ETDEWEB)
Lee, Jungkyu K. [Kyungpook National Univ., Daegu (Korea, Republic of); Kang, Sung Min [Pukyong National Univ., Busan (Korea, Republic of)
2013-02-15
Biosilicification in diatoms and sponges potentially promises physiological, mild reaction conditions for controlling silica structures at the nanometer scale. Since Sumper et al. had isolated catalytic peptides (i. e., silaffins) from diatoms, a number of polymers bearing tertiary amine or ammonium groups have been used as a counterpart of silaffins to biomimetically synthesize silica structures. We demonstrated a micropattern generation of silica on the solid substrate by a mussel- and diatom-inspired approach combined with a soft lithography. This method shows several advantages to apply for a wide range of materials without harsh reaction conditions. Moreover, it could allow us to give proper functionalities on silica layers via well-defined organosilane chemistry.
Li, Yiming; Syvitski, Ray T; Auclair, Karine; Ortiz de Montellano, Paul; La Mar, Gerd N
2003-11-05
A solution NMR spectroscopic study of the cyanide-inhibited, substrate-bound complex of uniformly (15)N-labeled human heme oxygenase, hHO, has led to characterization of the active site with respect to the nature and identity of strong hydrogen bonds and the occupation of ordered water molecules within both the hydrogen bonding network and an aromatic cluster on the distal side. [(1)H-(15)N]-HSQC spectra confirm the functionalities of several key donors in particularly robust H-bonds, and [(1)H-(15)N]HSQC-NOESY spectra lead to the identification of three additional robust H-bonds, as well as the detection of two more relatively strong H-bonds whose identities could not be established. The 3D NMR experiments provided only a modest, but important, extension of assignments because of the loss of key TOCSY cross-peaks due to the line broadening from a dynamic heterogeneity in the active site. Steady-state NOEs upon saturating the water signal locate nine ordered water molecules in the immediate vicinity of the H-bond donors, six of which are readily identified in the crystal structure. The additional three are positioned in available spaces to account for the observed NOEs. (15)N-filtered steady-state NOEs upon saturating the water resonances and (15)N-filtered NOESY spectra demonstrate significant negative NOEs between water molecules and the protons of five aromatic rings. Many of the NOEs can be rationalized by water molecules located in the crystal structure, but strong water NOEs, particularly to the rings of Phe47 and Trp96, demand the presence of at least an additional two immobilized water molecules near these rings. The H-bond network appears to function to order water molecules to provide stabilization for the hydroperoxy intermediate and to serve as a conduit to the active site for the nine protons required per HO turnover.
Unno, Masaki; Ardèvol, Albert; Rovira, Carme; Ikeda-Saito, Masao
2013-11-29
Heme oxygenase catalyzes the degradation of heme to biliverdin, iron, and carbon monoxide. Here, we present crystal structures of the substrate-free, Fe(3+)-biliverdin-bound, and biliverdin-bound forms of HmuO, a heme oxygenase from Corynebacterium diphtheriae, refined to 1.80, 1.90, and 1.85 Å resolution, respectively. In the substrate-free structure, the proximal and distal helices, which tightly bracket the substrate heme in the substrate-bound heme complex, move apart, and the proximal helix is partially unwound. These features are supported by the molecular dynamic simulations. The structure implies that the heme binding fixes the enzyme active site structure, including the water hydrogen bond network critical for heme degradation. The biliverdin groups assume the helical conformation and are located in the heme pocket in the crystal structures of the Fe(3+)-biliverdin-bound and the biliverdin-bound HmuO, prepared by in situ heme oxygenase reaction from the heme complex crystals. The proximal His serves as the Fe(3+)-biliverdin axial ligand in the former complex and forms a hydrogen bond through a bridging water molecule with the biliverdin pyrrole nitrogen atoms in the latter complex. In both structures, salt bridges between one of the biliverdin propionate groups and the Arg and Lys residues further stabilize biliverdin at the HmuO heme pocket. Additionally, the crystal structure of a mixture of two intermediates between the Fe(3+)-biliverdin and biliverdin complexes has been determined at 1.70 Å resolution, implying a possible route for iron exit.
Yang, Xiang I A; Marusic, Ivan; Biferale, Luca
2016-01-01
In wall-bounded turbulence, the moment generating functions (MGFs) of the streamwise velocity fluctuations $\\left$ develop power-law scaling as a function of the wall normal distance $z/\\delta$. Here $u$ is the streamwise velocity fluctuation, $+$ indicates normalization in wall units (averaged friction velocity), $z$ is the distance from the wall, $q$ is an independent variable and $\\delta$ is the boundary layer thickness. Previous work has shown that this power-law scaling exists in the log-region {\\small $3Re_\\tau^{0.5}\\lesssim z^+$, $z\\lesssim 0.15\\delta$}, where $Re_\\tau$ is the friction velocity-based Reynolds numbers. Here we present empirical evidence that this self-similar scaling can be extended, including bulk and viscosity-affected regions $30
Micropunching lithography for generating micro- and submicron-patterns on polymer substrates.
Chakraborty, Anirban; Liu, Xinchuan; Luo, Cheng
2012-07-02
Conducting polymers have attracted great attention since the discovery of high conductivity in doped polyacetylene in 1977(1). They offer the advantages of low weight, easy tailoring of properties and a wide spectrum of applications(2,3). Due to sensitivity of conducting polymers to environmental conditions (e.g., air, oxygen, moisture, high temperature and chemical solutions), lithographic techniques present significant technical challenges when working with these materials(4). For example, current photolithographic methods, such as ultra-violet (UV), are unsuitable for patterning the conducting polymers due to the involvement of wet and/or dry etching processes in these methods. In addition, current micro/nanosystems mainly have a planar form(5,6). One layer of structures is built on the top surfaces of another layer of fabricated features. Multiple layers of these structures are stacked together to form numerous devices on a common substrate. The sidewall surfaces of the microstructures have not been used in constructing devices. On the other hand, sidewall patterns could be used, for example, to build 3-D circuits, modify fluidic channels and direct horizontal growth of nanowires and nanotubes. A macropunching method has been applied in the manufacturing industry to create macropatterns in a sheet metal for over a hundred years. Motivated by this approach, we have developed a micropunching lithography method (MPL) to overcome the obstacles of patterning conducting polymers and generating sidewall patterns. Like the macropunching method, the MPL also includes two operations (Fig. 1): (i) cutting; and (ii) drawing. The "cutting" operation was applied to pattern three conducting polymers(4), polypyrrole (PPy), Poly(3,4-ethylenedioxythiophen)-poly(4-styrenesulphonate) (PEDOT) and polyaniline (PANI). It was also employed to create Al microstructures(7). The fabricated microstructures of conducting polymers have been used as humidity(8), chemical(8), and glucose
Miner, Kyle D; Pfister, Thomas D; Hosseinzadeh, Parisa; Karaduman, Nadime; Donald, Lynda J; Loewen, Peter C; Lu, Yi; Ivancich, Anabella
2014-06-17
The location of the Trp radical and the catalytic function of the [Fe(IV)═O Trp₁₉₁(•+)] intermediate in cytochrome c peroxidase (CcP) are well-established; however, the unambiguous identification of the site(s) for the formation of tyrosyl radical(s) and their possible biological roles remain elusive. We have now performed a systematic investigation of the location and reactivity of the Tyr radical(s) using multifrequency Electron Paramagnetic Resonance (EPR) spectroscopy combined with multiple-site Trp/Tyr mutations in CcP. Two tyrosines, Tyr71 and Tyr236, were identified as those contributing primarily to the EPR spectrum of the tyrosyl radical, recorded at 9 and 285 GHz. The EPR characterization also showed that the heme distal-side Trp51 is involved in the intramolecular electron transfer between Tyr71 and the heme and that formation of Tyr₇₁(•) and Tyr₂₃₆(•) is independent of the [Fe(IV)═O Trp₁₉₁(•+)] intermediate. Tyr71 is located in an optimal position to mediate the oxidation of substrates binding at a site, more than 20 Å from the heme, which has been reported recently in the crystal structures of CcP with bound guaicol and phenol [Murphy, E. J., et al. (2012) FEBS J. 279, 1632-1639]. The possibility of discriminating the radical intermediates by their EPR spectra allowed us to identify Tyr₇₁(•) as the reactive species with the guaiacol substrate. Our assignment of the surface-exposed Tyr236 as the other radical site agrees well with previous studies based on MNP labeling and protein cross-linking [Tsaprailis, G., and English, A. M. (2003) JBIC, J. Biol. Inorg. Chem. 8, 248-255] and on its covalent modification upon reaction of W191G CcP with 2-aminotriazole [Musah, R. A., and Goodin, D. B. (1997) Biochemistry 36, 11665-11674]. Accordingly, while Tyr71 acts as a true reactive intermediate for the oxidation of certain small substrates that bind at a site remote from the heme, the surface-exposed Tyr236 would be more
Lung, Shih-Chun Candice; Hu, Shu-Chuan
2003-02-01
The generation rates and emission factors of particulate matter and associated polycyclic aromatic hydrocarbons (PAHs) from incense burning were assessed in a laboratory setting. The differences among different segments of the same stick, among different sticks of the same kind of incense, and between two kinds of manually made Chih-Chen incense sticks (A and B) were evaluated. Joss sticks were burned inside a 44 cm long elutriator; personal environmental monitors fitted into the top of the elutriator were used to take PM2.5 and PM10 samples of incense smoke. Samples were analyzed for PAHs by gas chromatography-flame ionization Detector. It was found that particle and associated PAHs were generated approximately at 561 microg/min (geometric standard deviation (GSD) = 1.1) and 0.56 microg/min (GSD = 1.1) from Incense A, and at 661 microg/min (GSD = 1.7) and 0.46 microg/min (GSD = 1.3) from Incense B, respectively. One gram of Incense A emitted about 19.8 mg (GSD = 1.1) particulate matter and 17.1 microg (GSD = 1.2) particulate-phase PAHs, while one gram of Incense B produced around 43.6 mg (GSD = 1.1) of particles and 25.2 microg (GSD = 1.2) of particle-bound PAHs. There were significant differences in emissions between Incenses A and B, although they belong to the same class of incense. A 10-20% variability in emissions was observed in the main part of the manually produced stick, and a larger variation was found at both tips of the combustible part.
Next-generation surface-enhanced Raman scattering (SERS) substrates for hazard detection
Farrell, Mikella E.; Holthoff, Ellen L.; Pellegrino, Paul M.
2012-06-01
Sensitive, accurate and reliable methods are needed for the detection and identification of hazardous materials (chemical, biological, and energetic) in the field. Utilizing such a sensing capability incorporated into a portable detection system would have wide spread beneficial impact to the U.S. military and first responder communities. Surface enhanced Raman scattering (SERS) is increasingly becoming a reputable technique for the real-time, dynamic detection and identification of hazard materials. SERS is particularly advantageous as it does not suffer from interferences from water, requires little to no sample preparation, is robust and can be used in numerous environments, is relatively insensitive to the wavelength of excitation employed, and produces a narrow-band spectral signature unique to the molecular vibrations of the analyte. We will report on the characterization and sensing capabilities of these next generation SERS substrates for the detection of energetic materials (ammonium nitrate, TNT, PETN, and RDX). Additionally, new efforts producing highly uniform samples, with known concentrations of energetic materials inkjet printed onto the SERS sensing surface using a precisely calibrated MicroJet system will be shown.
Sapaev, Usman; Husakou, Anton; Herrmann, Joachim
2013-10-21
We study numerically low-order harmonic generation in noble gases pumped by intense femtosecond laser pulses in the tunneling ionization regime. We analyze the influence of the phase-mismatching on this process, caused by the generated plasma, and study in dependence on the pump intensity the origin of harmonic generation arising either from the bound-electron nonlinearity or the tunnel-ionization current. It is shown that in argon the optimum pump intensity of about 100 TW/cm² leads to the maximum efficiency, where the main contribution to low-order harmonics originates from the bound-electron third and fifth order susceptibilities, while for intensities higher than 300 TW/cm² the tunnel-ionization current plays the dominant role. Besides, we predict that VUV pulses at 133 nm can be generated with relatively high efficiency of about 1.5 × 10⁻³ by 400 nm pump pulses.
Sapaev, U; Herrmann, J
2013-01-01
We study numerically low-order harmonic generation in noble gases pumped by intense femtosecond laser pulses in the tunneling ionization regime. We analyze the influence of the phase-mismatching on this process, caused by the generated plasma, and study in dependence on the pump intensity the origin of harmonic generation arising either from the bound-electron nonlinearity or the tunnel-ionization current. It is shown that in argon the optimum pump intensity of about 100 TW/cm$^2$ leads to the maximum efficiency, where the main contribution to low-order harmonics originates from the bound-electron third and fifth order susceptibilities, while for intensities higher than 300 TW/cm$^2$ the tunnel-ionization current plays the dominant role. Besides, we predict that VUV pulses at 133 nm can be generated with relatively high efficiency of about $1.5\\times10^{-3}$ by 400 nm pump pulses.
Solar thermoelectric generators fabricated on a silicon-on-insulator substrate
de Leon, Maria Theresa; Chong, Harold; Kraft, Michael
2014-08-01
Solar thermal power generation is an attractive electricity generation technology as it is environment-friendly, has the potential for increased efficiency, and has high reliability. The design, modelling, and evaluation of solar thermoelectric generators (STEGs) fabricated on a silicon-on-insulator substrate are presented in this paper. Solar concentration is achieved by using a focusing lens to concentrate solar input onto the membrane of the STEG. A thermal model is developed based on energy balance and heat transfer equations using lumped thermal conductances. This thermal model is shown to be in good agreement with actual measurement results. For a 1 W laser input with a spot size of 1 mm, a maximum open-circuit voltage of 3.06 V is obtained, which translates to a temperature difference of 226 °C across the thermoelements and delivers 25 µW of output power under matched load conditions. Based on solar simulator measurements, a maximum TEG voltage of 803 mV was achieved by using a 50.8 mm diameter plano-convex lens to focus solar input to a TEG with a length of 1000 µm, width of 15 µm, membrane diameter of 3 mm, and 114 thermocouples. This translates to a temperature difference of 18 °C across the thermoelements and an output power under matched load conditions of 431 nW. This paper demonstrates that by utilizing a solar concentrator to focus solar radiation onto the hot junction of a TEG, the temperature difference across the device is increased; subsequently improving the TEG’s efficiency. By using materials that are compatible with standard CMOS and MEMS processes, integration of solar-driven TEGs with on-chip electronics is seen to be a viable way of solar energy harvesting where the resulting microscale system is envisioned to have promising applications in on-board power sources, sensor networks, and autonomous microsystems.
Yang, X. I. A.; Meneveau, C.; Marusic, I.; Biferale, L.
2016-08-01
In wall-bounded turbulence, the moment generating functions (MGFs) of the streamwise velocity fluctuations develop power-law scaling as a function of the wall normal distance z /δ . Here u is the streamwise velocity fluctuation, + indicates normalization in wall units (averaged friction velocity), z is the distance from the wall, q is an independent variable, and δ is the boundary layer thickness. Previous work has shown that this power-law scaling exists in the log-region 3 Reτ0.5≲z+,z ≲0.15 δ where Reτ is the friction velocity-based Reynolds number. Here we present empirical evidence that this self-similar scaling can be extended, including bulk and viscosity-affected regions 30 reference value, qo. ESS also improves the scaling properties, leading to more precise measurements of the scaling exponents. The analysis is based on hot-wire measurements from boundary layers at Reτ ranging from 2700 to 13 000 from the Melbourne High-Reynolds-Number-Turbulent-Boundary-Layer-Wind-Tunnel. Furthermore, we investigate the scalings of the filtered, large-scale velocity fluctuations uzL and of the remaining small-scale component, uzS=uz-uzL . The scaling of uzL falls within the conventionally defined log region and depends on a scale that is proportional to l+˜Reτ1/2 ; the scaling of uzS extends over a much wider range from z+≈30 to z ≈0.5 δ . Last, we present a theoretical construction of two multiplicative processes for uzL and uzS that reproduce the empirical findings concerning the scalings properties as functions of z+ and in the ESS sense.
Thermal Effect of Ceramic Substrate on Heat Distribution in Thermoelectric Generators
DEFF Research Database (Denmark)
Kolaei, Alireza Rezania; Rosendahl, Lasse
2012-01-01
in the heat sink, a parallel microchannel heat sink is applied to a real TEG. The focus of this study is a discussion of the temperature difference variation between the cold/hot sides of the TEG legs versus the variation of the thermal conductivity of the ceramic substrate and the thickness of the substrate...... on the hot side. While the imposed heat flux on the TEG is homogeneously constant, different pressure drops are applied along the microchannel heat sink. The three-dimensional governing equations for the fluid flow and heat transfer are solved using the finite-volume method. The results show...... that the temperature difference is affected remarkably by the pressure drops in the heat sink, the thermal conductivity of the ceramic substrate, and the thickness of the substrate on the hot side....
Sapaev, U; Husakou, A.; Herrmann, J.
2013-01-01
We study numerically low-order harmonic generation in noble gases pumped by intense femtosecond laser pulses in the tunneling ionization regime. We analyze the influence of the phase-mismatching on this process, caused by the generated plasma, and study in dependence on the pump intensity the origin of harmonic generation arising either from the bound-electron nonlinearity or the tunnel-ionization current. It is shown that in argon the optimum pump intensity of about 100 TW/cm$^2$ leads to th...
Tammimaki, A; Aonurm-Helm, A; Zhang, F P; Poutanen, M; Duran-Torres, G; Garcia-Horsman, A; Mannisto, P T
2016-12-01
Catechol-O-methyltransferase (COMT) has two isoforms: soluble (S-COMT), which resides in the cytoplasm, and membrane-bound (MB-MT), anchored to intracellular membranes. COMT is involved in the O-methylation of L-DOPA, dopamine and other catechols. The exact role of MB-COMT is still mostly unclear. We wanted to create a novel genetically modified mouse model that specifically lacks MB-COMT activity and to study their behavioral phenotype. MB-COMT knock-in mutant mice were generated by introducing two point mutations in exon 2 of the Comt gene (ATGCTG->GAGCTC disabling the function of the P2 promoter and allowing only the P1-regulated S-COMT transcription. The first mutation changes methionine to glutamic acid whereas the second one does not affect coding. The expression of the two COMT isoforms, total COMT activity in several areas of the brain and peripheral tissues and extracellular dopamine concentrations after L-DOPA (10 mg/kg) and carbidopa (30 mg/kg) subcutaneous administration were assessed. A battery of behavioral tests was performed to compare MB-COMT deficient mice and their wild type littermates of both sexes. MB-COMT deficient mice were seemingly normal, bred usually and had unaltered COMT activity in the brain and periphery despite a complete lack of the MB-COMT protein. MB-COMT deficient male mice showed higher extracellular dopamine levels than their wild-type littermates in the striatum, but not in the mPFC. In addition, the MB-COMT deficient male mice exhibited a distinct endophenotype characterized by schizophrenia-related behaviors like aggressive behavior and reduced prepulse inhibition. They also had prolonged immobility in the tail suspension test. Both sexes were sensitized to acute pain and had normal motor activity but disturbed short-term memory. Hence the behavioral phenotype was not limited to schizophrenia-related endophenotype and some behavioural findings were not sex-dependent. Our findings indicate that MB-COMT is critical for
Energy Technology Data Exchange (ETDEWEB)
Zolotovskii, I O; Korobko, D A; Okhotnikov, O G [Ulyanovsk State University, Ulyanovsk (Russian Federation); Gumenyuk, R V [Optoelectronics Research Center, Tampere University of Technology, Tampere (Finland)
2015-01-31
A numerical model of a soliton fibre laser with a semiconductor saturable absorber mirror (SESAM), characterised by the complex dynamics of absorption relaxation, is considered. It is shown that stationary bound states of pulses can be formed in this laser as a result of their interaction via the dispersion-wave field. The stability of stationary bound states of several pulses is analysed. It is shown that an increase in the number of pulses in a stationary bound state leads eventually to its decay and formation of a random bunch. It is found that the bunch stability is caused by the manifestation of nonlinear self-phase modulation, which attracts pulses to the bunch centre. The simulation results are in qualitative agreement with experimental data. (nonlinear optical phenomena)
Haris, H.; Harun, S. W.; Anyi, C. L.; Muhammad, A. R.; Ahmad, F.; Tan, S. J.; Nor, R. M.; Zulkepely, N. R.; Ali, N. M.; Arof, H.
2016-04-01
We report an observation of soliton and bound-state soliton in passive mode-locked fibre laser employing graphene film as a passive saturable absorber (SA). The SA was fabricated from the graphene flakes, which were obtained from electrochemical exfoliation process. The graphene flakes was mixed with polyethylene oxide solution to form a polymer composite, which was then dried at room temperature to produce a film. The film was then integrated in a laser cavity by attaching it to the end of a fibre ferrule with the aid of index matching gel. The fibre laser generated soliton pulses with a 20.7 MHz repetition rate, 0.88 ps pulse width, 0.0158 mW average output power, 0.175 pJ pulse energy and 18.72 W peak power at the wavelength of 1564 nm. A bound soliton with pulse duration of ~1.04 ps was also obtained at the pump power of 110.85 mW by carefully adjusting the polarization of the oscillating laser. The formation of bound soliton is due to the direct pulse to pulse interaction. The results show that the proposed graphene-based SA offers a simple and cost efficient approach of generating soliton and bound soliton in mode-locked EDFL set-up.
Sites of reactive oxygen species generation by mitochondria oxidizing different substrates
Directory of Open Access Journals (Sweden)
Casey L. Quinlan
2013-01-01
Full Text Available Mitochondrial radical production is important in redox signaling, aging and disease, but the relative contributions of different production sites are poorly understood. We analyzed the rates of superoxide/H2O2 production from different defined sites in rat skeletal muscle mitochondria oxidizing a variety of conventional substrates in the absence of added inhibitors: succinate; glycerol 3-phosphate; palmitoylcarnitine plus carnitine; or glutamate plus malate. In all cases, the sum of the estimated rates accounted fully for the measured overall rates. There were two striking results. First, the overall rates differed by an order of magnitude between substrates. Second, the relative contribution of each site was very different with different substrates. During succinate oxidation, most of the superoxide production was from the site of quinone reduction in complex I (site IQ, with small contributions from the flavin site in complex I (site IF and the quinol oxidation site in complex III (site IIIQo. However, with glutamate plus malate as substrate, site IQ made little or no contribution, and production was shared between site IF, site IIIQo and 2-oxoglutarate dehydrogenase. With palmitoylcarnitine as substrate, the flavin site in complex II (site IIF was a major contributor (together with sites IF and IIIQo, and with glycerol 3-phosphate as substrate, five different sites all contributed, including glycerol 3-phosphate dehydrogenase. Thus, the relative and absolute contributions of specific sites to the production of reactive oxygen species in isolated mitochondria depend very strongly on the substrates being oxidized, and the same is likely true in cells and in vivo.
Jaffe, E K; Markham, G D
1988-06-14
13C NMR has been used to observe the equilibrium complex of [5,5-2H,5-13C]-5-aminolevulinate [( 5,5-2H,5-13C]ALA) bound to porphobilinogen (PBG) synthase (5-aminolevulinate dehydratase), a 280,000-dalton protein. [5,5-2H,5-13C]ALA (chemical shift 46.9 ppm in D2O) was prepared from [5-13C]ALA through enolization in deuteriated neutral potassium phosphate buffer. In the PBG synthase reaction [5,5-2H,5-13C]ALA forms [2,11,11-2H,2,11-13C]PBG (chemical shifts 116.2 ppm for C2 and 34.2 ppm for C11 in D2O). For the complex formed between [5,5-2H,5-13C]ALA and methyl methanethiosulfonate (MMTS) modified PBG synthase, which does not catalyze PBG formation but can form a Schiff base adduct, the chemical shift of 44.2 ppm (line width 92 Hz) identifies an imine structure as the predominant tautomeric form of the Schiff base. By comparison to model compounds, the stereochemistry of the imine has been deduced; however, the protonation state of the imine nitrogen remains unresolved. Reconstitution of the MMTS-modified enzyme-Schiff base complex with Zn(II) and 2-mercaptoethanol results in the holoenzyme-bound equilibrium complex; this complex contains predominantly enzyme-bound PBG, and spectra reveal two peaks from bound PBG and two from free PBG. For bound PBG, C2 is -2.8 ppm from the free signal and C11 is +2.6 ppm from the free signal; the line widths of the bound signals are 55 and 75 Hz, respectively.(ABSTRACT TRUNCATED AT 250 WORDS)
The next generation CdTe technology- Substrate foil based solar cells
Energy Technology Data Exchange (ETDEWEB)
Ferekides, Chris [Univ. of South Florida, Tampa, FL (United States)
2017-03-22
The main objective of this project was the development of one of the most promising Photovoltaic (PV) materials CdTe into a versatile, cost effective, and high throughput technology, by demonstrating substrate devices on foil substrates using high throughput fabrication conditions. The typical CdTe cell is of the superstrate configuration where the solar cell is fabricated on a glass superstrate by the sequential deposition of a TCO, n-type heterojunction partner, p-CdTe absorber, and back contact. Large glass modules are heavy and present significant challenges during manufacturing (uniform heating, etc.). If a substrate CdTe cell could be developed (the main goal of this project) a roll-to-toll high throughput technology could be developed.
Blowup and life span bounds for a reaction-diffusion equation with a time-dependent generator
Directory of Open Access Journals (Sweden)
Aroldo Perez
2008-01-01
Full Text Available We consider the nonlinear equation $$ frac{partial}{partial t} u (t = k (t Delta _{alpha }u (t + u^{1+eta } (t,quad u(0,x=lambda varphi (x,; xin mathbb{R} ^{d}, $$ where $Delta _{alpha }:=-(-Delta^{alpha /2}$ denotes the fractional power of the Laplacian; $00$ are constants; $ varphi$ is bounded, continuous, nonnegative function that does not vanish identically; and $k$ is a locally integrable function. We prove that any combination of positive parameters $d,alpha, ho,eta$, obeying $0
2011-11-01
instrument is a drop-on-demand (DOD) inkjet printing system with drop ejection drive electronics (JetDriveTM III), pressure control, a drop visualization...marginalized sensing technique primarily due to the challenges in fabricating a reliable, highly sensitive and reproducible nanoscale surface. In this...are fabricated in a fashion similar to standard Klarite substrates, but due to changes in size and spacing of the inverted pyramidal structure there
Energy Technology Data Exchange (ETDEWEB)
Ziehlke, Hannah; Koerner, Christian; Leo, Karl; Riede, Moritz [IAPP, TU Dresden (Germany); Fitzner, Roland; Reinold, Egon; Baeuerle, Peter [Institut fuer Organische Chemie II und Neue Materialien, Univ. Ulm (Germany)
2011-07-01
The performance of organic solar cells crucially depends on the separation of photogenerated excitons into free charge carriers. The dissociation process is sensitively influenced by the nanomorphology of donor (D) and acceptor (A) phases in the photoactive blend layer. Closed percolation paths have to be present such that the created charges are able to leave the blend layer, but also the crystallinity of the D- and the A-phase influence exciton dissociation on a molecular scale. Substrate heating during the vacuum deposition of the active layer is a method to influence the thin film morphology that can lead to improved device performance. We here characterize dicyanovinyl capped quinquethiophenes (D) deposited on substrates at different temperatures (30 and 80 C). Photoinduced absorption spectroscopy (PIA) is used to determine excited state lifetimes and generation rates.We find that efficient charge separation occurs in blends with C{sub 60} (A) and identify the observed excited states as donor cations and triplet excitons. Heating the substrate results in an increased lifetime of the donor cation on the one hand and a decrease in the generation rate of cations on the other hand. The PIA results are complemented by solar cell devices as well as morphological studies.
Universal Bound on the Fano Factor in Enzyme Kinetics
Barato, Andre C
2015-01-01
The Fano factor, an observable quantifying fluctuations of product generation by a single enzyme, can reveal information about the underlying reaction scheme. A lower bound on this Fano factor that depends on the thermodynamic affinity driving the transformation from substrate to product constrains the number of intermediate states of an enzymatic cycle. So far, this bound has been proven only for a unicyclic network of states. We show that the bound can be extended to arbitrary multicyclic networks, with the Fano factor constraining the largest value of the effective length, which is the ratio between the number of states and the number of products, among all cycles.
DEFF Research Database (Denmark)
Johansson, Eva; Fanø, Mathias; Bynck, Julie H;
2005-01-01
dCTP deaminase (EC 3.5.4.13) catalyzes the deamination of dCTP forming dUTP that via dUTPase is the main pathway providing substrate for thymidylate synthase in Escherichia coli and Salmonella typhimurium. dCTP deaminase is unique among nucleoside and nucleotide deaminases as it functions without...
Energy Technology Data Exchange (ETDEWEB)
Sri Bala Kameswari, K.; Chitra Kalyanaraman,; Porselvam, S. [Central Leather Research Institute (CLRI), Environmental Technology Division, Chennai (India); Thanasekaran, K. [Anna University, Centre for Environmental Studies, Chennai (India)
2012-04-15
The inoculum to substrate (I/S) ratio is an important factor which influences the anaerobic digestion process. In this study, the effect of different I/S ratios on the performance of co-digestion of fleshings along with mixture of sludge generated during treatment of tannery wastewater was investigated. The parameters studied were biogas generation, volatile solids reduction, volatile fatty acid (VFA) production, and the stability of the digestion process based on VFA to alkalinity ratio was evaluated for various I/S ratios. Economical significance of I/S ratio as related to the volume of the anaerobic digester and the potential benefit of bio-energy generated are discussed in detail. (orig.)
Wahl, Michael; Leifgen, Matthias; Berlin, Michael; Röhlicke, Tino; Rahn, Hans-Jürgen; Benson, Oliver
2011-04-01
We report the implementation of a quantum random number generator based on photon arrival times. Due to fast and high resolution timing we are able to generate the highest bitrate of any current generator based on photon arrival times. Bias in the raw data due to the exponential distribution of the arrival times is removed by postprocessing which is directly integrated in the field programmable logic of the timing electronics.
Stress generation in thermally grown oxide films. [oxide scale spalling from superalloy substrates
Kumnick, A. J.; Ebert, L. J.
1981-01-01
A three dimensional finite element analysis was conducted, using the ANSYS computer program, of the stress state in a thin oxide film thermally formed on a rectangular piece of NiCrAl alloy. The analytical results indicate a very high compressive stress in the lateral directions of the film (approximately 6200 MPa), and tensile stresses in the metal substrate that ranged from essentially zero to about 55 MPa. It was found further that the intensity of the analytically determined average stresses could be approximated reasonably well by the modification of an equation developed previously by Oxx for stresses induced into bodies by thermal gradients.
Bound entanglement and entanglement bounds
Energy Technology Data Exchange (ETDEWEB)
Sauer, Simeon [Physikalisch-Astronomische Fakultaet, Friedrich-Schiller-Univesitaet Jena (Germany)]|[Physikalisches Institut, Albert-Ludwigs-Universitaet Freiburg, Hermann-Herder-Strasse 3, D-79104 Freiburg (Germany); Melo, Fernando de; Mintert, Florian; Buchleitner, Andreas [Physikalisches Institut, Albert-Ludwigs-Universitaet Freiburg, Hermann-Herder-Strasse 3, D-79104 Freiburg (Germany)]|[Max-Planck-Institut fuer Physik komplexer Systeme, Noethnitzer Str.38, D-01187 Dresden (Germany); Bae, Joonwoo [School of Computational Sciences, Korea Institute for Advanced Study, Seoul 130-012 (Korea); Hiesmayr, Beatrix [Faculty of Physics, University of Vienna, Boltzmanngasse 5, A-1090 Vienna (Austria)
2008-07-01
We investigate the separability of Bell-diagonal states of two qutrits. By using lower bounds to algebraically estimate concurrence, we find convex regions of bound entangled states. Some of these regions exactly coincide with the obtained results when employing optimal entanglement witnesses, what shows that the lower bound can serve as a precise detector of entanglement. Some hitherto unknown regions of bound entangled states were discovered with this approach, and delimited efficiently.
Masamoto, K
1984-03-01
Dependence on the salt concentration of the activity of microsome-bound arylsulfatase C [EC 3.1.6.1] from rat liver was examined. The activity increased with increasing salt concentration in the reaction medium in the whole pH range tested. This effect can be explained by the dependence of the reaction rate on the surface pH and the surface concentration of the ionic substrate. The dependence on salt concentration of the activity of the microsome-bound arylsulfatase C and the pH-dependences of Vmax and Km of the enzyme were used for the estimation of pH at the microsomal surface. The two values of the surface pH (surface potential) and the salt concentration were applied to the Gouy-Chapman equation. The value of -0.39 +/- 0.08 X 10(-3) elementary charge/A2 was obtained as the surface charge density in the vicinity of the microsome-bound arylsulfatase C. This was smaller than the over-all value for microsomes (-1.08 +/- 0.04 X 10(-3) elementary charge/A2; Masamoto, K. (1982) J. Biochem. 92, 365-371). This suggests that the anion concentration in the vicinity of the enzyme on microsomes is lower than that in the bulk aqueous phase and is higher than the average value at the microsomal surface when the salt concentration is low.
Directory of Open Access Journals (Sweden)
Gonzalo A. Pradenas
2013-01-01
Full Text Available Reactive oxygen species (ROS damage macromolecules and cellular components in nearly all kinds of cells and often generate toxic intracellular byproducts. In this work, aldehyde generation derived from the Escherichia coli membrane oxidation as well as membrane fatty acid profiles, protein oxidation, and bacterial resistance to oxidative stress elicitors was evaluated. Studies included wild-type cells as well as cells exhibiting a modulated monounsaturated fatty acid (MUFA ratio. The hydroxyaldehyde 4-hydroxy 2-nonenal was found to be most likely produced by E. coli, whose levels are dependent upon exposure to oxidative stress elicitors. Aldehyde amounts and markers of oxidative damage decreased upon exposure to E. coli containing low MUFA ratios, which was paralleled by a concomitant increase in resistance to ROS-generating compounds. MUFAs ratio, lipid peroxidation, and aldehyde generation were found to be directly related; that is, the lower the MUFAs ratio, the lower the peroxide and aldehyde generation levels. These results provide additional evidence about MUFAs being targets for membrane lipid oxidation and their relevance in aldehyde generation.
Kukavica, Biljana; Mojovic, Milos; Vuccinic, Zeljko; Maksimovic, Vuk; Takahama, Umeo; Jovanovic, Sonja Veljovic
2009-02-01
The hydroxyl radical produced in the apoplast has been demonstrated to facilitate cell wall loosening during cell elongation. Cell wall-bound peroxidases (PODs) have been implicated in hydroxyl radical formation. For this mechanism, the apoplast or cell walls should contain the electron donors for (i) H(2)O(2) formation from dioxygen; and (ii) the POD-catalyzed reduction of H(2)O(2) to the hydroxyl radical. The aim of the work was to identify the electron donors in these reactions. In this report, hydroxyl radical (.OH) generation in the cell wall isolated from pea roots was detected in the absence of any exogenous reductants, suggesting that the plant cell wall possesses the capacity to generate .OH in situ. Distinct POD and Mn-superoxide dismutase (Mn-SOD) isoforms different from other cellular isoforms were shown by native gel electropho-resis to be preferably bound to the cell walls. Electron paramagnetic resonance (EPR) spectroscopy of cell wall isolates containing the spin-trapping reagent, 5-diethoxyphosphoryl-5-methyl-1-pyrroline-N-oxide (DEPMPO), was used for detection of and differentiation between .OH and the superoxide radical (O(2)(-).). The data obtained using POD inhibitors confirmed that tightly bound cell wall PODs are involved in DEPMPO/OH adduct formation. A decrease in DEPMPO/OH adduct formation in the presence of H(2)O(2) scavengers demonstrated that this hydroxyl radical was derived from H(2)O(2). During the generation of .OH, the concentration of quinhydrone structures (as detected by EPR spectroscopy) increased, suggesting that the H(2)O(2) required for the formation of .OH in isolated cell walls is produced during the reduction of O(2) by hydroxycinnamic acids. Cell wall isolates in which the proteins have been denaturated (including the endogenous POD and SOD) did not produce .OH. Addition of exogenous H(2)O(2) again induced the production of .OH, and these were shown to originate from the Fenton reaction with tightly bound metal ions
Chernysheva, Maria; Bednyakova, Anastasia; Al Araimi, Mohammed; Howe, Richard C. T.; Hu, Guohua; Hasan, Tawfique; Gambetta, Alessio; Galzerano, Gianluca; Rümmeli, Mark; Rozhin, Aleksey
2017-03-01
The complex nonlinear dynamics of mode-locked fibre lasers, including a broad variety of dissipative structures and self-organization effects, have drawn significant research interest. Around the 2 μm band, conventional saturable absorbers (SAs) possess small modulation depth and slow relaxation time and, therefore, are incapable of ensuring complex inter-pulse dynamics and bound-state soliton generation. We present observation of multi-soliton complex generation in mode-locked thulium (Tm)-doped fibre laser, using double-wall carbon nanotubes (DWNT-SA) and nonlinear polarisation evolution (NPE). The rigid structure of DWNTs ensures high modulation depth (64%), fast relaxation (1.25 ps) and high thermal damage threshold. This enables formation of 560-fs soliton pulses; two-soliton bound-state with 560 fs pulse duration and 1.37 ps separation; and singlet+doublet soliton structures with 1.8 ps duration and 6 ps separation. Numerical simulations based on the vectorial nonlinear Schr¨odinger equation demonstrate a transition from single-pulse to two-soliton bound-states generation. The results imply that DWNTs are an excellent SA for the formation of steady single- and multi-soliton structures around 2 μm region, which could not be supported by single-wall carbon nanotubes (SWNTs). The combination of the potential bandwidth resource around 2 μm with the soliton molecule concept for encoding two bits of data per clock period opens exciting opportunities for data-carrying capacity enhancement.
Chernysheva, Maria; Bednyakova, Anastasia; Al Araimi, Mohammed; Howe, Richard C. T.; Hu, Guohua; Hasan, Tawfique; Gambetta, Alessio; Galzerano, Gianluca; Rümmeli, Mark; Rozhin, Aleksey
2017-01-01
The complex nonlinear dynamics of mode-locked fibre lasers, including a broad variety of dissipative structures and self-organization effects, have drawn significant research interest. Around the 2 μm band, conventional saturable absorbers (SAs) possess small modulation depth and slow relaxation time and, therefore, are incapable of ensuring complex inter-pulse dynamics and bound-state soliton generation. We present observation of multi-soliton complex generation in mode-locked thulium (Tm)-doped fibre laser, using double-wall carbon nanotubes (DWNT-SA) and nonlinear polarisation evolution (NPE). The rigid structure of DWNTs ensures high modulation depth (64%), fast relaxation (1.25 ps) and high thermal damage threshold. This enables formation of 560-fs soliton pulses; two-soliton bound-state with 560 fs pulse duration and 1.37 ps separation; and singlet+doublet soliton structures with 1.8 ps duration and 6 ps separation. Numerical simulations based on the vectorial nonlinear Schr¨odinger equation demonstrate a transition from single-pulse to two-soliton bound-states generation. The results imply that DWNTs are an excellent SA for the formation of steady single- and multi-soliton structures around 2 μm region, which could not be supported by single-wall carbon nanotubes (SWNTs). The combination of the potential bandwidth resource around 2 μm with the soliton molecule concept for encoding two bits of data per clock period opens exciting opportunities for data-carrying capacity enhancement. PMID:28287159
Energy Technology Data Exchange (ETDEWEB)
Phillips, J.; Warby, C; Whitby, F; Kushner, J; Hill, C
2009-01-01
Uroporphyrinogen decarboxylase (URO-D; EC 4.1.1.37), the fifth enzyme of the heme biosynthetic pathway, is required for the production of heme, vitamin B12, siroheme, and chlorophyll precursors. URO-D catalyzes the sequential decarboxylation of four acetate side chains in the pyrrole groups of uroporphyrinogen to produce coproporphyrinogen. URO-D is a stable homodimer, with the active-site clefts of the two subunits adjacent to each other. It has been hypothesized that the two catalytic centers interact functionally, perhaps by shuttling of reaction intermediates between subunits. We tested this hypothesis by construction of a single-chain protein (single-chain URO-D) in which the two subunits were connected by a flexible linker. The crystal structure of this protein was shown to be superimposable with wild-type activity and to have comparable catalytic activity. Mutations that impaired one or the other of the two active sites of single-chain URO-D resulted in approximately half of wild-type activity. The distributions of reaction intermediates were the same for mutant and wild-type sequences and were unaltered in a competition experiment using I and III isomer substrates. These observations indicate that communication between active sites is not required for enzyme function and suggest that the dimeric structure of URO-D is required to achieve conformational stability and to create a large active-site cleft.
Directory of Open Access Journals (Sweden)
W. S. Borges
2015-06-01
Full Text Available AbstractBiosurfactants have a wide range of applications in emulsions, separations, and solubilization because these chemicals reduce the surface tension and viscosity of solutions. This work studied rhamnolipid production using a batch bioreactor with a working volume of 1.5 liters, Pseudomonas aeruginosa ATCC (American Type Culture Collection 10145 strain, and the greasy effluent from the slaughter of poultry and pigs as the substrate. The main goal of this research was to evaluate the level of aeration, agitation speed and inoculum concentration using a Central Composite Design (CCD. Experimental conditions were selected using the surface response technique obtained from the CCD, and the results were validated to test the reproducibility. The following operating conditions were selected: 1.2 vvm level of aeration, 600 rpm agitation speed, and 1.0 g/L biomass inoculum concentration. Under these conditions, the following results were obtained: the rhamnose production, surface tension and emulsifying index were 5.37 g/L, 25.6 dyne/cm and 100%, respectively.
Crossman, Katie; Pinchbeck, Geoffrey
2012-01-01
Immigrants and the children of immigrants who have completed their schooling in Canadian school settings, commonly referred to as Generation 1.5, are increasingly identified in the research literature as academically at risk due to inadequately developed academic language proficiency and learning strategies. This article describes the design,…
Crystalline phase of Y2O3:Eu particles generated in a substrate-free flame process
Institute of Scientific and Technical Information of China (English)
Bing Guo; Hoon Yim; Wonjoong Hwang; Matt Nowell; Zhiping Luo
2011-01-01
In this study, factors affecting the crystal structure of flame-synthesized Y2O3:Eu particles were investigated, especially the particle size effect and its interaction with Eu doping concentration. Polydisperse Y2O3:Eu (size range 200nm to 3 μm) powder samples with Eu doping concentrations from 2.5 mol% to 25 mol% were generated in either H2/air or H2/O2 substrate-free flames. The crystal structure of the powder samples was determined by powder X-ray diffraction (XRD),which was complemented by photoluminescence (PL) measurements. Single particle crystal structure was determined by single particle selected area electron diffraction (SAED),and for the first time,by electron backscatter diffraction (EBSD).H2/air flames resulted in cubic phase Y2O3:Eu particles with hollow morphology and irregular shapes.Particles from H2/O2 flames had dense and spherical morphology; samples with lower Eu doping concentrations had mixed cubic/monoclinic phases: samples with the highest Eu doping concentrations were phase-pure monoclinic. For samples generated from H2/O2 flames,a particle size effect and its interaction with Eu doping concentration were found: particles smaller than a critical diameter had the monoclinic phase,and this critical diameter increased with increasing Eu doping concentration. These findings suggest that the formation of monoclinic Y2O3:Eu is inevitable when extremely hot substrate-free flames are used,because typical flame-synthesized Y2O3:Eu particle sizes are well below the critical diameter.However,it may be possible to generate particles with dense,spherical morphology and the desired cubic structure by using a moderately high flame temperature that enables fast sintering without melting the particles.
Chakraborty, Prateeti; Adhikary, Jaydeep; Ghosh, Bipinbihari; Sanyal, Ria; Chattopadhyay, Shyamal Kumar; Bauzá, Antonio; Frontera, Antonio; Zangrando, Ennio; Das, Debasis
2014-08-18
A library of 15 dicopper complexes as synthetic analogues of catechol oxidase has been synthesized with the aim to determine the relationship between the electrochemical behavior of the dicopper(II) species in the absence as well as in the presence of 3,5-di-tert-butylcatechol (3,5-DTBC) as model substrate and the catalytic activity, kcat, in DMSO medium. The complexes have been characterized by routine physicochemical techniques as well as by X-ray single-crystal structure analysis in some cases. Fifteen "end-off" compartmental ligands have been designed as 1 + 2 Schiff-base condensation product of 2,6-diformyl-4-R-phenol (R = Me, (t)Bu, and Cl) and five different amines, N-(2-aminoethyl)piperazine, N-(2-aminoethyl)pyrrolidine, N-(2-aminoethyl)morpholine, N-(3-aminopropyl)morpholine, and N-(2-aminoethyl)piperidine. Interestingly, in case of the combination of 2,6-diformyl-4-methylphenol and N-(2-aminoethyl)morpholine/N-(3-aminopropyl)morpholine/N-(2-aminoethyl)piperidine 1 + 1 condensation becomes the reality and the ligands are denoted as L2(1-3). On reaction of copper(II) nitrate with L2(1-3) in situ complexes 3, 12, and 13 are formed having general formula Cu2(L2(1-3))2(NO3)2. The remaining 12 ligands obtained as 1 + 2 condensation products are denoted as L1(1-12), which produce complexes having general formula Cu2(L1(1-12))(NO3)2. Catecholase activity of all 15 complexes has been investigated in DMSO medium using 3,5-DTBC as model substrate. Treatment on the basis of Michaelis-Menten model has been applied for kinetic study, and thereby turnover number, kcat, values have been evaluated. Cyclic voltametric (CV) and differential pulse voltametric (DPV) studies of the complexes in the presence as well as in the absence of 3,5-DTBC have been thoroughly investigated in DMSO medium. From those studies it is evident that oxidation of 3,5-DTBC catalyzed by dicopper(II) complexes proceed via two steps: first, semibenzoquinone followed by benzoquinone with concomitant
Institute of Scientific and Technical Information of China (English)
ZHANG Li; XIE Hong-Jing
2003-01-01
Within the framework of the compact density matrix approach, the third-harmonic generation (THG) in an electric-field-biased semi-parabolic quantum well (QW) has been deduced and investigated. Via variant of displacement harmonic oscillation, the exact electronic states in the semi-parabolic QW with an applied electric field have also been obtained and discussed. Numerical results on typical GaAs material reveal that, electric fields and confined potential frequency of semi-parabolic Q W have obvious influences on the energy levels of electronic states and the THG in the semi-parabolic Q W systems.
Institute of Scientific and Technical Information of China (English)
ZHANGLi; XIEHong-Jing
2003-01-01
Within the framework of the compact density matrix approach, the third-harmonic generation (THG) in an electric-field-biased semi-parabolic quantum well (QW) has been deduced and investigated. Via variant of displacement harmonic oscillation, the exact electronic states in the semi-parabolic QW with an applied electric field have also been obtained and discussed. Numerical results on typical GaAs material reveal that, electric fields and confined potential frequency of semi-parabolic QW have obvious influences on the energy levels of electronic states and the THG in the semi-parabolic QW systems.
Khlebnikova, Yu. V.; Gervas'eva, I. V.; Suaridze, T. R.; Rodionov, D. P.; Egorova, L. Yu.
2014-10-01
It is established that Cu-1.6 at % Fe alloy tapes obtained through cold rolling to 98.9% followed by recrystallization annealing possess a sharp cube texture, which opens prospects of using thin tapes of this alloy as substrates for second-generation high-temperature superconductors. The optimum regime of annealing is determined that allows an alloy with sharp biaxial texture containing more than 97% cubic grains to be obtained. The yield stress of a 90-μm-thick Cu-1.6 at % Fe alloy tape upon recrystallization annealing at 800°C for 1 h amounts to 78 MPa, which is about three times higher than the value for a pure copper tape with sharp cube texture.
Multicolor Bound Soliton Molecule
Luo, Rui; Lin, Qiang
2015-01-01
We show a new class of bound soliton molecule that exists in a parametrically driven nonlinear optical cavity with appropriate dispersion characteristics. The composed solitons exhibit distinctive colors but coincide in time and share a common phase, bound together via strong inter-soliton four-wave mixing and Cherenkov radiation. The multicolor bound soliton molecule shows intriguing spectral locking characteristics and remarkable capability of spectrum management to tailor soliton frequencies, which may open up a great avenue towards versatile generation and manipulation of multi-octave spanning phase-locked Kerr frequency combs, with great potential for applications in frequency metrology, optical frequency synthesis, and spectroscopy.
Atomization off thin water films generated by high-frequency substrate wave vibrations.
Collins, David J; Manor, Ofer; Winkler, Andreas; Schmidt, Hagen; Friend, James R; Yeo, Leslie Y
2012-11-01
Generating aerosol droplets via the atomization of thin aqueous films with high frequency surface acoustic waves (SAWs) offers several advantages over existing nebulization methods, particularly for pulmonary drug delivery, offering droplet sizes in the 1-5-μm range ideal for effective pulmonary therapy. Nevertheless, the physics underlying SAW atomization is not well understood, especially in the context of thin liquid film formation and spreading and how this affects the aerosol production. Here, we demonstrate that the film geometry, governed primarily by the applied power and frequency of the SAW, indeed plays a crucial role in the atomization process and, in particular, the size of the atomized droplets. In contrast to the continuous spreading of low surface energy liquids atop similar platforms, high surface energy liquids such as water, in the present case, are found to undergo transient spreading due to the SAW to form a quasisteady film whose height is determined by self-selection of the energy minimum state associated with the acoustic resonance in the film and whose length arises from a competition between acoustic streaming and capillary effects. This is elucidated from a fundamental model for the thin film spreading behavior under SAW excitation, from which we show good agreement between the experimentally measured and theoretically predicted droplet dimension, both of which consistently indicate a linear relationship between the droplet diameter and the mechanical power coupled into the liquid by the SAW (the latter captured by an acoustic Weber number to the two thirds power, and the reciprocal of the SAW frequency).
Directory of Open Access Journals (Sweden)
Yukio Kurihara
2014-12-01
Full Text Available Several transcription factors (TFs coordinate to regulate expression of specific genes at the transcriptional level. In Arabidopsis thaliana it is estimated that approximately 10% of all genes encode TFs or TF-like proteins. It is important to identify target genes that are directly regulated by TFs in order to understand the complete picture of a plant’s transcriptome profile. Here, we investigate the role of the LONG HYPOCOTYL5 (HY5 transcription factor that acts as a regulator of photomorphogenesis. We used an in vitro genomic DNA binding assay coupled with immunoprecipitation and next-generation sequencing (gDB-seq instead of the in vivo chromatin immunoprecipitation (ChIP-based methods. The results demonstrate that the HY5-binding motif predicted here was similar to the motif reported previously and that in vitro HY5-binding loci largely overlapped with the HY5-targeted candidate genes identified in previous ChIP-chip analysis. By combining these results with microarray analysis, we identified hundreds of HY5-binding genes that were differentially expressed in hy5. We also observed delayed induction of some transcripts of HY5-binding genes in hy5 mutants in response to blue-light exposure after dark treatment. Thus, an in vitro gDNA-binding assay coupled with sequencing is a convenient and powerful method to bridge the gap between identifying TF binding potential and establishing function.
Maszl, Christian; Benedikt, Jan; von Keudell, Achim
2013-01-01
High power pulsed magnetron sputtering (HiPIMS) plasmas generate energetic metal ions at the substrate as a major difference to conventional direct current magnetron sputtering. The origin of these energetic ions in HiPIMS is still an open issue, which is unraveled by using three fast diagnostics: time resolved mass spectrometry with a temporal resolution of 2 $\\mu$s, phase resolved optical emission spectroscopy with 1 $\\mu$s and the rotating shutter experiment with a resolution of 50 $\\mu$s. A power scan from dcMS-like to HiPIMS plasmas was performed, with a 2-inch magnetron and a titanium target as sputter source and argon as working gas. Clear differences in the transport as well in the energetic properties of Ar$^+$, Ar$^{2+}$, Ti$^+$ and Ti$^{2+}$ were observed. For discharges with highest peak power densities a high energetic group of Ti$^{+}$ and Ti$^{2+}$ could be identified. A cold group of ions is always present. It is found that hot ions are observed only, when the plasma enters the spokes regime, ...
Paterson, Ian; Delgado, Oscar; Florence, Gordon J; Lyothier, Isabelle; O'Brien, Matthew; Scott, Jeremy P; Sereinig, Natascha
2005-01-01
A novel total synthesis of the complex polyketide (+)-discodermolide, a promising anticancer agent of sponge origin, has been completed in 7.8% overall yield over 24 linear steps, with 35 steps altogether. This second-generation approach was designed to rely solely on substrate control for introduction of the required stereochemistry, eliminating the use of all chiral reagents or auxiliaries. The common 1,2-anti-2,3-syn stereotriad found in each of three subunits, aldehyde 9 (C(1)-C(5)), ester 40 (C(9)-C(16)), and aldehyde 13 (C(17)-C(24)), was established via a boron-mediated aldol reaction of ethyl ketone 15 and formaldehyde, followed by hydroxyl-directed reduction to give 1,3-diol 14. Alternatively, a surrogate aldehyde 22 was employed for formaldehyde in this aldol reaction, leading to the beta-hydroxy aldehyde 20 as a common building block, corresponding to the discodermolide stereotriad. Key fragment unions were achieved by a lithium-mediated anti aldol reaction of ester 40 and aldehyde 13 under Felkin-Anh control to provide (16S,17S)-adduct 51 and a boron-mediated aldol reaction between enone 10 and aldehyde 9, exploiting unprecedented remote 1,6-stereoinduction, to give the (5S)-adduct 57.
Padermshoke, Adchara; Konishi, Shouta; Ara, Masato; Tada, Hirokazu; Ishibashi, Taka-Aki
2012-06-01
A novel SiO(2)-deposited CaF(2) (SiO(2)/CaF(2)) substrate for measuring vibrational sum-frequency generation (SFG) spectra of silane-based chemisorbed monolayers in aqueous media has been developed. The substrate is suitable for silanization and transparent over a broad range of the infrared (IR) probe. The present work demonstrates the practical application of the SiO(2)/CaF(2) substrate and, to our knowledge, the first SFG spectrum at the solid/water interface of a silanized monolayer observed over the IR fingerprint region (1780-1400 cm(-1)) using a back-side probing geometry. This new substrate can be very useful for SFG studies of various chemisorbed organic molecules, particularly biological compounds, in aqueous environments.
Investigation of Substrate Effects on Interface Strain and Defect Generation in MBE-Grown HgCdTe
Gu, R.; Lei, W.; Antoszewski, J.; Faraone, L.
2016-09-01
Si, Ge, and GaAs have been extensively investigated as alternative substrates for molecular-beam epitaxy (MBE) growth of HgCdTe and, at present, are widely used for HgCdTe-based infrared focal-plane arrays. However, the problem of high dislocation density in HgCdTe layers grown on these lattice-mismatched substrates has yet to be resolved. In this work, we investigated another alternative substrate, GaSb, which has a significantly smaller lattice mismatch with HgCdTe in comparison with Si, Ge, and GaAs, and is readily available as large-area, epiready wafers at much lower cost in comparison with lattice-matched CdZnTe substrates. The resultant stress due to lattice and thermal mismatch between the HgCdTe epilayer and various substrates has been calculated in this work using the elasticity matrix, and the corresponding stress distribution simulated using ANSYS. The simulated structures were matched by experimental samples involving MBE growth of HgCdTe on GaAs, GaSb, and CdZnTe substrates, and were characterized via reflection high-energy electron diffraction and x-ray diffraction analysis, followed by etch pit density (EPD) analysis. In comparison with other alternative substrates, GaSb is shown to have lower interface stress and lower EPD, rendering it an interesting and promising alternative substrate material for HgCdTe epitaxy.
Carlson, C E; Lebed, R F; Carlson, Carl E.; Carone, Christopher D.; Lebed, Richard F.
2001-01-01
Jurco, Moller, Schraml, Schupp, and Wess have shown how to construct noncommutative SU(N) gauge theories from a consistency relation. Within this framework, we present the Feynman rules for noncommutative QCD and compute explicitly the most dangerous Lorentz-violating operator generated through radiative corrections. We find that interesting effects appear at the one-loop level, in contrast to conventional noncommutative U(N) gauge theories, leading to a stringent bound. Our results are consistent with others appearing recently in the literature that suggest collider limits are not competitive with low-energy tests of Lorentz violation for bounding the scale of spacetime noncommutativity.
Mayes, Jennifer; Tinker-Mill, Claire; Kolosov, Oleg; Zhang, Hao; Tabner, Brian J; Allsop, David
2014-04-25
According to the "amyloid cascade" hypothesis of Alzheimer disease, the formation of Aβ fibrils and senile plaques in the brain initiates a cascade of events leading to the formation of neurofibrillary tangles, neurodegeneration, and the symptom of dementia. Recently, however, emphasis has shifted away from amyloid fibrils as the predominant toxic form of Aβ toward smaller aggregates, referred to as "soluble oligomers." These oligomers have become one of the prime suspects for involvement in the early oxidative damage that is evident in this disease. This raises the question whether or not Aβ fibrils are actually "inert tombstones" present at the end of the aggregation process. Here we show that, when Aβ(1-42) aggregates, including fibrils, are bound to Cu(II) ions, they retain their redox activity and are able to degrade hydrogen peroxide (H2O2) with the formation of hydroxyl radicals and the consequent oxidation of the peptide (detected by formation of carbonyl groups). We find that this ability increases as the Cu(II):peptide ratio increases and is accompanied by changes in aggregate morphology, as determined by atomic force microscopy. When aggregates are prepared in the copresence of Cu(II) and Zn(II) ions, the ratio of Cu(II):Zn(II) becomes an important factor in the degeneration of H2O2, the formation of carbonyl groups in the peptide, and in aggregate morphology. We believe, therefore, that Aβ fibrils can destroy H2O2 and generate damaging hydroxyl radicals and, so, are not necessarily inert end points.
Bound Polaron Pair Formation in Poly (phenylenevinylenes)
Rothberg, Lewis
The following sections are included: * INTRODUCTION * PHOTOGENERATED YIELD OF SINGLET EXCITONS * AGGREGRATION EFFECTS ON EXCITED STATE PHOTO-GENERATION * ASSIGNMENT TO BOUND POLARON PAIRS AND DISCUSSION * PROBLEMS WITH THE BOUND POLARON PAIR PICTURE AND CONCLUSION * REFERENCES
Positive Root Bounds and Root Separation Bounds
Herman, Aaron Paul
In this thesis, we study two classes of bounds on the roots of a polynomial (or polynomial system). A positive root bound of a polynomial is an upper bound on the largest positive root. A root separation bound of a polynomial is a lower bound on the distance between the roots. Both classes of bounds are fundamental tools in computer algebra and computational real algebraic geometry, with numerous applications. In the first part of the thesis, we study the quality of positive root bounds. Higher quality means that the relative over-estimation (the ratio of the bound and the largest positive root) is smaller. We find that all known positive root bounds can be arbitrarily bad. We then show that a particular positive root bound is tight for certain important classes of polynomials. In the remainder of the thesis, we turn to root separation bounds. We observe that known root separation bounds are usually very pessimistic. To our surprise, we also find that known root separation bounds are not compatible with the geometry of the roots (unlike positive root bounds). This motivates us to derive new root separation bounds. In the second part of this thesis, we derive a new root separation for univariate polynomials by transforming a known bound into a new improved bound. In the third part of this thesis, we use a similar strategy to derive a new improved root separation bound for polynomial systems.
Kityk, I. V.; AlZayed, N. S.; Kobayashi, Kei; Chen, Xiaomei; Oyama, Munetaka; El-Naggar, A. M.; Albassam, A. A.
2015-07-01
Principal role of substrate types on the nonlinear optical properties of Au NP was investigated. Third harmonic generation (THG) studies were carried out for Au NP deposited on the Al-doped ZnO (AuNP/AZO) and Ga-doped ZnO (AuNP/GZO) substrates at fundamental wavelength of 20 ns Er:glass laser (generating at 1540 nm wavelength) during photostimulation by the 532 nm 15 ns laser pulses. Sizes of Au NP were 5 nm, 10 nm, 20 nm, and 30 nm. The output signal was registered at 513 nm. The photoinduced power density was increased from 0 up to 800 MW/cm2. So in our work we explore the role of the substrate on the optically stimulated non-linear optical properties during simultaneous photo stimulation near the inter-band transition. The results were studied depending on the type of substrate and the sizes of the deposited nanoparticles. The analysis was done within a framework of interaction between the photoinduced light and SPR wavelengths. Control of the photoinduced temperature was done.
Market Access through Bound Tariffs
DEFF Research Database (Denmark)
Sala, Davide; Schröder, Philipp J.H.; Yalcin, Erdal
on the risk that exporters face in destination markets. The present paper formalizes the underlying interaction of risk, fixed export costs and firms' market entry decisions based on techniques known from the real options literature; doing so we highlight the important role of bound tariffs at the extensive......WTO negotiations deal predominantly with bound - besides applied - tariff rates. But, how can reductions in tariffs ceilings, i.e. tariff rates that no exporter may ever actually be confronted with, generate market access? The answer to this question relates to the effects of tariff bindings...... margin of trade. We find that bound tariffs are more effective with higher risk destination markets, that a large binding overhang may still command substantial market access, and that reductions in bound tariffs generate effective market access even when bound rates are above current and long...
Market access through bound tariffs
DEFF Research Database (Denmark)
Sala, Davide; Schröder, Philipp J.H.; Yalcin, Erdal
2010-01-01
on the risk that exporters face in destination markets. The present paper formalizes the underlying interaction of risk, fixed export costs and firms' market entry decisions based on techniques known from the real options literature; doing so we highlight the important role of bound tariffs at the extensive......WTO negotiations deal predominantly with bound - besides applied - tariff rates. But, how can reductions in tariffs ceilings, i.e. tariff rates that no exporter may ever actually be confronted with, generate market access? The answer to this question relates to the effects of tariff bindings...... margin of trade. We find that bound tariffs are more effective with higher risk destination markets, that a large binding overhang may still command substantial market access, and that reductions in bound tariffs generate effective market access even when bound rates are above current and longterm...
Directory of Open Access Journals (Sweden)
Ballester Pla, Coralio
2012-03-01
Full Text Available The observation of the actual behavior by economic decision makers in the lab and in the field justifies that bounded rationality has been a generally accepted assumption in many socio-economic models. The goal of this paper is to illustrate the difficulties involved in providing a correct definition of what a rational (or irrational agent is. In this paper we describe two frameworks that employ different approaches for analyzing bounded rationality. The first is a spatial segregation set-up that encompasses two optimization methodologies: backward induction and forward induction. The main result is that, even under the same state of knowledge, rational and non-rational agents may match their actions. The second framework elaborates on the relationship between irrationality and informational restrictions. We use the beauty contest (Nagel, 1995 as a device to explain this relationship.
La observación del comportamiento de los agentes económicos tanto en el laboratorio como en la vida real justifica que la racionalidad acotada sea un supuesto aceptado en numerosos modelos socio-económicos. El objetivo de este artículo es ilustrar las dificultades que conlleva una correcta definición de qué es un agente racional (irracional. En este artículo se describen dos marcos que emplean diferentes metodologías para analizar la racionalidad acotada. El primero es un modelo de segregación espacial donde se contrastan dos metodologías de optimización: inducción hacia atrás y hacia adelante. El resultado principal es que, incluso con el mismo nivel de conocimiento, tanto agentes racionales como irracionales podrían coincidir en sus acciones. El segundo marco trabaja sobre la relación entre irracionalidad y restricción de información. Se utiliza el juego llamado “beauty contest” (Nagel 1995 como mecanismo para explicar dicha relación.
Institute of Scientific and Technical Information of China (English)
Wang Yan-Gang; Xu Ming-Zhen; Tan Chang-Hua
2007-01-01
The low voltage substrate current (Ib) has been studied based on generation kinetics and used as a monitor of interface states (Nit) generation for ultra-thin oxide n-MOSFETs under constant voltage stress. It is found that the low voltage Ib is formed by electrons tunnelling through interface states, and the variations of Ib(△Ib) are proportional to variations of Nit (△Nit). The Nit energy distributions were determined by differentiating Nit(Vg). The results have been compared with that measured by using gate diode technique.
Lee, Po-Hsien; Kuo, Kuei-Ling; Chu, Pei-Ying; Liu, Eric M; Lin, Jung-Hsin
2009-07-01
Many proteins use a long channel to guide the substrate or ligand molecules into the well-defined active sites for catalytic reactions or for switching molecular states. In addition, substrates of membrane transporters can migrate to another side of cellular compartment by means of certain selective mechanisms. SLITHER (http://bioinfo.mc.ntu.edu.tw/slither/or http://slither.rcas.sinica.edu.tw/) is a web server that can generate contiguous conformations of a molecule along a curved tunnel inside a protein, and the binding free energy profile along the predicted channel pathway. SLITHER adopts an iterative docking scheme, which combines with a puddle-skimming procedure, i.e. repeatedly elevating the potential energies of the identified global minima, thereby determines the contiguous binding modes of substrates inside the protein. In contrast to some programs that are widely used to determine the geometric dimensions in the ion channels, SLITHER can be applied to predict whether a substrate molecule can crawl through an inner channel or a half-channel of proteins across surmountable energy barriers. Besides, SLITHER also provides the list of the pore-facing residues, which can be directly compared with many genetic diseases. Finally, the adjacent binding poses determined by SLITHER can also be used for fragment-based drug design.
Counting Young Tableaux of Bounded Height
Bergeron, Francois; Gascon, Francis
2000-03-01
We show that formulas of Gessel, for the generating functions for Young standard tableaux of height bounded by k (see [2]), satisfy linear differential equations, with polynomial coefficients, equivalent to P-recurrences conjectured by Favreau, Krob and the first author (see [1]) for the number of bounded height tableaux and pairs of bounded height tableaux.
Institute of Scientific and Technical Information of China (English)
A. Zerarka; O. Haif-Khaif; K. Libarir; A. Attaf
2011-01-01
This research concerns with the development of a linear three-dimensional numerical model in a quantum environment. We use the semi inverse variational method together with B-spline bases to extract the structures of bound states of the Schr(o)dinger equation. The model performances are demonstrated for the Coulomb type problem. From realistic examples, some state configurations are presented to illustrate the effectiveness and the exactitude of the proposed method.
Gershlak, Joshua R.; Resnikoff, Joshua IN; Sullivan, Kelly E; Williams, Corin; Wang, Raymond M.; Black, Lauren D.
2013-01-01
In this study we present a novel method for studying cellular traction force generation and mechanotransduction in the context of cardiac development. Rat hearts from three distinct stage of development (fetal, neonatal and adult) were isolated, decellularized and characterized via mechanical testing and protein compositional analysis. Stiffness increased ~2 fold between fetal and neonatal time points but not between neonatal and adult. Composition of structural extracellular matrix (ECM) proteins was significantly different between all three developmental ages. ECM that was solubilized via pepsin digestion was cross-linked into polyacrylamide gels of varying stiffness and traction force microscopy was used to assess the ability of mesenchymal stem cells (MSCs) to generate traction stress against the substrates. The response to increasing stiffness was significantly different depending on the developmental age of the ECM. An investigation into early cardiac differentiation of MSCs demonstrated a dependence of the level of expression of early cardiac transcription factors on the composition of the complex ECM. In summary, this study found that complex ECM composition plays an important role in modulating a cell’s ability to generate traction stress against a substrate, which is a significant component of mechanotransductive signaling. PMID:23994333
Directory of Open Access Journals (Sweden)
VLADIMIR P. BESKOSKI
2007-06-01
Full Text Available Within this paper a new idea for the removal of organically bonded sulphur from fossil fuels is discussed. Dibenzothiophene (DBT was used as a model compound of organicmolecules containing sulphur. This form of (biodesulphurization was performed by an indirect mechanism in which iron(III ions generated from pyrite by Acidithiobacillus ferrooxidans performed the abiotic oxidation. The obtained reaction products, dibenzothiopene sulfoxide and dibenzothiophene sulfone, are more soluble in water than the basic substrate and the obtained results confirmed the basic hypothesis and give the posibility of continuing the experiments related to application of this (biodesulphurization process.
de Manzano, Örjan; Ullén, Fredrik
2012-01-02
To what extent free response generation in different tasks uses common and task-specific neurocognitive processes has remained unclear. Here, we investigated overlap and differences in neural activity during musical improvisation and pseudo-random response generation. Brain activity was measured using fMRI in a group of professional classical pianists, who performed musical improvisation of melodies, pseudo-random key-presses and a baseline condition (sight-reading), on either two, six or twelve keys on a piano keyboard. The results revealed an extensive overlap in neural activity between the two generative conditions. Active regions included the dorsolateral and dorsomedial prefrontal cortices, inferior frontal gyrus, anterior cingulate cortex and pre-SMA. No regions showed higher activity in improvisation than in pseudo-random generation. These findings suggest that the activated regions fulfill generic functions that are utilized in different types of free generation tasks, independent of overall goal. In contrast, pseudo-random generation was accompanied by higher activity than improvisation in several regions. This presumably reflects the participants' musical expertise as well as the pseudo-random generation task's high load on attention, working memory, and executive control. The results highlight the significance of using naturalistic tasks to study human behavior and cognition. No brain activity was related to the size of the response set. We discuss that this may reflect that the musicians were able to use specific strategies for improvisation, by which there was no simple relationship between response set size and neural activity. Copyright © 2011 Elsevier Inc. All rights reserved.
Awan, Kashif M.
2016-08-11
Gallium Nitride (GaN), along with other III-Nitrides, is attractive for optoelectronic and electronic applications due to its wide direct energy bandgap, as well as high thermal stability. GaN is transparent over a wide wavelength range from infra-red to the visible band, which makes it suitable for lasers and LEDs. It is also expected to be a suitable candidate for integrated nonlinear photonic circuits for a wide range of applications from all-optical signal processing to quantum computing and on-chip wavelength conversion. Despite its abundant use in commercial devices, there is still need for suitable substrate materials to reduce high densities of threading dislocations (TDs) and other structural defects like stacking faults, and grain boundaries. All these defects degrade the optical quality of the epi-grown GaN layer as they act as non-radiative recombination centers.
Directory of Open Access Journals (Sweden)
A. Groza
2014-01-01
Full Text Available The porous alumina (Al2O3 layer obtained at the interface between polydimethylsiloxane/hydrogen peroxide medium and aluminum substrate under charged and neutral species injection produced in negative corona discharges in air at atmospheric pressure is analyzed by different methods in this paper. The scanning electron microscopy investigations showed the uniform distribution of the pores formed in the alumina layer and their columnar structures. Both energy dispersive X-ray spectroscopy (EDS and X-ray photoelectron spectroscopy (XPS measurements indicate that during the anodization process of the aluminum in the polydimethylsiloxane/hydrogen peroxide medium in corona discharge the incorporation of silicon in the structure of the alumina layer is possible.
Varela, Marta; Colman, Michael A; Hancox, Jules C; Aslanidi, Oleg V
2016-12-01
Anti-arrhythmic drug therapy is a frontline treatment for atrial fibrillation (AF), but its success rates are highly variable. This is due to incomplete understanding of the mechanisms of action of specific drugs on the atrial substrate at different stages of AF progression. We aimed to elucidate the role of cellular, tissue and organ level atrial heterogeneities in the generation of a re-entrant substrate during AF progression, and their modulation by the acute action of selected anti-arrhythmic drugs. To explore the complex cell-to-organ mechanisms, a detailed biophysical models of the entire 3D canine atria was developed. The model incorporated atrial geometry and fibre orientation from high-resolution micro-computed tomography, region-specific atrial cell electrophysiology and the effects of progressive AF-induced remodelling. The actions of multi-channel class III anti-arrhythmic agents vernakalant and amiodarone were introduced in the model by inhibiting appropriate ionic channel currents according to experimentally reported concentration-response relationships. AF was initiated by applied ectopic pacing in the pulmonary veins, which led to the generation of localized sustained re-entrant waves (rotors), followed by progressive wave breakdown and rotor multiplication in both atria. The simulated AF scenarios were in agreement with observations in canine models and patients. The 3D atrial simulations revealed that a re-entrant substrate was typically provided by tissue regions of high heterogeneity of action potential duration (APD). Amiodarone increased atrial APD and reduced APD heterogeneity and was more effective in terminating AF than vernakalant, which increased both APD and APD dispersion. In summary, the initiation and sustenance of rotors in AF is linked to atrial APD heterogeneity and APD reduction due to progressive remodelling. Our results suggest that anti-arrhythmic strategies that increase atrial APD without increasing its dispersion are
DEFF Research Database (Denmark)
Kracun, Stjepan Kresimir; Schückel, Julia; Westereng, Bjørge;
2015-01-01
Background: Enzymes that degrade or modify polysaccharides are widespread in pro- and eukaryotes and have multiple biological roles and biotechnological applications. Recent advances in genome and secretome sequencing, together with associated bioinformatic tools, have enabled large numbers...... of carbohydrate-acting enzymes to be putatively identified. However, there is a paucity of methods for rapidly screening the biochemical activities of these enzymes, and this is a serious bottleneck in the development of enzyme-reliant bio-refining processes. Results: We have developed a new generation of multi...... carbohydrate-acting enzymes, and the assays have the potential to be incorporated into fully or semi-automated robotic enzyme screening systems...
Davis, Kathryn M.; Badu-Tawiah, Abraham K.
2016-10-01
The exposure of an aqueous-based liquid drop containing amines and graphite particles to plasma generated by a corona discharge results in heterogeneous aerobic dehydrogenation reactions. This green oxidation reaction occurring in ambient air afforded the corresponding quinolines and nitriles from tetrahydroquinolines and primary amines, respectively, at >96% yields in less than 2 min of reaction time. The accelerated dehydrogenation reactions occurred on the surface of a low energy hydrophobic paper, which served both as container for holding the reacting liquid drop and as a medium for achieving paper spray ionization of reaction products for subsequent characterization by ambient mass spectrometry. Control experiments indicate superoxide anions (O2 •-) are the main reactive species; the presence of graphite particles introduced heterogeneous surface effects, and enabled the efficient sampling of the plasma into the grounded analyte droplet solution.
Davis, Kathryn M.; Badu-Tawiah, Abraham K.
2017-04-01
The exposure of an aqueous-based liquid drop containing amines and graphite particles to plasma generated by a corona discharge results in heterogeneous aerobic dehydrogenation reactions. This green oxidation reaction occurring in ambient air afforded the corresponding quinolines and nitriles from tetrahydroquinolines and primary amines, respectively, at >96% yields in less than 2 min of reaction time. The accelerated dehydrogenation reactions occurred on the surface of a low energy hydrophobic paper, which served both as container for holding the reacting liquid drop and as a medium for achieving paper spray ionization of reaction products for subsequent characterization by ambient mass spectrometry. Control experiments indicate superoxide anions (O2 •-) are the main reactive species; the presence of graphite particles introduced heterogeneous surface effects, and enabled the efficient sampling of the plasma into the grounded analyte droplet solution.
Market access through bound tariffs
DEFF Research Database (Denmark)
Sala, Davide; Schröder, Philipp J.H.; Yalcin, Erdal
2010-01-01
WTO negotiations deal predominantly with bound - besides applied - tariff rates. But, how can reductions in tariffs ceilings, i.e. tariff rates that no exporter may ever actually be confronted with, generate market access? The answer to this question relates to the effects of tariff bindings on t...
Market Access through Bound Tariffs
DEFF Research Database (Denmark)
Sala, Davide; Schröder, Philipp J.H.; Yalcin, Erdal
WTO negotiations deal predominantly with bound - besides applied - tariff rates. But, how can reductions in tariffs ceilings, i.e. tariff rates that no exporter may ever actually be confronted with, generate market access? The answer to this question relates to the effects of tariff bindings on t...
Khlebnikova, Yu. V.; Rodionov, D. P.; Gervas'eva, I. V.; Suaridze, T. R.; Egorova, L. Yu.
2016-11-01
The structure and the process of texture formation in ribbons made of Cu-Ni- M ( M = Fe, Cr, V) ternary alloys have been studied upon cold rolling deformation to a degree of 99% and subsequent recrystallization annealing. The possibility of obtaining a perfect cube texture in a thin ribbon made of copper-nickel-based ternary alloys with additives of iron, chromium, and vanadium has been shown, which opens the prospects of the use of these alloys as substrates in the technology of production of tapes of high-temperature second-generation superconductors. Optimal annealing regimes have been determined, which make it possible to obtain a perfect biaxial texture close to single-crystalline one with the content of cube-oriented grains {001}±10° more than 99% on the surface of the textured ribbon.
Viscosity bound versus the universal relaxation bound
Hod, Shahar
2017-10-01
For gauge theories with an Einstein gravity dual, the AdS/CFT correspondence predicts a universal value for the ratio of the shear viscosity to the entropy density, η / s = 1 / 4 π. The holographic calculations have motivated the formulation of the celebrated KSS conjecture, according to which all fluids conform to the lower bound η / s ≥ 1 / 4 π. The bound on η / s may be regarded as a lower bound on the relaxation properties of perturbed fluids and it has been the focus of much recent attention. In particular, it was argued that for a class of field theories with Gauss-Bonnet gravity dual, the shear viscosity to entropy density ratio, η / s, could violate the conjectured KSS bound. In the present paper we argue that the proposed violations of the KSS bound are strongly constrained by Bekenstein's generalized second law (GSL) of thermodynamics. In particular, it is shown that physical consistency of the Gauss-Bonnet theory with the GSL requires its coupling constant to be bounded by λGB ≲ 0 . 063. We further argue that the genuine physical bound on the relaxation properties of physically consistent fluids is ℑω(k > 2 πT) > πT, where ω and k are respectively the proper frequency and the wavenumber of a perturbation mode in the fluid.
Functions of bounded variation
Lind, Martin
2006-01-01
The paper begins with a short survey of monotone functions. The functions of bounded variation are introduced and some basic properties of these functions are given. Finally the jump function of a function of bounded variation is defined.
Felker, Susan B.
2005-01-01
Robert Cobb Jr., of Greensboro, N.C., a 1986-89 participant in the Virginia Tech Upward Bound program, was recently named Virginia's TRIO Achiever for 2004. Federal TRIO programs include Upward Bound and Educational Talent Search.
Energy Technology Data Exchange (ETDEWEB)
Atkinson, D. (Fermi National Accelerator Lab., Batavia, IL (United States) Institute for Theoretical Physics, Groningen, The Netherlands (NL)); Harada, M. (Nagoya Univ. (Japan). Dept. of Physics); Sanda, A.I. (Superconducting Super Collider Lab., Dallas, TX (United States) Rockefeller Univ., New York, NY (United States). Dept. of Physics)
1991-10-01
We investigate the possibility that the Higgs lagrangian predicts the existence of a P-wave W{sub L}W{sub L} resonance. This problem is equivalent to studying the formation of the {rho} meson by the dynamics contained in the {sigma} model. Using the Pade approximation, Basdevant and Lee had claimed that {rho} is generated dynamically. We show that their result, while computationally correct, is not significant, because of the position of the Landau ghost. For the same reason, a W{sub L}W{sub L} P-wave resonance below 2 TeV is not expected, unless the standard model is violated. 10 refs., 8 figs.
No-arbitrage bounds for financial scenarios
DEFF Research Database (Denmark)
Geyer, Alois; Hanke, Michael; Weissensteiner, Alex
2014-01-01
We derive no-arbitrage bounds for expected excess returns to generate scenarios used in financial applications. The bounds allow to distinguish three regions: one where arbitrage opportunities will never exist, a second where arbitrage may be present, and a third, where arbitrage opportunities...
Delos Santos, Ramon; Ibañes, Jasher John; Balgos, Maria Herminia; Jaculbia, Rafael; Afalla, Jessica Pauline; Bailon-Somintac, Michelle; Estacio, Elmer; Salvador, Arnel; Somintac, Armando; Que, Christopher; Tsuzuki, Satoshi; Yamamoto, Kohji; Tani, Masahiko
2015-12-01
GaAs/Al0.1Ga0.9As core-shell nanowires (CSNWs), with average lateral size of 125 nm, were grown on gold nanoparticle-activated Si (100) and Si (111) substrates via molecular beam epitaxy. Room temperature-photoluminescence (RT-PL) from the samples showed bulk-like GaAs and Al0.1Ga0.9As bandgap emission peaks at 1.43 and 1.56 eV, respectively. Higher PL emission intensity of the sample on Si (111) compared to that on Si (100) is attributed to uniform Al0.1Ga0.9As shell passivation of surface states on Si (111)-grown CSNWs. Carrier dynamics in two different temporal regimes were studied. In the sub-nanosecond time scale (300-500 ps), time-resolved radiative recombination efficiency of carriers was examined. In the 0-4 ps range, surface field-driven ballistic transport of carriers was probed in terms of the radiated terahertz (THz) waves. Time-resolved PL measurements at 300 K revealed that the carrier recombination lifetime of the GaAs core on Si (100)-grown CSNWs is 333 ps while that on Si (111)-grown sample is 500 ps. Ultrafast photoexcitation of GaAs core on the two samples generated a negligible difference in the intensity and bandwidth of emitted THz radiation. This result is ascribed to the fact that the deposited GaAs material on both substrates produced samples with comparable NW densities and similar GaAs core average diameter of about 75 nm. The samples' difference in GaAs core's carrier recombination lifetime did not influence THz emission since the two processes involve distinct mechanisms. The THz spectrum of CSNWs grown on Si (111) exhibited Fabry-Perot modes that originated from multiple reflections of THz waves within the Si substrate.
Using tolerance bounds in scientific investigations
Energy Technology Data Exchange (ETDEWEB)
Wendelberger, J.R.
1996-07-01
Assessment of the variability in population values plays an important role in the analysis of scientific data. Analysis of scientific data often involves developing a bound on a proportion of a population. Sometimes simple probability bounds are obtained using formulas involving known mean and variance parameters and replacing the parameters by sample estimates. The resulting bounds are only approximate and fail to account for the variability in the estimated parameters. Tolerance bounds provide bounds on population proportions which account for the variation resulting from the estimated mean and variance parameters. A beta content, gamma confidence tolerance interval is constructed so that a proportion beta of the population lies within the region bounded by the interval with confidence gamma. An application involving corrosion measurements is used to illustrate the use of tolerance bounds for different situations. Extensions of standard tolerance intervals are applied to generate regression tolerance bounds, tolerance bounds for more general models of measurements collected over time, and tolerance intervals for varying precision data. Tolerance bounds also provide useful information for designing the collection of future data.
Khlebnikova, Yu. V.; Rodionov, D. P.; Gervas'eva, I. V.; Suaridze, T. R.; Egorova, L. Yu.; Akshentsev, Yu. N.; Kazantsev, V. A.
2015-01-01
The process of texture formation in tapes made of a number of binary and ternary copper alloys upon cold rolling to degrees of deformation of 98.6-99% and subsequent recrystallization annealing has been studied. The possibility of designing multicomponent alloys based on the binary Cu-30% Ni alloy additionally alloyed with elements that strengthen the fcc matrix, such as iron or chromium, has been shown. The opportunity of obtaining a perfect cube texture in a thin tape made of binary and ternary copper alloys opens prospects for their use as substrates in the technology of second-generation HTSC cables. Optimum regimes of annealing have been determined, which make it possible to obtain in the Cu- M and Cu-(30-40)Ni- M ( M = Fe, Cr, Mn) alloys a perfect biaxial texture with the fraction of cube grains {001} on the surface of the tape more than 94%. The estimation of the mechanical properties of the textured tapes of the investigated alloys demonstrates a yield strength that is 2.5-4.5 times greater than that in the textured tape of pure copper.
Chambers, David W
2005-01-01
Groups naturally promote their strengths and prefer values and rules that give them an identity and an advantage. This shows up as generational tensions across cohorts who share common experiences, including common elders. Dramatic cultural events in America since 1925 can help create an understanding of the differing value structures of the Silents, the Boomers, Gen Xers, and the Millennials. Differences in how these generations see motivation and values, fundamental reality, relations with others, and work are presented, as are some applications of these differences to the dental profession.
Physical Uncertainty Bounds (PUB)
Energy Technology Data Exchange (ETDEWEB)
Vaughan, Diane Elizabeth [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Preston, Dean L. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
2015-03-19
This paper introduces and motivates the need for a new methodology for determining upper bounds on the uncertainties in simulations of engineered systems due to limited fidelity in the composite continuum-level physics models needed to simulate the systems. We show that traditional uncertainty quantification methods provide, at best, a lower bound on this uncertainty. We propose to obtain bounds on the simulation uncertainties by first determining bounds on the physical quantities or processes relevant to system performance. By bounding these physics processes, as opposed to carrying out statistical analyses of the parameter sets of specific physics models or simply switching out the available physics models, one can obtain upper bounds on the uncertainties in simulated quantities of interest.
Institute of Scientific and Technical Information of China (English)
刘喜明; 连建设; 张庆茂
2001-01-01
ingle pass powder-feeding laser cladding is carried out with different scanning speeds, powder feeding rates and powder sizes. The influence of the processing parameters on the morphology and structure at and adjacent to the interface formed between the coating and the substrate is studied by means of optical and electron microscopy.%通过调整扫描速度、送粉速率、熔覆材料颗粒度进行单道送粉激光熔覆试验，借助显微组织分析、扫描电子显微分析、透射电子显微分析，研究了工艺参数对送粉式激光熔覆层与基体间结合界面形态及界面附近组织结构的影响规律：工艺参数对熔覆层稀释率的影响作用，提出熔覆层界面附近局部稀释率的概念。
Ultrasensitivity in phosphorylation-dephosphorylation cycles with little substrate.
Directory of Open Access Journals (Sweden)
Bruno M C Martins
Full Text Available Cellular decision-making is driven by dynamic behaviours, such as the preparations for sunrise enabled by circadian rhythms and the choice of cell fates enabled by positive feedback. Such behaviours are often built upon ultrasensitive responses where a linear change in input generates a sigmoidal change in output. Phosphorylation-dephosphorylation cycles are one means to generate ultrasensitivity. Using bioinformatics, we show that in vivo levels of kinases and phosphatases frequently exceed the levels of their corresponding substrates in budding yeast. This result is in contrast to the conditions often required by zero-order ultrasensitivity, perhaps the most well known means for how such cycles become ultrasensitive. We therefore introduce a mechanism to generate ultrasensitivity when numbers of enzymes are higher than numbers of substrates. Our model combines distributive and non-distributive actions of the enzymes with two-stage binding and concerted allosteric transitions of the substrate. We use analytical and numerical methods to calculate the Hill number of the response. For a substrate with [Formula: see text] phosphosites, we find an upper bound of the Hill number of [Formula: see text], and so even systems with a single phosphosite can be ultrasensitive. Two-stage binding, where an enzyme must first bind to a binding site on the substrate before it can access the substrate's phosphosites, allows the enzymes to sequester the substrate. Such sequestration combined with competition for each phosphosite provides an intuitive explanation for the sigmoidal shifts in levels of phosphorylated substrate. Additionally, we find cases for which the response is not monotonic, but shows instead a peak at intermediate levels of input. Given its generality, we expect the mechanism described by our model to often underlay decision-making circuits in eukaryotic cells.
Li, Yiming; Syvitski, Ray T; Chu, Grace C; Ikeda-Saito, Masao; Mar, Gerd N La
2003-02-28
The molecular structure and dynamic properties of the active site environment of HmuO, a heme oxygenase (HO) from the pathogenic bacterium Corynebacterium diphtheriae, have been investigated by (1)H NMR spectroscopy using the human HO (hHO) complex as a homology model. It is demonstrated that not only the spatial contacts among residues and between residues and heme, but the magnetic axes that can be related to the direction and magnitude of the steric tilt of the FeCN unit are strongly conserved in the two HO complexes. The results indicate that very similar contributions of steric blockage of several meso positions and steric tilt of the attacking ligand are operative. A distal H-bond network that involves numerous very strong H-bonds and immobilized water molecules is identified in HmuO that is analogous to that previously identified in hHO (Li, Y., Syvitski, R. T., Auclair, K., Wilks, A., Ortiz de Montellano, P. R., and La Mar, G. N. (2002) J. Biol. Chem. 277, 33018-33031). The NMR results are completely consistent with the very recent crystal structure of the HmuO.substrate complex. The H-bond network/ordered water molecules are proposed to orient the distal water molecule near the catalytically key Asp(136) (Asp(140) in hHO) that stabilizes the hydroperoxy intermediate. The dynamic stability of this H-bond network in HmuO is significantly greater than in hHO and may account for the slower catalytic rate in bacterial HO compared with mammalian HO.
Bound-free Spectra for Diatomic Molecules
Schwenke, David W.
2012-01-01
It is now recognized that prediction of radiative heating of entering space craft requires explicit treatment of the radiation field from the infrared (IR) to the vacuum ultra violet (VUV). While at low temperatures and longer wavelengths, molecular radiation is well described by bound-bound transitions, in the short wavelength, high temperature regime, bound-free transitions can play an important role. In this work we describe first principles calculations we have carried out for bound-bound and bound-free transitions in N2, O2, C2, CO, CN, NO, and N2+. Compared to bound ]bound transitions, bound-free transitions have several particularities that make them different to deal with. These include more complicated line shapes and a dependence of emission intensity on both bound state diatomic and atomic concentrations. These will be discussed in detail below. The general procedure we used was the same for all species. The first step is to generate potential energy curves, transition moments, and coupling matrix elements by carrying out ab initio electronic structure calculations. These calculations are expensive, and thus approximations need to be made in order to make the calculations tractable. The only practical method we have to carry out these calculations is the internally contracted multi-reference configuration interaction (icMRCI) method as implemented in the program suite Molpro. This is a widely used method for these kinds of calculations, and is capable of generating very accurate results. With this method, we must first of choose which electrons to correlate, the one-electron basis to use, and then how to generate the molecular orbitals.
de Rham, Claudia; Tolley, Andrew J; Zhou, Shuang-Yong
2016-01-01
Recently, aLIGO has announced the first direct detections of gravitational waves, a direct manifestation of the propagating degrees of freedom of gravity. The detected signals GW150914 and GW151226 have been used to examine the basic properties of these gravitational degrees of freedom, particularly setting an upper bound on their mass. It is timely to review what the mass of these gravitational degrees of freedom means from the theoretical point of view, particularly taking into account the recent developments in constructing consistent massive gravity theories. Apart from the GW150914 mass bound, a few other observational bounds have been established from the effects of the Yukawa potential, modified dispersion relation and fifth force that are all induced when the fundamental gravitational degrees of freedom are massive. We review these different mass bounds and examine how they stand in the wake of recent theoretical developments and how they compare to the bound from GW150914.
Bounding species distribution models
Directory of Open Access Journals (Sweden)
Thomas J. STOHLGREN, Catherine S. JARNEVICH, Wayne E. ESAIAS,Jeffrey T. MORISETTE
2011-10-01
Full Text Available Species distribution models are increasing in popularity for mapping suitable habitat for species of management concern. Many investigators now recognize that extrapolations of these models with geographic information systems (GIS might be sensitive to the environmental bounds of the data used in their development, yet there is no recommended best practice for “clamping” model extrapolations. We relied on two commonly used modeling approaches: classification and regression tree (CART and maximum entropy (Maxent models, and we tested a simple alteration of the model extrapolations, bounding extrapolations to the maximum and minimum values of primary environmental predictors, to provide a more realistic map of suitable habitat of hybridized Africanized honey bees in the southwestern United States. Findings suggest that multiple models of bounding, and the most conservative bounding of species distribution models, like those presented here, should probably replace the unbounded or loosely bounded techniques currently used [Current Zoology 57 (5: 642–647, 2011].
Bounding Species Distribution Models
Stohlgren, Thomas J.; Jarnevich, Cahterine S.; Morisette, Jeffrey T.; Esaias, Wayne E.
2011-01-01
Species distribution models are increasing in popularity for mapping suitable habitat for species of management concern. Many investigators now recognize that extrapolations of these models with geographic information systems (GIS) might be sensitive to the environmental bounds of the data used in their development, yet there is no recommended best practice for "clamping" model extrapolations. We relied on two commonly used modeling approaches: classification and regression tree (CART) and maximum entropy (Maxent) models, and we tested a simple alteration of the model extrapolations, bounding extrapolations to the maximum and minimum values of primary environmental predictors, to provide a more realistic map of suitable habitat of hybridized Africanized honey bees in the southwestern United States. Findings suggest that multiple models of bounding, and the most conservative bounding of species distribution models, like those presented here, should probably replace the unbounded or loosely bounded techniques currently used [Current Zoology 57 (5): 642-647, 2011].
Physics with loosely bound nuclei
Indian Academy of Sciences (India)
Chhanda Samanta
2001-08-01
The essential aspect of contemporary physics is to understand properties of nucleonic matter that constitutes the world around us. Over the years research in nuclear physics has provided strong guidance in understanding the basic principles of nuclear interactions. But, the scenario of nuclear physics changed drastically as the new generation of accelerators started providing more and more rare isotopes, which are away from the line of stability. These weakly bound nuclei are found to exhibit new forms of nuclear matter and unprecedented exotic behaviour. The low breakup thresholds of these rare nuclei are posing new challenges to both theory and experiments. Fortunately, nature has provided a few loosely bound stable nuclei that have been studied thoroughly for decades. Attempts are being made to ﬁnd a consistent picture for the unstable nuclei starting from their stable counterparts. Some signiﬁcant differences in the structure and reaction mechanisms are found.
Bounds for the connective constant of the hexagonal lattice
Energy Technology Data Exchange (ETDEWEB)
Alm, S E; Parviainen, R [Department of Mathematics, Uppsala University, Box 480, 75106 Uppsala (Sweden)
2004-01-23
We give improved bounds for the connective constant of the hexagonal lattice. The lower bound is found by using Kesten's method of irreducible bridges and by determining generating functions for bridges on one-dimensional lattices. The upper bound is obtained as the largest eigenvalue of a certain transfer matrix. Using a relation between the hexagonal and the (3.12{sup 2}) lattices, we also give bounds for the connective constant of the latter lattice.
California Department of Resources — This shapefile displays the distribution of substrate types from Pt. Arena to Pt. Sal in central/northern California. Originally this data consisted of seven paper...
An Aromatic Cap Seals the Substrate Binding Site in an ECF-Type S Subunit for Riboflavin
Energy Technology Data Exchange (ETDEWEB)
Karpowich, Nathan K.; Song, Jinmei; Wang, Da-Neng
2016-06-13
ECF transporters are a family of active membrane transporters for essential micronutrients, such as vitamins and trace metals. Found exclusively in archaea and bacteria, these transporters are composed of four subunits: an integral membrane substrate-binding subunit (EcfS), a transmembrane coupling subunit (EcfT), and two ATP-binding cassette ATPases (EcfA and EcfA'). We have characterized the structural basis of substrate binding by the EcfS subunit for riboflavin from Thermotoga maritima, TmRibU. TmRibU binds riboflavin with high affinity, and the protein–substrate complex is exceptionally stable in solution. The crystal structure of riboflavin-bound TmRibU reveals an electronegative binding pocket at the extracellular surface in which the substrate is completely buried. Analysis of the intermolecular contacts indicates that nearly every available substrate hydrogen bond is satisfied. A conserved aromatic residue at the extracellular end of TM5, Tyr130, caps the binding site to generate a substrate-bound, occluded state, and non-conservative mutation of Tyr130 reduces the stability of this conformation. Using a novel fluorescence binding assay, we find that an aromatic residue at this position is essential for high-affinity substrate binding. Comparison with other S subunit structures suggests that TM5 and Loop5-6 contain a dynamic, conserved motif that plays a key role in gating substrate entry and release by S subunits of ECF transporters.
Hoyer, Paul
2016-01-01
Even a first approximation of bound states requires contributions of all powers in the coupling. This means that the concept of "lowest order bound state" needs to be defined. In these lectures I discuss the "Born" (no loop, lowest order in $\\hbar$) approximation. Born level states are bound by gauge fields which satisfy the classical field equations. As a check of the method, Positronium states of any momentum are determined as eigenstates of the QED Hamiltonian, quantized at equal time. Analogously, states bound by a strong external field $A^\\mu(\\xv)$ are found as eigenstates of the Dirac Hamiltonian. Their Fock states have dynamically created $e^+e^-$ pairs, whose distribution is determined by the Dirac wave function. The linear potential of $D=1+1$ dimensions confines electrons but repels positrons. As a result, the mass spectrum is continuous and the wave functions have features of both bound states and plane waves. The classical solutions of Gauss' law are explored for hadrons in QCD. A non-vanishing bo...
Bounding species distribution models
Institute of Scientific and Technical Information of China (English)
Thomas J. STOHLGREN; Catherine S. JARNEVICH; Wayne E. ESAIAS; Jeffrey T. MORISETTE
2011-01-01
Species distribution models are increasing in popularity for mapping suitable habitat for species of management concern.Many investigators now recognize that extrapolations of these models with geographic information systems (GIS) might be sensitive to the environmental bounds of the data used in their development,yet there is no recommended best practice for “clamping” model extrapolations.We relied on two commonly used modeling approaches:classification and regression tree (CART) and maximum entropy (Maxent) models,and we tested a simple alteration of the model extrapolations,bounding extrapolations to the maximum and minimum values of primary environmental predictors,to provide a more realistic map of suitable habitat of hybridized Africanized honey bees in the southwestern United States.Findings suggest that multiple models of bounding,and the most conservative bounding of species distribution models,like those presented here,should probably replace the unbounded or loosely bounded techniques currently used [Current Zoology 57 (5):642-647,2011].
National Research Council Canada - National Science Library
Varela, Marta; Colman, Michael A; Hancox, Jules C; Aslanidi, Oleg V
2016-01-01
...], which contributes the suboptimal success rates of clinical therapies [3]. Available anti-arrhythmic drugs have major limitations, including poor long-term effectiveness and, for some, high pro-arrhythmic risk [1,3]. Multiple studies have suggested that AF can be sustained by re-entrant waves propagating in an abnormal atrial substrate [2...
Energy Technology Data Exchange (ETDEWEB)
Simon, R.A.; Mallouk, T.E.; Daube, K.A.; Wrighton, M.S.
1985-09-25
This paper describes the behavior of electrode-bound redox material derived from the hydrolysis of the -Si(OEt)/sub 3/ groups of 1,1'-bis(((3-(triethoxysilyl)propyl)amino)carbonyl)cobaltocenium (I). Surfaces of the conventional electrodes SnO/sub 2/ and Pt derivatized with I have a reversible electrochemical response in H/sub 2/O/electrolyte; the E/sup 0/' is pH independent at -0.62 V vs. SCE. The photoelectrochemical behavior of p-type Si photocathodes derivatized with I reveals that the photoreduction of the cobaltocenium derivative can be effected at an electrode potential approx. 500 mV more positive than on metallic electrodes, consistent with the known behavior of p-type Si photocathodes. When polymer from I is deposited on p-type Si and subsequently coated with a small amount of Rh or Pd (approx. 10/sup -7/ mol/cm/sup 2/), the photoelectrochemical generation of H/sub 2/ is possible with 632.8-nm (approx. 15 mW/cm/sup 2/) radiation and efficiencies in the vicinity of 2%. The polymer derived from I is more optically transparent and more durable at negative potentials than redox polymers derived from vilogen monomers. Potential-step measurements and steady-state-current measurements for mediated redox processes show that the charge-transport rate for the polymer derived from I is about the same as for polymers from viologen monomers. 32 references, 8 figures.
Nagaraju, Mulpuri; McGowan, Lauren C; Hamelberg, Donald
2013-02-25
Human Cyclophilin A (CypA) catalyzes cis-trans isomerization of the prolyl peptide ω-bond in proteins and is involved in many subcellular processes. CypA has, therefore, been identified as a potential drug target in many diseases, and the development of potent inhibitors with high selectivity is a key objective. In computer-aided drug design, selectivity is improved by taking into account the inherent flexibility of the receptor. However, the relevant receptor conformations to focus on in order to develop highly selective inhibitors are not always obvious from available X-ray crystal structures or ensemble of conformations generated using molecular dynamics simulations. Here, we show that the conformation of the active site of CypA varies as the substrate configuration changes during catalytic turnover. We have analyzed the principal modes of the active site dynamics of CypA from molecular dynamics simulations to show that similar ensembles of enzyme conformations recognize diverse inhibitors and bind the different configurations of the peptide substrate. Small nonpeptidomimetic inhibitors with varying activity are recognized by enzyme ensembles that are similar to those that tightly bind the transition state and cis configurations of the substrate. Our results suggest that enzyme-substrate ensembles are more relevant in structure-based drug design for CypA than free enzyme. Of the vast conformational space of the free enzyme, the enzyme conformations of the tightly bound enzyme-substrate complexes are the most important for catalysis. Therefore, functionalizing lead compounds to optimize their interactions with the enzyme's conformational ensemble bound to the substrate in the cis or the transition state could lead to more potent inhibitors.
Information, Utility & Bounded Rationality
Ortega, Pedro A
2011-01-01
Perfectly rational decision-makers maximize expected utility, but crucially ignore the resource costs incurred when determining optimal actions. Here we employ an axiomatic framework for bounded rational decision-making based on a thermodynamic interpretation of resource costs as information costs. This leads to a variational "free utility" principle akin to thermodynamical free energy that trades off utility and information costs. We show that bounded optimal control solutions can be derived from this variational principle, which leads in general to stochastic policies. Furthermore, we show that risk-sensitive and robust (minimax) control schemes fall out naturally from this framework if the environment is considered as a bounded rational and perfectly rational opponent, respectively. When resource costs are ignored, the maximum expected utility principle is recovered.
Bounded Computational Capacity Equilibrium
Hernandez, Penelope
2010-01-01
We study repeated games played by players with bounded computational power, where, in contrast to Abreu and Rubisntein (1988), the memory is costly. We prove a folk theorem: the limit set of equilibrium payoffs in mixed strategies, as the cost of memory goes to 0, includes the set of feasible and individually rational payoffs. This result stands in sharp contrast to Abreu and Rubisntein (1988), who proved that when memory is free, the set of equilibrium payoffs in repeated games played by players with bounded computational power is a strict subset of the set of feasible and individually rational payoffs. Our result emphasizes the role of memory cost and of mixing when players have bounded computational power.
Bachoc, Christine; Cohen, Gerard; Sole, Patrick; Tchamkerten, Aslan
2010-01-01
The maximum size of a binary code is studied as a function of its length N, minimum distance D, and minimum codeword weight W. This function B(N,D,W) is first characterized in terms of its exponential growth rate in the limit as N tends to infinity for fixed d=D/N and w=W/N. The exponential growth rate of B(N,D,W) is shown to be equal to the exponential growth rate of A(N,D) for w <= 1/2, and equal to the exponential growth rate of A(N,D,W) for 1/2< w <= 1. Second, analytic and numerical upper bounds on B(N,D,W) are derived using the semidefinite programming (SDP) method. These bounds yield a non-asymptotic improvement of the second Johnson bound and are tight for certain values of the parameters.
Boosting equal time bound states
Dietrich, Dennis D; Jarvinen, Matti
2012-01-01
We present an explicit and exact boost of a relativistic bound state defined at equal time of the constituents in the Born approximation (lowest order in hbar). To this end, we construct the Poincar\\'e generators of QED and QCD in D=1+1 dimensions, using Gauss' law to express A^0 in terms of the fermion fields in A^1=0 gauge. We determine the fermion-antifermion bound states in the Born approximation as eigenstates of the time and space translation generators P^0 and P^1. The boost operator is combined with a gauge transformation so as to maintain the gauge condition A^1=0 in the new frame. We verify that the boosted state remains an eigenstate of P^0 and P^1 with appropriately transformed eigenvalues and determine the transformation law of the equal-time, relativistic wave function. The shape of the wave function is independent of the CM momentum when expressed in terms of a variable, which is quadratically related to the distance x between the fermions. As a consequence, the Lorentz contraction of the wave ...
Bounding the number of rational places using Weierstrass semigroups
DEFF Research Database (Denmark)
Geil, Hans Olav; Matsumoto, Ryutaroh
2007-01-01
Let Lambda be a numerical semigroup. Assume there exists an algebraic function field over Fq in one variable which possesses a rational place that has Lambda as its Weierstrass semigroup. We ask the question as to how many rational places such a function field can possibly have and we derive...... an upper bound in terms of the generators of Lambda and q. Our bound is an improvement to Lewittes' bound in [6] which takes into account only the multiplicity of Lambda and q. From the new bound we derive significant improvements to Serre's upper bound in the cases q = 2, 3 and 4. We finally show...
Darío Velásquez Ríos, Rubén; Bikorimana, Siméon; Ummy, Muhammad Ali; Dorsinville, Roger; Seo, Sang-Woo
2015-12-01
This paper presents heterogeneously integrated bow-tie emitter-detector photoconductive antennas (PCAs) based on low-temperature grown-gallium arsenide (LTG-GaAs) thin-film devices on silicon-dioxide/silicon (SiO2/Si) host substrates for integrated terahertz (THz) systems. The LTG-GaAs thin-film devices are fabricated with standard photolithography and thermal evaporation of metal-contact layers of chromium (Cr), nickel (Ni) and gold (Au). They are etched selectively and separated from their growth GaAs substrate. The LTG-GaAs thin-film devices are then heterogeneously integrated on bow-tie antenna electrodes patterned on the surface of a SiO2/Si host substrate for THz emitters and THz detectors. Cost-effective and selective integration of LTG-GaAs thin-film devices on a Si platform is demonstrated. THz radiation from the fabricated THz PCAs is successfully measured using a pump-probe THz time-domain configuration. The THz temporal duration was measured at full width half maximum of 0.36 ps. Its frequency spectrum exhibits a broadband response with a peak resonant frequency of about 0.31 THz. The demonstration illustrates the feasibility of creating heterogeneously integrated THz systems using separately optimized LTG-GaAs devices and Si based electronics.
Appell, Jürgen; Merentes Díaz, Nelson José
2013-01-01
This monographis a self-contained exposition of the definition and properties of functionsof bounded variation and their various generalizations; the analytical properties of nonlinear composition operators in spaces of such functions; applications to Fourier analysis, nonlinear integral equations, and boundary value problems. The book is written for non-specialists. Every chapter closes with a list of exercises and open problems.
DEFF Research Database (Denmark)
Emiris, Ioannis Z.; Mourrain, Bernard; Tsigaridas, Elias
2010-01-01
of variables. One application is to the bitsize of the eigenvalues and eigenvectors of an integer matrix, which also yields a new proof that the problem is polynomial. We also compare against recent lower bounds on the absolute value of the root coordinates by Brownawell and Yap [5], obtained under...
On Entropy Bounds and Holography
Halyo, Edi
2009-01-01
We show that the holographic entropy bound for gravitational systems and the Bekenstein entropy bound for nongravitational systems are holographically related. Using the AdS/CFT correspondence, we find that the Bekenstein bound on the boundary is obtained from the holographic bound in the bulk by minimizing the boundary energy with respect the AdS radius or the cosmological constant. This relation may also ameliorate some problems associated with the Bekenstein bound.
Bounded Satisfiability for PCTL
Bertrand, Nathalie; Schewe, Sven
2012-01-01
While model checking PCTL for Markov chains is decidable in polynomial-time, the decidability of PCTL satisfiability, as well as its finite model property, are long standing open problems. While general satisfiability is an intriguing challenge from a purely theoretical point of view, we argue that general solutions would not be of interest to practitioners: such solutions could be too big to be implementable or even infinite. Inspired by bounded synthesis techniques, we turn to the more applied problem of seeking models of a bounded size: we restrict our search to implementable -- and therefore reasonably simple -- models. We propose a procedure to decide whether or not a given PCTL formula has an implementable model by reducing it to an SMT problem. We have implemented our techniques and found that they can be applied to the practical problem of sanity checking -- a procedure that allows a system designer to check whether their formula has an unexpectedly small model.
Reaching Fleming's dicrimination bound
Gruebl, Gebhard
2012-01-01
Any rule for identifying a quantum system's state within a set of two non-orthogonal pure states by a single measurement is flawed. It has a non-zero probability of either yielding the wrong result or leaving the query undecided. This also holds if the measurement of an observable $A$ is repeated on a finite sample of $n$ state copies. We formulate a state identification rule for such a sample. This rule's probability of giving the wrong result turns out to be bounded from above by $1/n\\delta_{A}^{2}$ with $\\delta_{A}=|_{1}-_{2}|/(\\Delta_{1}A+\\Delta_{2}A).$ A larger $\\delta_{A}$ results in a smaller upper bound. Yet, according to Fleming, $\\delta_{A}$ cannot exceed $\\tan\\theta$ with $\\theta\\in(0,\\pi/2) $ being the angle between the pure states under consideration. We demonstrate that there exist observables $A$ which reach the bound $\\tan\\theta$ and we determine all of them.
Particle physics implications of the WMAP neutrino mmass bound
Bhattacharya, G; Song, L; Weiler, Thomas J
2003-01-01
The recently published cosmological bound on the absolute neutrino masses obtained from the Wilkinson Microwave Anisotropy Probe (WMAP) data has important consequences for neutrino experiments. Taken at face value, the new bound excludes the determination of the absolute neutrino mass in the KATRIN experiment and excludes a neutrino oscillation interpretation of the LSND experiment. Combined with KamLAND data, the WMAP bound defines an accessible range for the neutrinoless double beta decay amplitude. The bound also impacts the Z-burst annihilation mechanism for resonant generation of extreme-energy cosmic rays on the cosmic neutrino background in two ways: it constrains the local overdensity of neutrino dark matter which is not helpful, but it also limits the resonant energy to a favorable range. Since theories with \\Delta L=1 lepton number violation such as R-parity violating SUSY generate neutrino masses radiatively, bounds on absolute neutrino masses translate into bounds on coupling products \\lambda^(')\\...
BOUNDING PYRAMIDS AND BOUNDING CONES FOR TRIANGULAR BEZIER SURFACES
Institute of Scientific and Technical Information of China (English)
Jian-song Deng; Fa-lai Chen; Li-li Wang
2000-01-01
This paper describes practical approaches on how to construct bounding pyramids and bounding cones for triangular Bézier surfaces. Examples are provided to illustrate the process of construction and comparison is made between various surface bounding volumes. Furthermore, as a starting point for the construction,we provide a way to compute hodographs of triangular Bézier surfaces and improve the algorithm for computing the bounding cone of a set of vectors.
Proteomic Substrate Identification for Membrane Proteases in the Brain
Müller, Stephan A.; Scilabra, Simone D.; Lichtenthaler, Stefan F.
2016-01-01
Cell-cell communication in the brain is controlled by multiple mechanisms, including proteolysis. Membrane-bound proteases generate signaling molecules from membrane-bound precursor proteins and control the length and function of cell surface membrane proteins. These proteases belong to different families, including members of the “a disintegrin and metalloprotease” (ADAM), the beta-site amyloid precursor protein cleaving enzymes (BACE), membrane-type matrix metalloproteases (MT-MMP) and rhomboids. Some of these proteases, in particular ADAM10 and BACE1 have been shown to be essential not only for the correct development of the mammalian brain, but also for myelination and maintaining neuronal connections in the adult nervous system. Additionally, these proteases are considered as drug targets for brain diseases, including Alzheimer’s disease (AD), schizophrenia and cancer. Despite their biomedical relevance, the molecular functions of these proteases in the brain have not been explored in much detail, as little was known about their substrates. This has changed with the recent development of novel proteomic methods which allow to identify substrates of membrane-bound proteases from cultured cells, primary neurons and other primary brain cells and even in vivo from minute amounts of mouse cerebrospinal fluid (CSF). This review summarizes the recent advances and highlights the strengths of the individual proteomic methods. Finally, using the example of the Alzheimer-related proteases BACE1, ADAM10 and γ-secretase, as well as ADAM17 and signal peptide peptidase like 3 (SPPL3), we illustrate how substrate identification with novel methods is instrumental in elucidating broad physiological functions of these proteases in the brain and other organs.
Proteomic Substrate Identification for Membrane Proteases in the Brain
Directory of Open Access Journals (Sweden)
Stephan A Müller
2016-10-01
Full Text Available Cell-cell communication in the brain is controlled by multiple mechanisms, including proteolysis. Membrane-bound proteases generate signaling molecules from membrane-bound precursor proteins and control the length and function of cell surface membrane proteins. These proteases belong to different families, including members of the a disintegrin and metalloprotease (ADAM, the beta-site APP cleaving enzymes (BACE, membrane-type matrix metalloproteases (MT-MMP and rhomboids. Some of these proteases, in particular ADAM10 and BACE1 have been shown to be essential for the correct development of the mammalian brain, but also for myelination and maintaining neuronal connections in the adult nervous system. Additionally, these proteases are considered as drug targets for brain diseases, including Alzheimer’s disease, schizophrenia and cancer. Despite their biomedical relevance, the molecular functions of these proteases in the brain have not been explored in much detail as little was known about their substrates. This has changed with the recent development of novel proteomic methods which allow to identify substrates of membrane-bound proteases from cultured cells, primary neurons and other primary brain cells and even in vivo from minute amounts of mouse cerebrospinal fluid. This review summarizes the recent advances and highlights the strengths of the individual proteomic methods. Finally, using the example of the Alzheimer-related proteases BACE1, ADAM10, and γ-secretase, as well as ADAM17 and SPPL3, we illustrate how substrate identification with novel methods is instrumental in elucidating broad physiological functions of these proteases in the brain and other organs.
Lower bounds for unbounded operators and semigroups
2016-01-01
Let $A$ be an unbounded operator on a Banach space $X$. It is sometimes useful to improve the operator $A$ by extending it to an operator $B$ on a larger Banach space $Y$ with smaller spectrum. It would be preferable to do this with some estimates for the resolvent of $B$, and also to extend bounded operators related to $A$, for example a semigroup generated by $A$. When $X$ is a Hilbert space, one may also want $Y$ to be Hilbert space. Results of this type for bounded operators have been giv...
Proof of a Quantum Bousso Bound
Bousso, Raphael; Fisher, Zachary; Maldacena, Juan
2014-01-01
We prove the generalized Covariant Entropy Bound, $\\Delta S\\leq (A-A')/4G\\hbar$, for light-sheets with initial area $A$ and final area $A'$. The entropy $\\Delta S$ is defined as a difference of von Neumann entropies of an arbitrary state and the vacuum, with both states restricted to the light-sheet under consideration. The proof applies to free fields, in the limit where gravitational backreaction is small. We do not assume the null energy condition. In regions where it is violated, we find that the bound is protected by the defining property of light-sheets: that their null generators are nowhere expanding.
Critical SQG in bounded domains
Constantin, Peter; Ignatova, Mihaela
2016-01-01
We consider the critical dissipative SQG equation in bounded domains, with the square root of the Dirichlet Laplacian dissipation. We prove global a priori interior $C^{\\alpha}$ and Lipschitz bounds for large data.
Energy Technology Data Exchange (ETDEWEB)
Maldacena, Juan [School of Natural Sciences, Institute for Advanced Study,1 Einstein Drive, Princeton, NJ (United States); Shenker, Stephen H. [Stanford Institute for Theoretical Physics and Department of Physics, Stanford University,382 Via Pueblo Mall, Stanford, CA (United States); Stanford, Douglas [School of Natural Sciences, Institute for Advanced Study,1 Einstein Drive, Princeton, NJ (United States)
2016-08-17
We conjecture a sharp bound on the rate of growth of chaos in thermal quantum systems with a large number of degrees of freedom. Chaos can be diagnosed using an out-of-time-order correlation function closely related to the commutator of operators separated in time. We conjecture that the influence of chaos on this correlator can develop no faster than exponentially, with Lyapunov exponent λ{sub L}≤2πk{sub B}T/ℏ. We give a precise mathematical argument, based on plausible physical assumptions, establishing this conjecture.
DEFF Research Database (Denmark)
Faupin, Jeremy; Møller, Jacob Schach; Skibsted, Erik
2011-01-01
We study regularity of bound states pertaining to embedded eigenvalues of a self-adjoint operator H, with respect to an auxiliary operator A that is conjugate to H in the sense of Mourre. We work within the framework of singular Mourre theory which enables us to deal with confined massless Pauli–......–Fierz models, our primary example, and many-body AC-Stark Hamiltonians. In the simpler context of regular Mourre theory, our results boil down to an improvement of results obtained recently in [8, 9]....
Maldacena, Juan; Stanford, Douglas
2015-01-01
We conjecture a sharp bound on the rate of growth of chaos in thermal quantum systems with a large number of degrees of freedom. Chaos can be diagnosed using an out-of-time-order correlation function closely related to the commutator of operators separated in time. We conjecture that the influence of chaos on this correlator can develop no faster than exponentially, with Lyapunov exponent $\\lambda_L \\le 2 \\pi k_B T/\\hbar$. We give a precise mathematical argument, based on plausible physical assumptions, establishing this conjecture.
Delay Bounds for Multiclass FIFO
Jiang, Yuming; Misra, Vishal
2016-01-01
FIFO is perhaps the simplest scheduling discipline. For single-class FIFO, its delay guarantee performance has been extensively studied: The well-known results include a stochastic delay bound for $GI/GI/1$ by Kingman and a deterministic delay bound for $D/D/1$ by Cruz. However, for multiclass FIFO, few such results are available. To fill the gap, we prove delay bounds for multiclass FIFO in this work, considering both deterministic and stochastic cases. Specifically, delay bounds are present...
DEFF Research Database (Denmark)
Nielson, Hanne Riis; Nielson, Flemming
1992-01-01
they obtain a quadratic bound. These bounds are shown to be tight. Specializing the case of strict and additive functions to functionals of a form that would correspond to iterative programs they show that a linear bound is tight. This is related to several analyses studied in the literature (including...
Error bounds for set inclusions
Institute of Scientific and Technical Information of China (English)
ZHENG; Xiyin(郑喜印)
2003-01-01
A variant of Robinson-Ursescu Theorem is given in normed spaces. Several error bound theorems for convex inclusions are proved and in particular a positive answer to Li and Singer's conjecture is given under weaker assumption than the assumption required in their conjecture. Perturbation error bounds are also studied. As applications, we study error bounds for convex inequality systems.
Estimating Eigenvalue Moments via Schatten Norm Bounds on Semigroup Differences
Energy Technology Data Exchange (ETDEWEB)
Hansmann, M. [Technical University of Clausthal, Institute of Mathematics (Germany)], E-mail: Hansmann@math.tu-clausthal.de
2007-08-15
We derive new bounds on the moments of the negative eigenvalues of a selfadjoint operator B. The moments of order {gamma}{<=}1 are estimated in terms of Schatten-norm bounds on the difference of the semigroups generated by B and a reference operator A which is assumed to be nonnegative and selfadjoint. The estimate in the case {gamma} = 1 is sharp.
Model Independent Naturalness Bounds on Magnetic Moments of Majorana Neutrinos
Gorchtein, Mikhail; Bell, Nicole F.; Ramsey-Musolf, Michael J.; Vogel, Petr; Wang, Peng
2007-01-01
We analyze the implications of neutrino masses for the magnitude of neutrino magnetic moments. By considering electroweak radiative corrections to the neutrino mass, we derive model-independent naturalness upper bounds on neutrino magnetic moments, generated by physics above the electroweak scale. For Majorana neutrinos, these bounds are weaker than present experimental limits if $\\mu_\
Multifunctions of bounded variation
Vinter, R. B.
2016-02-01
Consider control systems described by a differential equation with a control term or, more generally, by a differential inclusion with velocity set F (t , x). Certain properties of state trajectories can be derived when it is assumed that F (t , x) is merely measurable w.r.t. the time variable t. But sometimes a refined analysis requires the imposition of stronger hypotheses regarding the time dependence. Stronger forms of necessary conditions for minimizing state trajectories can be derived, for example, when F (t , x) is Lipschitz continuous w.r.t. time. It has recently become apparent that significant addition properties of state trajectories can still be derived, when the Lipschitz continuity hypothesis is replaced by the weaker requirement that F (t , x) has bounded variation w.r.t. time. This paper introduces a new concept of multifunctions F (t , x) that have bounded variation w.r.t. time near a given state trajectory, of special relevance to control. We provide an application to sensitivity analysis.
Hargus, Gunnar; Cui, Yi-Fang; Dihné, Marcel; Bernreuther, Christian; Schachner, Melitta
2012-05-01
In vitro-differentiated embryonic stem (ES) cells comprise a useful source for cell replacement therapy, but the efficiency and safety of a translational approach are highly dependent on optimized protocols for directed differentiation of ES cells into the desired cell types in vitro. Furthermore, the transplantation of three-dimensional ES cell-derived structures instead of a single-cell suspension may improve graft survival and function by providing a beneficial microenvironment for implanted cells. To this end, we have developed a new method to efficiently differentiate mouse ES cells into neural aggregates that consist predominantly (>90%) of postmitotic neurons, neural progenitor cells, and radial glia-like cells. When transplanted into the excitotoxically lesioned striatum of adult mice, these substrate-adherent embryonic stem cell-derived neural aggregates (SENAs) showed significant advantages over transplanted single-cell suspensions of ES cell-derived neural cells, including improved survival of GABAergic neurons, increased cell migration, and significantly decreased risk of teratoma formation. Furthermore, SENAs mediated functional improvement after transplantation into animal models of Parkinson's disease and spinal cord injury. This unit describes in detail how SENAs are efficiently derived from mouse ES cells in vitro and how SENAs are isolated for transplantation. Furthermore, methods are presented for successful implantation of SENAs into animal models of Huntington's disease, Parkinson's disease, and spinal cord injury to study the effects of stem cell-derived neural aggregates in a disease context in vivo.
Is $A^{-1}$ an infinitesimal generator?
Zwart, H.J.
2007-01-01
In this paper we study the question whether $A^{-1}$ is the infinitesimal generator of a bounded $C_0$-semigroup if $A$ generates a bounded $C_0$-semigroup. If the semigroup generated by $A$ is analytic and sectorially bounded, then the same holds for the semigroup generated by $A^{-1}$. However, we
Takao, Haruna; Hirabayashi, Kei; Nishigaya, Yuki; Kouriki, Haruna; Nakaniwa, Tetsuko; Hagiwara, Yoshinori; Harada, Jiro; Sato, Hideaki; Yamazaki, Toshimasa; Sakakibara, Yoichi; Suiko, Masahito; Asada, Yujiro; Takahashi, Yasuhiro; Yamamoto, Ken; Fukuyama, Keiichi; Sugishima, Masakazu; Wada, Kei
2017-01-01
Biliverdin reductase catalyses the last step in haem degradation and produces the major lipophilic antioxidant bilirubin via reduction of biliverdin, using NAD(P)H as a cofactor. Despite the importance of biliverdin reductase in maintaining the redox balance, the molecular details of the reaction it catalyses remain unknown. Here we present the crystal structure of biliverdin reductase in complex with biliverdin and NADP+. Unexpectedly, two biliverdin molecules, which we designated the proximal and distal biliverdins, bind with stacked geometry in the active site. The nicotinamide ring of the NADP+ is located close to the reaction site on the proximal biliverdin, supporting that the hydride directly attacks this position of the proximal biliverdin. The results of mutagenesis studies suggest that a conserved Arg185 is essential for the catalysis. The distal biliverdin probably acts as a conduit to deliver the proton from Arg185 to the proximal biliverdin, thus yielding bilirubin. PMID:28169272
Nowak, K.; Kästner, M.; Miltner, A.
2009-04-01
During degradation of organic pollutants in soil, metabolites, microbial biomass, CO2and "bound" residues ("non-extractable" residues in soil organic matter) are formed. Enhanced transformation of these contaminants into "bound" residues has been proposed as an alternative remediation method for polluted soils. However, this kind of residues may pose a potential risk for the environment due to their chemical structure and possible remobilization under different conditions. Therefore particular attention is given actually to "bound" residues. Part of these non-extractable residues may be "biogenic," because microorganisms use the carbon from the pollutant to form their biomass components (fatty acids, amino acids, amino sugars), which subsequently may be incorporated into soil organic matter. Furthermore, the CO2 originating from mineralization of xenobiotics, can be re-assimilated by microorganisms and also incorporated into "biogenic residue". The hazard posed by "bound" residues may be overestimated because they are "biogenic" (contain microbial fatty acids and amino acids). The knowledge about the pathways of "biogenic residue" formation is necessary for a proper assessment of the fate of tested pollutants and their turnover in the soil environment. Moreover, these data are needed to establish the realistic degradation rates of the contaminants in soil. The main objectives of this study are: to quantify the extent of "biogenic residue" (fatty acids, amino acids, amino sugars) formation during the degradation of a model pollutant (2,4-dichlorophenoxyacetic acid = 2,4-D) and during CO2 assimilation by microorganisms and to evaluate which components are mainly incorporated into "bound" residues. To investigate the extent of "biogenic residue" formation in soil during the degradation of 2,4-D, experiments with either 14C-U-ring and 13C6-2,4-D or carboxyl-14C 2,4-D were performed. The incubation experiments were performed according to OECD test guideline 307, in the
Chandrasekhar, K; Venkata Mohan, S
2012-04-01
Remediation of real-field petroleum sludge was studied under self-induced electrogenic microenvironment with the function of variable organic loads (OLs) in bio-electrochemical treatment (BET) systems. Operation under various OLs documented marked influence on both electrogenic activity and remediation efficiency. Both total petroleum hydrocarbons (TPH) and its aromatic fraction documented higher removal with OL4 operation followed by OL3, OL2, OL1 and control. Self-induced biopotential and associated multiple bio-electrocatalytic reactions during BET operation facilitated biotransformation of higher ring aromatics (5-6) to lower ring aromatic (2-3) compounds. Asphaltenes and NSO fractions showed negligible removal during BET operation. Higher electrogenic activity was recorded at OL1 (343mV; 53.11mW/m(2), 100Ω) compared to other three OLs operation. Bioaugmentation to anodic microflora with anaerobic culture documented enhanced electrogenic activity at OL4 operation. Voltammetric profiles, Tafel analysis and VFA generation were in agreement with the observed power generation and degradation efficiency.
Hou, Qingjie; Nie, Changliang; Pei, Haiyan; Hu, Wenrong; Jiang, Liqun; Yang, Zhigang
2016-10-01
Five strains algae (Golenkinia sp. SDEC-16, Chlorella vulgaris, Selenastrum capricornutum, Scenedesmus SDEC-8 and Scenedesmus SDEC-13) were screened as an effective way to promote recover electricity from MFC for kitchen waste anaerobically digested effluent (KWADE) treatment. The highest OCV, power density, biomass concentration and total lipid content were obtained with Golenkinia sp. SDEC-16 as the co-inoculum, which were 170mV, 6255mWm(-3), 325mgL(-1) and 38%, respectively. Characteristics of the organics in KWADE were analyzed, and the result showed that the hydrophilic and acidic fractions were more readily degraded, compared to the neutral fractions during the operation. Maximum COD and TN removal efficiency were 43.59% and 37.39% when inoculated with Golenkinia sp. SDEC-16, which were roughly 3.22 and 3.04 times higher than that of S. capricornutum. This study demonstrated that Golenkinia sp. SDEC-16 was a promising species for bioelectricity generation, lipid production and KWADE treatment.
Bounding approaches to system identification
Norton, John; Piet-Lahanier, Hélène; Walter, Éric
1996-01-01
In response to the growing interest in bounding error approaches, the editors of this volume offer the first collection of papers to describe advances in techniques and applications of bounding of the parameters, or state variables, of uncertain dynamical systems. Contributors explore the application of the bounding approach as an alternative to the probabilistic analysis of such systems, relating its importance to robust control-system design.
On functions of bounded variation
Aistleitner, Christoph; Pausinger, Florian; Svane, Anne Marie; Tichy, Robert F.
2015-01-01
The recently introduced concept of $\\mathcal{D}$-variation unifies previous concepts of variation of multivariate functions. In this paper, we give an affirmative answer to the open question from Pausinger \\& Svane (J. Complexity, 2014) whether every function of bounded Hardy--Krause variation is Borel measurable and has bounded $\\mathcal{D}$-variation. Moreover, we show that the space of functions of bounded $\\mathcal{D}$-variation can be turned into a commutative Banach algebra.
Bukh, Boris
2011-01-01
In 2008, Bukh, Matousek, and Nivasch conjectured that for every n-point set S in R^d and every k, 0 <= k <= d-1, there exists a k-flat f in R^d (a "centerflat") that lies at "depth" (k+1) n / (k+d+1) - O(1) in S, in the sense that every halfspace that contains f contains at least that many points of S. This claim is true and tight for k=0 (this is Rado's centerpoint theorem), as well as for k = d-1 (trivial). Bukh et al. showed the existence of a (d-2)-flat at depth (d-1) n / (2d-1) - O(1) (the case k = d-2). In this paper we concentrate on the case k=1 (the case of "centerlines"), in which the conjectured value for the leading constant is 2/(d+2). We prove that 2/(d+2) is an *upper bound* for the leading constant. Specifically, we show that for every fixed d and every n there exists an n-point set in R^d for which no line in R^d lies at depth larger than 2n/(d+2) + o(n). This point set is the "stretched grid"---a set which has been previously used by Bukh et al. for other related purposes.
Roy-Chowdhuri, Sinchita; Chen, Hui; Singh, Rajesh R; Krishnamurthy, Savitri; Patel, Keyur P; Routbort, Mark J; Manekia, Jawad; Barkoh, Bedia A; Yao, Hui; Sabir, Sharjeel; Broaddus, Russell R; Medeiros, L Jeffrey; Staerkel, Gregg; Stewart, John; Luthra, Rajyalakshmi
2017-01-13
Minimally invasive procedures, such as fine needle aspiration and core needle biopsy, are commonly used for the diagnosis in solid organ malignancies. In the era of targeted therapy, it is crucial for molecular testing to be performed on these limited volume specimens. Although several recent studies have demonstrated the utility of small biopsy specimens for molecular testing, there remains debate as to whether core needle biopsy specimens are more reliable than fine needle aspiration for molecular studies. In this study, we reviewed concurrently acquired fine needle aspiration and core needle biopsy samples (n=24), and compared overall cellularity, tumor fraction, and the results of next-generation sequencing. All somatic mutations detected in core needle biopsy samples were also detected in fine needle aspiration samples. The estimated tumor fraction was significantly higher in fine needle aspiration smears than core needle biopsy samples (P=0.003), whereas the overall DNA yield from smears was significantly lower than that obtained from the core needle biopsy specimens (P=0.01). The normalized average amplicon coverage for the genes analyzed was significantly higher in cytology smears than paired core needle biopsy samples, with lower numbers of failed amplicons and higher overall mutation allelic frequencies seen in the former. We further evaluated 100 malignant fine needle aspiration and core needle biopsy samples, acquired concurrently, for overall cellularity and tumor fraction. Overall cellularity and tumor fraction of fine needle aspiration samples was significantly higher than concurrently acquired core needle biopsy samples (Pcore needle biopsy samples. Cytologic specimens, therefore, should be better integrated into routine molecular diagnostics workflow to maximize limited tissues for clinically relevant genomic testing.Modern Pathology advance online publication, 13 January 2017; doi:10.1038/modpathol.2016.228.
NOON states via a quantum walk of bound particles
Compagno, Enrico; Banchi, Leonardo; Gross, Christian; Bose, Sougato
2017-01-01
Tight-binding lattice models allow the creation of bound composite objects which, in the strong-interacting regime, are protected against dissociation. We show that a local impurity in the lattice potential can generate a coherent split of an incoming bound particle wave packet which consequently produces a NOON state between the endpoints. This is nontrivial because, when finite lattices are involved, edge-localization effects render challenging their use for nonclassical state generation and information transfer. We derive an effective model to describe the propagation of bound particles in a Bose-Hubbard chain. We introduce local impurities in the lattice potential to inhibit localization effects and to split the propagating bound particle, thus enabling the generation of distant NOON states. We analyze how minimal engineering transfer schemes improve the transfer fidelity and we quantify the robustness to typical decoherence effects in optical lattice implementations. Our scheme potentially has an impact on quantum-enhanced atomic interferometry in a lattice.
Institute of Scientific and Technical Information of China (English)
LIU Li-Guo; TIAN Cheng-Lin; CHEN Ping-Xing; YUAN Nai-Chang
2009-01-01
We derive an analytical lower bound on the concurrence for bipartite quantum systems with an improved computable cross norm or realignment criterion and an improved positive partial transpose criterion respectively.Furthermore we demonstrate that our bound is better than that obtained from the local uncertainty relations criterion with optimal local orthogonal observables which is known as one of the best estimations of concurrence.
Bounds for Asian basket options
Deelstra, Griselda; Diallo, Ibrahima; Vanmaele, Michèle
2008-09-01
In this paper we propose pricing bounds for European-style discrete arithmetic Asian basket options in a Black and Scholes framework. We start from methods used for basket options and Asian options. First, we use the general approach for deriving upper and lower bounds for stop-loss premia of sums of non-independent random variables as in Kaas et al. [Upper and lower bounds for sums of random variables, Insurance Math. Econom. 27 (2000) 151-168] or Dhaene et al. [The concept of comonotonicity in actuarial science and finance: theory, Insurance Math. Econom. 31(1) (2002) 3-33]. We generalize the methods in Deelstra et al. [Pricing of arithmetic basket options by conditioning, Insurance Math. Econom. 34 (2004) 55-57] and Vanmaele et al. [Bounds for the price of discrete sampled arithmetic Asian options, J. Comput. Appl. Math. 185(1) (2006) 51-90]. Afterwards we show how to derive an analytical closed-form expression for a lower bound in the non-comonotonic case. Finally, we derive upper bounds for Asian basket options by applying techniques as in Thompson [Fast narrow bounds on the value of Asian options, Working Paper, University of Cambridge, 1999] and Lord [Partially exact and bounded approximations for arithmetic Asian options, J. Comput. Finance 10 (2) (2006) 1-52]. Numerical results are included and on the basis of our numerical tests, we explain which method we recommend depending on moneyness and time-to-maturity.
Anaphoric Pronouns and Bound Variables
Wasow, Thomas
1975-01-01
Deals with certain problems inherent in deriving anaphoric pronouns from bound variables. Syntactic rules applied to determine anaphora relations cannot be applied if anaphoric pronouns and their antecedents have identical underlying forms. An approach to anaphora which preserves some advantages of the bound-variable theory without the problems is…
Directory of Open Access Journals (Sweden)
Pace Umberto
2006-05-01
Full Text Available Abstract Background We describe an ELISA-based method that can be used to identify and quantitate proteins in biological samples. In this method, peptides in solution, derived from proteolytic digests of the sample, compete with substrate-attached synthetic peptides for antibodies, also in solution, generated against the chosen peptides. The peptides used for the ELISA are chosen on the basis of their being (i products of the proteolytic (e.g. tryptic digestion of the protein to be identified and (ii unique to the target protein, as far as one can know from the published sequences. Results In this paper we describe the competition assay and we define the optimal conditions for the most effective assay. We have performed an analysis of the kinetics of interaction between the four components of the assay: the plastic substratum to which the peptide is bound, the bound peptide itself, the competing added peptide, and the antibody that is specific for the peptide and we compare the results of theoretical simulations to the actual data in some model systems. Conclusion The data suggest that the peptides bind to the plastic substratum in more than one conformation and that, once bound, the peptide displays different affinities for the antibody, depending on how it has bound to the plate
Asynchronous Bounded Expected Delay Networks
Bakhshi, Rena; Fokkink, Wan; Pang, Jun
2010-01-01
The commonly used asynchronous bounded delay (ABD) network models assume a fixed bound on message delay. We propose a probabilistic network model, called asynchronous bounded expected delay (ABE) model. Instead of a strict bound, the ABE model requires only a bound on the expected message delay. While the conditions of ABD networks restrict the set of possible executions, in ABE networks all asynchronous executions are possible, but executions with extremely long delays are less probable. In contrast to ABD networks, ABE networks cannot be synchronised efficiently. At the example of an election algorithm, we show that the minimal assumptions of ABE networks are sufficient for the development of efficient algorithms. For anonymous, unidirectional ABE rings of known size N we devise a probabilistic leader election algorithm having average message and time complexity O(N).
Carbon Nanotube Patterning on a Metal Substrate
Nguyen, Cattien V. (Inventor)
2016-01-01
A CNT electron source, a method of manufacturing a CNT electron source, and a solar cell utilizing a CNT patterned sculptured substrate are disclosed. Embodiments utilize a metal substrate which enables CNTs to be grown directly from the substrate. An inhibitor may be applied to the metal substrate to inhibit growth of CNTs from the metal substrate. The inhibitor may be precisely applied to the metal substrate in any pattern, thereby enabling the positioning of the CNT groupings to be more precisely controlled. The surface roughness of the metal substrate may be varied to control the density of the CNTs within each CNT grouping. Further, an absorber layer and an acceptor layer may be applied to the CNT electron source to form a solar cell, where a voltage potential may be generated between the acceptor layer and the metal substrate in response to sunlight exposure.
Power electronics substrate for direct substrate cooling
Le, Khiet [Mission Viejo, CA; Ward, Terence G [Redondo Beach, CA; Mann, Brooks S [Redondo Beach, CA; Yankoski, Edward P [Corona, CA; Smith, Gregory S [Woodland Hills, CA
2012-05-01
Systems and apparatus are provided for power electronics substrates adapted for direct substrate cooling. A power electronics substrate comprises a first surface configured to have electrical circuitry disposed thereon, a second surface, and a plurality of physical features on the second surface. The physical features are configured to promote a turbulent boundary layer in a coolant impinged upon the second surface.
The Out-bound and In-bound Travelling Market
Institute of Scientific and Technical Information of China (English)
Emily Yu
2009-01-01
@@ As the Spring Festival of China with a long vocation of seven days nationally is approaching,more and more attention is paid to the out-bound and inn-bound trayeling market.Will people hold their pockets firmly in the"cold winter"of world-wide financial crisis,or will they grab the great discount of traveling and take a good relax?
Combining Alphas via Bounded Regression
Directory of Open Access Journals (Sweden)
Zura Kakushadze
2015-11-01
Full Text Available We give an explicit algorithm and source code for combining alpha streams via bounded regression. In practical applications, typically, there is insufficient history to compute a sample covariance matrix (SCM for a large number of alphas. To compute alpha allocation weights, one then resorts to (weighted regression over SCM principal components. Regression often produces alpha weights with insufficient diversification and/or skewed distribution against, e.g., turnover. This can be rectified by imposing bounds on alpha weights within the regression procedure. Bounded regression can also be applied to stock and other asset portfolio construction. We discuss illustrative examples.
Bounds for Certain Character Sums
Institute of Scientific and Technical Information of China (English)
杨锦; 郑志勇
2003-01-01
This paper shows a connection between exponential sums and character sums. In particular, we introduce a character sum that is an analog of the classical Kloosterman sums and establish the analogous Weil-Estermann's upper bound for it. The paper also analyzes a generalized Hardy-Littlewood example for character sums, which shows that the upper bounds given here are the best possible. The analysis makes use of local bounds for the exponential sums and character sums. The basic theorems have been previously established.
Institute of Scientific and Technical Information of China (English)
Zhi-Hong Tao; Cong-Hua Zhou; Zhong Chen; Li-Fu Wang
2007-01-01
Bounded Model Checking has been recently introduced as an efficient verification method for reactive systems.This technique reduces model checking of linear temporal logic to propositional satisfiability.In this paper we first present how quantified Boolean decision procedures can replace BDDs.We introduce a bounded model checking procedure for temporal logic CTL* which reduces model checking to the satisfiability of quantified Boolean formulas.Our new technique avoids the space blow up of BDDs, and extends the concept of bounded model checking.
Sensor Technologies on Flexible Substrates
Koehne, Jessica
2016-01-01
NASA Ames has developed sensor technologies on flexible substrates integrated into textiles for personalized environment monitoring and human performance evaluation. Current technologies include chemical sensing for gas leak and event monitoring and biological sensors for human health and performance monitoring. Targeted integration include next generation EVA suits and flexible habitats.
ESTIMATING ERROR BOUNDS FOR TERNARY SUBDIVISION CURVES/SURFACES
Institute of Scientific and Technical Information of China (English)
Ghulam Mustafa; Jiansong Deng
2007-01-01
We estimate error bounds between ternary subdivision curves/surfaces and their control polygons after k-fold subdivision in terms of the maximal differences of the initial control point sequences and constants that depend on the subdivision mask. The bound is independent of the process of subdivision and can be evaluated without recursive subdivision.Our technique is independent of parametrization therefore it can be easily and efficiently implemented. This is useful and important for pre-computing the error bounds of subdivision curves/surfaces in advance in many engineering applications such as surface/surface intersection, mesh generation, NC machining, surface rendering and so on.
Bounds for Regularity and Coregularity of Graded Modules
Indian Academy of Sciences (India)
Reza Sazeedeh
2007-11-01
Let be a finitely generated graded module over a Noetherian homogeneous ring with local base ring $(R_0,\\mathfrak{m}_0)$. If 0 is of dimension one, then we show that $\\mathrm{reg}^i+1(M)$ and $\\mathrm{coreg}^{i+1}(M)$ are bounded for all $i\\in\\mathbb{N}_0$. We improve these bounds, if in addition, 0 is either regular or analytically irreducible of unequal characteristic.
A Lower Bound for Chaos on the Elliptical Stadium
Canale, E; Oliffson-Kamphorst, S; De Pinto-Carvalho, S; Canale, Eduardo; Markarian, Roberto; Kamphorst, Sylvie Oliffson; Carvalho, Sonia Pinto de
1997-01-01
The elliptical stadium is a plane region bounded by a curve constructed by joining two half-ellipses by two parallel segments of equal length. The billiard inside it, as a map, generates a two parameters family of dynamical systems. It is known that the system is ergodic for a certain region of the parameter space. In this work we study the stability of a particular family of periodic orbits obtaining good bounds for the chaotic zone.
Computing Constrained Cramer Rao Bounds
Tune, Paul
2012-01-01
We revisit the problem of computing submatrices of the Cram\\'er-Rao bound (CRB), which lower bounds the variance of any unbiased estimator of a vector parameter $\\vth$. We explore iterative methods that avoid direct inversion of the Fisher information matrix, which can be computationally expensive when the dimension of $\\vth$ is large. The computation of the bound is related to the quadratic matrix program, where there are highly efficient methods for solving it. We present several methods, and show that algorithms in prior work are special instances of existing optimization algorithms. Some of these methods converge to the bound monotonically, but in particular, algorithms converging non-monotonically are much faster. We then extend the work to encompass the computation of the CRB when the Fisher information matrix is singular and when the parameter $\\vth$ is subject to constraints. As an application, we consider the design of a data streaming algorithm for network measurement.
An Inequality for Bounded Functions
Kouba, Omran
2012-01-01
In this note we prove optimal inequalities for bounded functions in terms of their deviation from their mean. These results extend and generalize some known inequalities due to Thong (2011) and Perfetti (2011)
Schulz, Marc Daniel; Dusuel, Sébastien; Vidal, Julien
2016-11-01
We discuss the emergence of bound states in the low-energy spectrum of the string-net Hamiltonian in the presence of a string tension. In the ladder geometry, we show that a single bound state arises either for a finite tension or in the zero-tension limit depending on the theory considered. In the latter case, we perturbatively compute the binding energy as a function of the total quantum dimension. We also address this issue in the honeycomb lattice where the number of bound states in the topological phase depends on the total quantum dimension. Finally, the internal structure of these bound states is analyzed in the zero-tension limit.
Schulz, M D; Vidal, J
2016-01-01
We discuss the emergence of bound states in the low-energy spectrum of the string-net Hamiltonian in the presence of a string tension. In the ladder geometry, we show that a single bound state arises either for a finite tension or in the zero-tension limit depending on the theory considered. In the latter case, we perturbatively compute the binding energy as a function of the total quantum dimension. We also address this issue in the honeycomb lattice where the number of bound states in the topological phase depends on the total quantum dimension. Finally, the internal structure of these bound states is analyzed in the zero-tension limit.
Some bounds for quantum copying
Rastegin, A E
2001-01-01
We derive lower bounds on the absolute error and the relative error of an abstract copying of two-state set. We do not specify a copying transformation and a dimension of state space. Only the unitarity of quantum mechanical transformations is used. Our approach is based on the notion of angle between two states. We first prove several useful statements, simply expressed in terms of angles. We then examine a lower bound on the absolute error, that was first considered by Hillery and Buzek. Our reasonings supplement and reinforce the results, obtained by them. So, we derive more strong bounds on the absolute error, and we also consider a tradeoff between size of error and corresponding probability distributions. After that we examine a lower bound on the relative error.
Energy Technology Data Exchange (ETDEWEB)
Koll, R. [ICO Global Communications (United Kingdom)
2000-08-01
Mobile Satellite Systems (MSS) are beginning to provide new solutions to coal mining companies in remote regions enabling organisations to use a mobile voice and data communications anywhere on the planet. The new generation of handsets, called MSS user terminals, can slip into a pocket and their performance is comparable to modern cellphones. The price of MSS equipment makes it a viable option. The choice of the orbit for satellites-low earth orbit, medium earth orbit and geostationary systems - has to be made by the user. MSS competitors handle signal processing and switching in different ways. The company New ICO will use its own terrestrial network to carry a call from the mobile party to the earth station nearest to the caller. New ICO's services, to be launched in 2003, will be available to coal companies for a minimum capital investment of about 1500 US dollars per site, a cost that is independent of the number of users or amount of traffic. 2 photos.
Multiplexed Electrochemistry of DNA-bound Metalloproteins
Pheeney, Catrina G.; Arnold, Anna R.; Grodick, Michael A.; Barton, Jacqueline K.
2013-01-01
Here we describe a multiplexed electrochemical characterization of DNA-bound proteins containing [4Fe-4S] clusters. DNA-modified electrodes have become an essential tool for the characterization of the redox chemistry of DNA repair proteins containing redox cofactors, and multiplexing offers a means to probe different complex samples and substrates in parallel to elucidate this chemistry. Multiplexed analysis of EndonucleaseIII (EndoIII), a DNA repair protein containing a [4Fe-4S] cluster known to be accessible via DNA-mediated charge transport, shows subtle differences in the electrochemical behavior as a function of DNA morphology. The peak splitting, signal broadness, sensitivity to π-stack perturbations, and kinetics were all characterized for the DNA-bound reduction of EndoIII on both closely and loosely packed DNA films. DNA-bound EndoIII is seen to have two different electron transfer pathways for reduction, either through the DNA base stack or through direct surface reduction; closely packed DNA films, where the protein has limited surface accessibility, produce electrochemical signals reflecting electron transfer that is DNA-mediated. Multiplexing furthermore permits the comparison of the electrochemistry of EndoIII mutants, including a new family of mutations altering the electrostatics surrounding the [4Fe-4S] cluster. While little change in the midpoint potential was found for this family of mutants, significant variations in the efficiency of DNA-mediated electron transfer were apparent. Based on the stability of these proteins, examined by circular dichroism, we propose that the electron transfer pathway can be perturbed not only by the removal of aromatic residues but also through changes in solvation near the cluster. PMID:23899026
Institute of Scientific and Technical Information of China (English)
滕瑶; 王亚光; 费讲驰; 鲁涛; 何则强
2015-01-01
在自行构建的“H”型双室微生物燃料电池（M FC ）中，以湖南省吉首市大田湾污水处理厂曝气池中的污泥为接种污泥，以可溶性淀粉和白糊精为底物，考察不同底物及其质量浓度对M FC获得稳定开路电压所需时间、启动时间、电动势、内阻及功率密度等性能的影响．实验结果显示，在同样的条件下，以白糊精为底物的M FC启动快、内阻小、功率密度较小，而以可溶性为底物的M FC启动慢、内阻大、功率密度大；底物质量浓度低于6 g／L时，以可溶性淀粉为底物的M FC达到稳定开路电压的时间随质量浓度增大而增加，底物质量浓度低于8 g／L时，以白糊精为底物的M FC达到稳定开路电压的时间随质量浓度增大而增加．由于底物抑制效应，质量浓度较高时，随着底物质量浓度的增加．M FC达到稳定开路电压所需的时间反而减少．%A reaction equipment of microbial fuel cell (MFC) with“H” structure was designed and fabri‐cated .The sludge collected from the aeration tan in Datianwan Sewage Treatment Plant in Jishou was used to inoculate electricigens .The effects of substrate species and concentration on the electricity gener‐ation of M FC in view of start‐up time ,time for obtaining stable open circuit voltage ,electromotive force , internal resistance and power density were investigated .Experimental results showed that the substrate species and concentration greatly influenced the electricity generation of M FC probably due to their difference in structure .It was found that the white dextrin‐fed MFC could be started up in shorter time with smaller internal resistance ,smaller electromotive force and smaller power density .Under the same conditions ,the soluble starch‐fed MFC had larger electromotive force ,larger power density ,bigger inter‐nal resistance and longer time to be started‐up .The results also indicated that an increase in
Hazen, S L; Gaut, J P; Crowley, J R; Hsu, F F; Heinecke, J W
2000-12-15
Reactive aldehydes might have a pivotal role in the pathogenesis of atherosclerosis by covalently modifying low-density lipoprotein (LDL). However, the identities of the aldehyde adducts that form on LDL in vivo are not yet clearly established. We previously demonstrated that the haem protein myeloperoxidase oxidizes proteins in the human artery wall. We also have shown that p-hydroxyphenylacetaldehyde (pHA), the aldehyde that forms when myeloperoxidase oxidizes L-tyrosine, covalently modifies the N(epsilon)-lysine residues of proteins. The resulting Schiff base can be quantified as N(epsilon)-[2-(p-hydroxyphenyl)ethyl]lysine (pHA-lysine) after reduction with NaCNBH(3). Here we demonstrate that pHA-lysine is a marker for LDL that has been modified by myeloperoxidase, and that water-soluble, but not lipid-soluble, antioxidants inhibit the modification of LDL protein. To determine whether myeloperoxidase-generated aldehydes might modify LDL in vivo, we used a combination of isotope-dilution GC-MS to quantify pHA-lysine in aortic tissues at various stages of lesion evolution. We also analysed LDL isolated from atherosclerotic aortic tissue. Comparison of normal and atherosclerotic aortic tissue demonstrated a significant elevation (more than 10-fold) of the reduced Schiff base adduct in fatty streaks, intermediate lesions and advanced lesions compared with normal aortic tissue. Moreover, the level of pHA-lysine in LDL recovered from atherosclerotic aortic intima was 200-fold that in plasma LDL of healthy donors. These results indicate that pHA-lysine, a specific covalent modification of LDL, is generated in human atherosclerotic vascular tissue. They also raise the possibility that reactive aldehydes generated by myeloperoxidase have a role in converting LDL into an atherogenic lipoprotein.
Nuclear dynamics of K¯ bound states
Mareš, J.; Friedman, E.; Gal, A.
2006-07-01
K¯ nuclear bound states were generated dynamically within a relativistic mean field (RMF) model. Substantial polarization of the core nucleus was found for light nuclei. The behavior of the dynamically calculated width ΓK¯ as function of the K¯ binding energy was studied. A lower limit of ΓK¯ ˜ 35 - 45 MeV for 1s K¯ nuclear states in light nuclei such as 12C was placed on the width expected for deep binding in the range B K¯ ˜ 100 - 200 MeV.
Jeong, Ki-Woong; Kang, Dong-Il; Lee, Eunjung; Shin, Areum; Jin, Bonghwan; Park, Young-Guen; Lee, Chung-Kyoung; Kim, Eun-Hee; Jeon, Young Ho; Kim, Eunice Eunkyeong; Kim, Yangmee
2014-07-29
Phosphatases of regenerating liver (PRLs) constitute a novel class of small, prenylated phosphatases with oncogenic activity. PRL-3 is particularly important in cancer metastasis and represents a potential therapeutic target. The flexibility of the WPD loop as well as the P-loop of protein tyrosine phosphatases is closely related to their catalytic activity. Using nuclear magnetic resonance spectroscopy, we studied the structure of vanadate-bound PRL-3, which was generated by addition of sodium orthovanadate to PRL-3. The WPD loop of free PRL-3 extended outside of the active site, forming an open conformation, whereas that of vanadate-bound PRL-3 was directed into the active site by a large movement, resulting in a closed conformation. We suggest that vanadate binding induced structural changes in the WPD loop, P-loop, helices α4-α6, and the polybasic region. Compared to free PRL-3, vanadate-bound PRL-3 has a longer α4 helix, where the catalytic R110 residue coordinates with vanadate in the active site. In addition, the hydrophobic cavity formed by helices α4-α6 with a depth of 14-15 Å can accommodate a farnesyl chain at the truncated prenylation motif of PRL-3, i.e., from R169 to M173. Conformational exchange data suggested that the WPD loop moves between open and closed conformations with a closing rate constant k(close) of 7 s(-1). This intrinsic loop flexibility of PRL-3 may be related to their catalytic rate and may play a role in substrate recognition.
Bound States of a Ferromagnetic Wire in a Superconductor.
Sau, Jay D; Brydon, P M R
2015-09-18
We consider the problem of bound states in strongly anisotropic ferromagnetic impurities in a superconductor, motivated by recent experiments that claim to observe Majorana modes at the ends of ferromagnetic wires on a superconducting substrate [S. Nadj-Perge et al., Science 346, 602 (2014)]. Generalizing the successful theory of bound states of spherically symmetric impurities, we consider a wirelike potential using both analytical and numerical approaches. We find that away from the ends of the wire the bound states form bands with pronounced van Hove singularities, giving rise to subgap peaks in the local density of states. For sufficiently strong magnetization of the wire, we show that this process generically produces a sharp peak at zero energy in the local density of states near the ends of the wire. This zero-energy peak has qualitative similarities to the claimed signature of a Majorana mode observed in the aforementioned experiment.
DEFF Research Database (Denmark)
Glombitza, Clemens; Mangelsdorf, Kai; Horsfield, Brian
2009-01-01
A rank series of lignites and coals of low to moderate maturation levels (vitrinite reflectance (R0): 0.27–0.8%) from the New Zealand Coal Band were investigated using alkaline ester cleavage experiments to reveal compositional changes of ester bound components (fatty acids and alcohols) during...... increasing maturation. Ester bound alcohols are found to be present in highest amounts in the very immature lignite samples (R0: 0.27–0.29%), but show a rapid decrease during early diagenesis. Ester bound fatty acids also show an initial exponential decrease during diagenesis, but reveal an intermittent...... containing C16 and C18 fatty acids as main cell membrane components. Deep microbial life might be stimulated at this interval by the increasing release of thermally generated potential substrates from the organic matrix during early catagenesis. In contrast to the fatty acids, the high amounts of alcohols...
Mutual information challenges entropy bounds
Casini, H
2006-01-01
We consider some formulations of the entropy bounds at the semiclassical level. The entropy S(V) localized in a region V is divergent in quantum field theory (QFT). Instead of it we focus on the mutual information I(V,W)=S(V)+S(W)-S(V U W) between two different non-intersecting sets V and W. This is a low energy quantity, independent of the regularization scheme. In addition, the mutual information is bounded above by twice the entropy corresponding to the sets involved. Calculations of I(V,W) in QFT show that the entropy in empty space cannot be renormalized to zero, and must be actually very large. We find that this entropy due to the vacuum fluctuations violates the FMW bound in Minkowski space. The mutual information also gives a precise, cutoff independent meaning to the statement that the number of degrees of freedom increases with the volume in QFT. If the holographic bound holds, this points to the essential non locality of the physical cutoff. Violations of the Bousso bound would require conformal th...
Biodegradation of hydrocarbons exploiting spent substrate from ...
African Journals Online (AJOL)
The production of edible mushrooms generates spent mushroom substrate that ... specific enzymatic lacasses, manganese peroxidases, versatile peroxidases, ... nitrogen and 0.3% phosphorus) and bioaugmentation of the microorganisms of ...
Eta nuclear bound states revisited
Friedman, E; Mareš, J
2013-01-01
The strong energy dependence of the s-wave eta-N scattering amplitude at and below threshold, as evident in coupled-channels K-matrix fits and chiral models that incorporate the S11 N*(1535) resonance, is included self consistently in eta-nuclear bound state calculations. This approach, applied recently in calculations of kaonic atoms and Kbar-nuclear bound states, is found to impose stronger constraints than ever on the onset of eta-nuclear binding, with a minimum value of Re a_{eta N} approximately 0.9 fm required to accommodate an eta-4He bound state. Binding energies and widths of eta-nuclear states are calculated within several underlying eta-N models for nuclei across the periodic table, including eta-25Mg for which some evidence was proposed in a recent COSY experiment.
Improved Range Searching Lower Bounds
DEFF Research Database (Denmark)
Larsen, Kasper Green; Nguyen, Huy L.
2012-01-01
Table of Contents -------------------------------------------------------------------------------- In this paper we present a number of improved lower bounds for range searching in the pointer machine and the group model. In the pointer machine, we prove lower bounds for the approximate simplex...... range reporting problem. In approximate simplex range reporting, points that lie within a distance of ε ⋅ Diam(s) from the border of a query simplex s, are free to be included or excluded from the output, where ε ≥ 0 is an input parameter to the range searching problem. We prove our lower bounds...... by constructing a hard input set and query set, and then invoking Chazelle and Rosenberg's [CGTA'96] general theorem on the complexity of navigation in the pointer machine. For the group model, we show that input sets and query sets that are hard for range reporting in the pointer machine (i.e. by Chazelle...
Experimental activation of bound entanglement.
Kaneda, Fumihiro; Shimizu, Ryosuke; Ishizaka, Satoshi; Mitsumori, Yasuyoshi; Kosaka, Hideo; Edamatsu, Keiichi
2012-07-27
Entanglement is one of the essential resources in quantum information and communication technology (QICT). The entanglement thus far explored and applied to QICT has been pure and distillable entanglement. Yet, there is another type of entanglement, called "bound entanglement," which is not distillable by local operations and classical communication. We demonstrate the experimental "activation" of the bound entanglement held in the four-qubit Smolin state, unleashing its immanent entanglement in distillable form, with the help of auxiliary two-qubit entanglement and local operations and classical communication. We anticipate that it opens the way to a new class of QICT applications that utilize more general classes of entanglement than ever, including bound entanglement.
Silencer! A Tool for Substrate Noise Coupling Analysis
2004-01-09
generated!’. Begin sncLocatePorts( ) Get ID, Bounding Box, and Name of Layout Cellview if Cellview Doesn’t End with ’_snc’ then Call Function...sncNewLayView( ) Open a New Layout Cellview with Suffix ’_snc’ and Copy Layout into it. Call Function: sncSubCells( ) Flatten Subcells (e.g. p-Cells) and...case Bounding Box of No Bounding Box Found Draw a Chip Boundary (SC_Chip-layer) around the Cellview Bounding Box and Return Coordinates of One Bounding
Directory of Open Access Journals (Sweden)
Bosch Valerie
2006-05-01
Full Text Available Abstract H9-T-cells do not support the replication of mutant HIV-1 encoding Env protein lacking its long cytoplasmic C-terminal domain (Env-CT. Here we describe the generation of a H9-T-cell population constitutively expressing the HIV-1 Env-CT protein domain anchored in the cellular membrane by it homologous membrane-spanning domain (TMD. We confirmed that the Env-TMD-CT protein was associated with cellular membranes, that its expression did not have any obvious cytotoxic effects on the cells and that it did not affect wild-type HIV-1 replication. However, as measured in both a single-round assay as well as in spreading infections, replication competence of mutant pNL-Tr712, lacking the Env-CT, was not restored in this H9 T-cell population. This means that the Env-CT per se cannot transcomplement the replication block of HIV-1 virions encoding C-terminally truncated Env proteins and suggests that the Env-CT likely exerts its function only in the context of the complete Env protein.
Modeling agreement on bounded scales.
Vanbelle, Sophie; Lesaffre, Emmanuel
2017-01-01
Agreement is an important concept in medical and behavioral sciences, in particular in clinical decision making where disagreements possibly imply a different patient management. The concordance correlation coefficient is an appropriate measure to quantify agreement between two scorers on a quantitative scale. However, this measure is based on the first two moments, which could poorly summarize the shape of the score distribution on bounded scales. Bounded outcome scores are common in medical and behavioral sciences. Typical examples are scores obtained on visual analog scales and scores derived as the number of positive items on a questionnaire. These kinds of scores often show a non-standard distribution, like a J- or U-shape, questioning the usefulness of the concordance correlation coefficient as agreement measure. The logit-normal distribution has shown to be successful in modeling bounded outcome scores of two types: (1) when the bounded score is a coarsened version of a latent score with a logit-normal distribution on the [0,1] interval and (2) when the bounded score is a proportion with the true probability having a logit-normal distribution. In the present work, a model-based approach, based on a bivariate generalization of the logit-normal distribution, is developed in a Bayesian framework to assess the agreement on bounded scales. This method permits to directly study the impact of predictors on the concordance correlation coefficient and can be simply implemented in standard Bayesian softwares, like JAGS and WinBUGS. The performances of the new method are compared to the classical approach using simulations. Finally, the methodology is used in two different medical domains: cardiology and rheumatology.
Lower Bounds for Sparse Recovery
Ba, Khanh Do; Price, Eric; Woodruff, David P
2011-01-01
We consider the following k-sparse recovery problem: design an m x n matrix A, such that for any signal x, given Ax we can efficiently recover x' satisfying ||x-x'||_1 <= C min_{k-sparse} x"} ||x-x"||_1. It is known that there exist matrices A with this property that have only O(k log (n/k)) rows. In this paper we show that this bound is tight. Our bound holds even for the more general /randomized/ version of the problem, where A is a random variable and the recovery algorithm is required to work for any fixed x with constant probability (over A).
Variables Bounding Based Retiming Algorithm
Institute of Scientific and Technical Information of China (English)
宫宗伟; 林争辉; 陈后鹏
2002-01-01
Retiming is a technique for optimizing sequential circuits. In this paper, wediscuss this problem and propose an improved retiming algorithm based on variables bounding.Through the computation of the lower and upper bounds on variables, the algorithm can signi-ficantly reduce the number of constraints and speed up the execution of retiming. Furthermore,the elements of matrixes D and W are computed in a demand-driven way, which can reducethe capacity of memory. It is shown through the experimental results on ISCAS89 benchmarksthat our algorithm is very effective for large-scale sequential circuits.
Bounds for Completely Decomposable Jacobians
Duursma, Iwan
2010-01-01
A curve over the field of two elements with completely decomposable Jacobian is shown to have at most six rational points and genus at most 26. The bounds are sharp. The previous upper bound for the genus was 145. We also show that a curve over the field of $q$ elements with more than $q^{m/2}+1$ rational points has at least one Frobenius angle in the open interval $(\\pi/m,3\\pi/m)$. The proofs make use of the explicit formula method.
Simplified Drift Analysis for Proving Lower Bounds in Evolutionary Computation
DEFF Research Database (Denmark)
Oliveto, Pietro S.; Witt, Carsten
2011-01-01
Drift analysis is a powerful tool used to bound the optimization time of evolutionary algorithms (EAs). Various previous works apply a drift theorem going back to Hajek in order to show exponential lower bounds on the optimization time of EAs. However, this drift theorem is tedious to read...... and to apply since it requires two bounds on the moment-generating (exponential) function of the drift. A recent work identifies a specialization of this drift theorem that is much easier to apply. Nevertheless, it is not as simple and not as general as possible. The present paper picks up Hajek’s line...... of thought to prove a drift theorem that is very easy to use in evolutionary computation. Only two conditions have to be verified, one of which holds for virtually all EAs with standard mutation. The other condition is a bound on what is really relevant, the drift. Applications show how previous analyses...
Higgs interchange and bound states of superheavy fermions
Indian Academy of Sciences (India)
M De Sanctis
2013-09-01
Hypothetical superheavy fourth-generation fermions with a very small coupling with the rest of the Standard Model can give rise to long enough lived bound states. The production and the detection of these bound states would be experimentally feasible at the LHC. Extending, in the present study, the analysis of other authors, a semirelativistic wave equation is solved using an accurate numerical method to determine the binding energies of these possible superheavy fermion-bound states. The interaction given by the Yukawa potential of the Higgs boson exchange is considered; the corresponding relativistic corrections are calculated by means of a model based on the covariance properties of the Hamiltonian. We study the effects given by the Coulomb force. Moreover, we calculate the contributions given by the Coulombic and confining terms of the strong interaction in the case of superheavy quark bound states. The results of the model are critically analysed.
On Pseudocodewords and Improved Union Bound of Linear Programming Decoding of HDPC Codes
Gidon, Ohad
2012-01-01
In this paper, we present an improved union bound on the Linear Programming (LP) decoding performance of the binary linear codes transmitted over an additive white Gaussian noise channels. The bounding technique is based on the second-order of Bonferroni-type inequality in probability theory, and it is minimized by Prim's minimum spanning tree algorithm. The bound calculation needs the fundamental cone generators of a given parity-check matrix rather than only their weight spectrum, but involves relatively low computational complexity. It is targeted to high-density parity-check codes, where the number of their generators is extremely large and these generators are spread densely in the Euclidean space. We explore the generator density and make a comparison between different parity-check matrix representations. That density effects on the improvement of the proposed bound over the conventional LP union bound. The paper also presents a complete pseudo-weight distribution of the fundamental cone generators for ...
Widmer, L A; Stelling, J; Doyle, F J
2013-10-28
Using the (slow-scale) linear noise approximation, we give parameter-independent bounds to the substrate and product intrinsic noise variance for the stochastic Michaelis-Menten approximation at steady state.
Tentative identification of the second substrate binding site in Arabidopsis phytochelatin synthase.
Directory of Open Access Journals (Sweden)
Ju-Chen Chia
Full Text Available Phytochelatin synthase (PCS uses the substrates glutathione (GSH, γGlu-Cys-Gly and a cadmium (Cd-bound GSH (Cd∙GS2 to produce the shortest phytochelatin product (PC2, (γGlu-Cys2-Gly through a ping-pong mechanism. The binding of the 2 substrates to the active site, particularly the second substrate binding site, is not well-understood. In this study, we generated a structural model of the catalytic domain of Arabidopsis AtPCS1 (residues 12-218 by using the crystal structure of the γGlu-Cys acyl-enzyme complex of the PCS of the cyanobacterium Nostoc (NsPCS as a template. The modeled AtPCS1 revealed a cavity in proximity to the first substrate binding site, consisting of 3 loops containing several conserved amino acids including Arg152, Lys185, and Tyr55. Substitutions of these amino acids (R152K, K185R, or double mutation resulted in the abrogation of enzyme activity, indicating that the arrangement of these 2 positive charges is crucial for the binding of the second substrate. Recombinant AtPCS1s with mutations at Tyr55 showed lower catalytic activities because of reduced affinity (3-fold for Y55W for the Cd∙GS2, further suggesting the role of the cation-π interaction in recognition of the second substrate. Our study results indicate the mechanism for second substrate recognition in PCS. The integrated catalytic mechanism of PCS is further discussed.
Bounded Densities and Their Derivatives
DEFF Research Database (Denmark)
Kozine, Igor; Krymsky, V.
2009-01-01
This paper describes how one can compute interval-valued statistical measures given limited information about the underlying distribution. The particular focus is on a bounded derivative of a probability density function and its combination with other available statistical evidence for computing ...
Wronskian Method for Bound States
Fernandez, Francisco M.
2011-01-01
We propose a simple and straightforward method based on Wronskians for the calculation of bound-state energies and wavefunctions of one-dimensional quantum-mechanical problems. We explicitly discuss the asymptotic behaviour of the wavefunction and show that the allowed energies make the divergent part vanish. As illustrative examples we consider…
Variational Bounds for Creeping Composites
Procházka, Petr
2010-05-01
In the paper time dependent variational bounds are derived based on Extended Hashin-Shtrikman variational principles. Direct calculation leads to explicit formulas to be presented in the text. For various mechanical properties easy coding in Excel, say, can be used and verification of accuracy for numerical procedures is available using the derived formulas.
Pieter Paul Rubens, "Prometheus Bound."
Shoemaker, Marla K.
1986-01-01
Provides a full-color reproduction of Pieter Paul Rubens' painting, "Prometheus Bound," and a lesson plan for using it with students in grades 10 through 12. The goal of the lesson is to introduce students to the techniques of design and execution used by Rubens. (JDH)
Carvalho, Catarina; MarkoviÄ, Petar; Maróti, Miklós
2007-01-01
We prove that the constraint languages invariant under a short sequence of J\\'onsson terms (containing at most three non-trivial ternary terms) are tractable by showing that they have bounded width. This improves the previous result by Kiss and Valeriote and presents some evidence that the Larose-Zadori conjecture holds in the congruence-distributive case.
Pieter Paul Rubens, "Prometheus Bound."
Shoemaker, Marla K.
1986-01-01
Provides a full-color reproduction of Pieter Paul Rubens' painting, "Prometheus Bound," and a lesson plan for using it with students in grades 10 through 12. The goal of the lesson is to introduce students to the techniques of design and execution used by Rubens. (JDH)
A Functional Calculus for Quotient Bounded Operators
Directory of Open Access Journals (Sweden)
Sorin Mirel Stoian
2006-12-01
Full Text Available If (X, P is a sequentially locally convex space, then a quotient bounded operator T beloging to QP is regular (in the sense of Waelbroeck if and only if it is a bounded element (in the sense of Allan of algebra QP. The classic functional calculus for bounded operators on Banach space is generalized for bounded elements of algebra QP.
Ion exchange substrates for plant cultivation in extraterrestrial stations and space crafts
Soldatov, Vladimir
2012-07-01
Ion exchange substrates Biona were specially designed at the Belarus Academy of Sciences for plants cultivation in spacecrafts and extraterrestrial stations. The first versions of such substrates have been successfully used in several space experiments and in a long-term experiment in which three soviet test-spacemen spent a full year in hermetic cabin imitating a lunar station cabin (1067-1968). In this experiment the life support system included a section with about one ton of the ion exchange substrate, which was used to grow ten vegetations of different green cultures used in the food of the test persons. Due to failure of a number of Soviet space experiments, decay of the Soviet Union and the following economic crisis the research in this field carried out in Belarus were re-directed to the needs of usual agriculture, such as adaptation of cell cultures, growing seedlings, rootage of cuttings etc. At present ion exchange substrate Biona are produced in limited amounts at the experimental production plant of the Institute of Physical Organic Chemistry and used in a number of agricultural enterprises. New advanced substrates and technologies for their production have been developed during that time. In the presentation scientific principles of preparation and functioning of ion exchange substrates as well as results of their application for cultivation different plants are described. The ion exchange substrate is a mixture of cation and anion exchangers saturated in a certain proportions with all ions of macro and micro elements. These chemically bound ions are not released to water and become available for plants in exchange to their root metabolites. The substrates contain about 5% mass of nutrient elements far exceeding any other nutrient media for plants. They allow generating 3-5 kg of green biomass per kilogram of substrate without adding any fertilizers; they are sterile by the way of production and can be sterilized by usual methods; allow regeneration
Force-producing ADP state of myosin bound to actin.
Wulf, Sarah F; Ropars, Virginie; Fujita-Becker, Setsuko; Oster, Marco; Hofhaus, Goetz; Trabuco, Leonardo G; Pylypenko, Olena; Sweeney, H Lee; Houdusse, Anne M; Schröder, Rasmus R
2016-03-29
Molecular motors produce force when they interact with their cellular tracks. For myosin motors, the primary force-generating state has MgADP tightly bound, whereas myosin is strongly bound to actin. We have generated an 8-Å cryoEM reconstruction of this state for myosin V and used molecular dynamics flexed fitting for model building. We compare this state to the subsequent state on actin (Rigor). The ADP-bound structure reveals that the actin-binding cleft is closed, even though MgADP is tightly bound. This state is accomplished by a previously unseen conformation of the β-sheet underlying the nucleotide pocket. The transition from the force-generating ADP state to Rigor requires a 9.5° rotation of the myosin lever arm, coupled to a β-sheet rearrangement. Thus, the structure reveals the detailed rearrangements underlying myosin force generation as well as the basis of strain-dependent ADP release that is essential for processive myosins, such as myosin V.
Structure of ATP-Bound Human ATP:Cobalamin Adenosyltransferase
Energy Technology Data Exchange (ETDEWEB)
Schubert,H.; Hill, C.
2006-01-01
Mutations in the gene encoding human ATP:cobalamin adenosyltransferase (hATR) can result in the metabolic disorder known as methylmalonic aciduria (MMA). This enzyme catalyzes the final step in the conversion of cyanocobalamin (vitamin B{sub 12}) to the essential human cofactor adenosylcobalamin. Here we present the 2.5 {angstrom} crystal structure of ATP bound to hATR refined to an R{sub free} value of 25.2%. The enzyme forms a tightly associated trimer, where the monomer comprises a five-helix bundle and the active sites lie on the subunit interfaces. Only two of the three active sites within the trimer contain the bound ATP substrate, thereby providing examples of apo- and substrate-bound-active sites within the same crystal structure. Comparison of the empty and occupied sites indicates that twenty residues at the enzyme's N-terminus become ordered upon binding of ATP to form a novel ATP-binding site and an extended cleft that likely binds cobalamin. The structure explains the role of 20 invariant residues; six are involved in ATP binding, including Arg190, which hydrogen bonds to ATP atoms on both sides of the scissile bond. Ten of the hydrogen bonds are required for structural stability, and four are in positions to interact with cobalamin. The structure also reveals how the point mutations that cause MMA are deficient in these functions.
Space-bounded communication complexity
DEFF Research Database (Denmark)
Brody, Joshua Eric; Chen, Shiteng; Papakonstantinou, Periklis A.
2013-01-01
In the past thirty years, Communication Complexity has emerged as a foundational tool to proving lower bounds in many areas of computer science. Its power comes from its generality, but this generality comes at a price---no superlinear communication lower bound is possible, since a player may...... communicate his entire input. However, what if the players are limited in their ability to recall parts of their interaction? We introduce memory models for 2-party communication complexity. Our general model is as follows: two computationally unrestricted players, Alice and Bob, each have s(n) bits of memory....... When a player receives a bit of communication, he "compresses" his state. This compression may be an arbitrary function of his current memory contents, his input, and the bit of communication just received; the only restriction is that the compression must return at most s(n) bits. We obtain memory...
Lower Bounds on Paraclique Density.
Hagan, Ronald D; Langston, Michael A; Wang, Kai
2016-05-11
The scientific literature teems with clique-centric clustering strategies. In this paper we analyze one such method, the paraclique algorithm. Paraclique has found practical utility in a variety of application domains, and has been successfully employed to reduce the effects of noise. Nevertheless, its formal analysis and worst-case guarantees have remained elusive. We address this issue by deriving a series of lower bounds on paraclique densities.
Wronskian method for bound states
Energy Technology Data Exchange (ETDEWEB)
Fernandez, Francisco M, E-mail: fernande@quimica.unlp.edu.ar [INIFTA (UNLP, CONICET), Division Quimica Teorica, Boulevard 113 S/N, Sucursal 4, Casilla de Correo 16, 1900 La Plata (Argentina)
2011-05-15
We propose a simple and straightforward method based on Wronskians for the calculation of bound-state energies and wavefunctions of one-dimensional quantum-mechanical problems. We explicitly discuss the asymptotic behaviour of the wavefunction and show that the allowed energies make the divergent part vanish. As illustrative examples we consider an exactly solvable model, the Gaussian potential well, and a two-well potential proposed earlier for the interpretation of the infrared spectrum of ammonia.
Bound Modes in Dielectric Microcavities
Visser, P M; Lenstra, D
2002-01-01
We demonstrate how exactly bound cavity modes can be realized in dielectric structures other than 3d photonic crystals. For a microcavity consisting of crossed anisotropic layers, we derive the cavity resonance frequencies, and spontaneous emission rates. For a dielectric structure with dissipative loss and central layer with gain, the beta factor of direct spontaneous emission into a cavity mode and the laser threshold is calculated.
Entropy Bounds in Spherical Space
Brevik, I; Odintsov, S D; Brevik, Iver; Milton, Kimball A.; Odintsov, Sergei D.
2002-01-01
Exact calculations are given for the Casimir energy for various fields in $R\\times S^3$ geometry. The Green's function method naturally gives a result in a form convenient in the high-temperature limit, while the statistical mechanical approach gives a form appropriate for low temperatures. The equivalence of these two representations is demonstrated. Some discrepancies with previous work are noted. In no case, even for ${\\cal N}=4$ SUSY, is the ratio of entropy to energy found to be bounded.
2013-03-26
... Agency Information Collection Activities; Comment Request; Upward Bound and Upward Bound Math Science... Upward Bound Math Science Annual Performance Report. OMB Control Number: 1840-NEW. Type of Review: New... under the regular Upward Bound (UB) and Upward Bound Math and Science (UBMS) Programs. The Department is...
Kim, Hyo-Sil
2011-01-01
We study the motion-planning problem for a car-like robot whose turning radius is bounded from below by one and which is allowed to move in the forward direction only (Dubins car). For two robot configurations $\\sigma, \\sigma'$, let $\\ell(\\sigma, \\sigma')$ be the shortest bounded-curvature path from $\\sigma$ to $\\sigma'$. For $d \\geq 0$, let $\\ell(d)$ be the supremum of $\\ell(\\sigma, \\sigma')$, over all pairs $(\\sigma, \\sigma')$ that are at Euclidean distance $d$. We study the function $\\dub(d) = \\ell(d) - d$, which expresses the difference between the bounded-curvature path length and the Euclidean distance of its endpoints. We show that $\\dub(d)$ decreases monotonically from $\\dub(0) = 7\\pi/3$ to $\\dub(\\ds) = 2\\pi$, and is constant for $d \\geq \\ds$. Here $\\ds \\approx 1.5874$. We describe pairs of configurations that exhibit the worst-case of $\\dub(d)$ for every distance $d$.
Daly, Ruth A
2009-01-01
Beam powers and black hole masses of 48 extended radio sources are combined to obtain lower bounds on the spins and magnetic field strengths of supermassive black holes. This is done in the context of the models of Blandford & Znajek (1977) (the 'BZ' model) and Meier (1999); a parameterization for bounds in the context of other models is suggested. The bounds obtained for very powerful classical double radio sources in the BZ model are consistent with black hole spins of order unity for sources at high redshift. The black hole spins are largest for the highest redshift sources and decrease for sources at lower redshift; the sources studied have redshifts between zero and two. Lower power radio sources associated with central dominant galaxies may have black hole spins that are significantly less than one. Combining this analysis with other results suggests that the maximum values of black hole spin associated with powerful radio galaxies decline from values of order unity at a redshift of 2 to values of o...
Bounds on Generalized Huffman Codes
Baer, Michael B
2007-01-01
New lower and upper bounds are obtained for the compression of optimal binary prefix codes according to various nonlinear codeword length objectives. Like the coding bounds for Huffman coding - which concern the traditional linear code objective of minimizing average codeword length -- these are in terms of a form of entropy and the probability of the most probable input symbol. As in Huffman coding, some upper bounds can be found using sufficient conditions for the codeword corresponding to the most probable symbol being one bit long. Whereas having probability no less than 0.4 is a tight sufficient condition for this to be the case in Huffman coding, other penalties differ, some having a tighter condition, some a looser condition, and others having no such sufficient condition. The objectives explored here are ones for which optimal codes can be found using a generalized form of Huffman coding. These objectives include one related to queueing (an increasing exponential average), one related to single-shot c...
A bound on the entropy of supergravity?
de Boer, Jan; Messamah, Ilies; Bleeken, Dieter Van den
2009-01-01
We determine, in two independent ways, the number of BPS quantum states arising from supergravity degrees of freedom in a system with fixed total D4D0 charge. First, we count states generated by quantizing the spacetime degrees of freedom of 'entropyless' multicentered solutions consisting of anti-D0-branes bound to a D6-anti-D6 pair. Second, we determine the number of free supergravity excitations of the corresponding AdS_3 geometry with the same total charge. We find that, although these two approaches yield a priori different sets of states, the leading degeneracies in a large charge expansion are equal to each other and that, furthermore, the number of such states is parametrically smaller than that arising from the D4D0 black hole's entropy. This strongly suggests that supergravity alone is not sufficient to capture all degrees of freedom of large supersymmetric black holes. Comparing the free supergravity calculation to that of the D6-anti-D6-D0 system we find that the bound on the free spectrum imposed...
Structure of photosystem II and substrate binding at room temperature
Gul, Sheraz; Fuller, Franklin; Koroidov, Sergey; Brewster, Aaron S.; Tran, Rosalie; Alonso-Mori, Roberto; Kroll, Thomas; Michels-Clark, Tara; Laksmono, Hartawan; Sierra, Raymond G.; Stan, Claudiu A.; Hussein, Rana; Zhang, Miao; Douthit, Lacey; Kubin, Markus; de Lichtenberg, Casper; Long Vo, Pham; Nilsson, Håkan; Cheah, Mun Hon; Shevela, Dmitriy; Saracini, Claudio; Bean, Mackenzie A.; Seuffert, Ina; Sokaras, Dimosthenis; Weng, Tsu-Chien; Pastor, Ernest; Weninger, Clemens; Fransson, Thomas; Lassalle, Louise; Bräuer, Philipp; Aller, Pierre; Docker, Peter T.; Andi, Babak; Orville, Allen M.; Glownia, James M.; Nelson, Silke; Sikorski, Marcin; Zhu, Diling; Hunter, Mark S.; Lane, Thomas J.; Aquila, Andy; Koglin, Jason E.; Robinson, Joseph; Liang, Mengning; Boutet, Sébastien; Lyubimov, Artem Y.; Uervirojnangkoorn, Monarin; Moriarty, Nigel W.; Liebschner, Dorothee; Afonine, Pavel V.; Waterman, David G.; Evans, Gwyndaf; Wernet, Philippe; Dobbek, Holger; Weis, William I.; Brunger, Axel T.; Zwart, Petrus H.; Adams, Paul D.; Zouni, Athina; Messinger, Johannes; Bergmann, Uwe; Sauter, Nicholas K.; Kern, Jan; Yachandra, Vittal K.; Yano, Junko
2016-01-01
Light-induced oxidation of water by photosystem II (PS II) in plants, algae and cyanobacteria has generated most of the dioxygen in the atmosphere. PS II, a membrane-bound multi-subunit pigment-protein complex, couples the one-electron photochemistry at the reaction center with the four-electron redox chemistry of water oxidation at the Mn4CaO5 cluster in the oxygen-evolving complex (OEC) (Fig. 1a, Extended Data Fig. 1). Under illumination, the OEC cycles through five intermediate S-states (S0 to S4)1, where S1 is the dark stable state and S3 is the last semi-stable state before O-O bond formation and O2 evolution2,3. A detailed understanding of the O-O bond formation mechanism remains a challenge, and elucidating the structures of the OEC in the different S-states, as well as the binding of the two substrate waters to the catalytic site4-6, is a prerequisite for this purpose. Here we report the use of femtosecond pulses from an X-ray free electron laser (XFEL) to obtain damage free, room temperature (RT) structures of dark-adapted (S1), two-flash illuminated (2F; S3-enriched), and ammonia-bound two-flash illuminated (2F-NH3; S3-enriched) PS II. Although the recent 1.95 Å structure of PS II7 at cryogenic temperature using an XFEL provided a damage-free view of the S1 state, RT measurements are required to study the structural landscape of proteins under functional conditions8,9, and also for in situ advancement of the S-states. To investigate the water-binding site(s), ammonia, a water analog, has been used as a marker, as it binds to the Mn4CaO5 cluster in the S2 and S3 states10. Since the ammonia-bound OEC is active, the ammonia-binding Mn site is not a substrate water site10-13. Thus, this approach, together with a comparison of the native dark and 2F states, is used to discriminate between proposed O-O bond formation mechanisms. PMID:27871088
On interpretations of bounded arithmetic and bounded set theory
Pettigrew, Richard
2008-01-01
In a recent paper, Kaye and Wong proved the following result, which they considered to belong to the folklore of mathematical logic. THEOREM: The first-order theories of Peano arithmetic and ZF with the axiom of infinity negated are mutually interpretable with interpretations that are inverse to each other. In this note, I describe a theory of sets that stands in the same relation to the bounded arithmetic IDelta0 + exp. Because of the weakness of this theory of sets, I cannot straightforwardly adapt Kaye and Wong's interpretation of the arithmetic in the set theory. Instead, I am forced to produce a different interpretation.
Upper Bounds on Numerical Approximation Errors
DEFF Research Database (Denmark)
Raahauge, Peter
2004-01-01
This paper suggests a method for determining rigorous upper bounds on approximationerrors of numerical solutions to infinite horizon dynamic programming models.Bounds are provided for approximations of the value function and the policyfunction as well as the derivatives of the value function....... The bounds apply to moregeneral problems than existing bounding methods do. For instance, since strict concavityis not required, linear models and piecewise linear approximations can bedealt with. Despite the generality, the bounds perform well in comparison with existingmethods even when applied...... to approximations of a standard (strictly concave)growth model.KEYWORDS: Numerical approximation errors, Bellman contractions, Error bounds...
Similarity problems and completely bounded maps
Pisier, Gilles
2001-01-01
These notes revolve around three similarity problems, appearing in three different contexts, but all dealing with the space B(H) of all bounded operators on a complex Hilbert space H. The first one deals with group representations, the second one with C* -algebras and the third one with the disc algebra. We describe them in detail in the introduction which follows. This volume is devoted to the background necessary to understand these three problems, to the solutions that are known in some special cases and to numerous related concepts, results, counterexamples or extensions which their investigation has generated. While the three problems seem different, it is possible to place them in a common framework using the key concept of "complete boundedness", which we present in detail. Using this notion, the three problems can all be formulated as asking whether "boundedness" implies "complete boundedness" for linear maps satisfying certain additional algebraic identities. Two chapters have been added on the HALMO...
Tong, Shuilong; Lin, Yibin; Lu, Shuo; Wang, Meitian; Bogdanov, Mikhail; Zheng, Lei
2016-08-26
PgpB belongs to the lipid phosphate phosphatase protein family and is one of three bacterial integral membrane phosphatases catalyzing dephosphorylation of phosphatidylglycerol phosphate (PGP) to generate phosphatidylglycerol. Although the structure of its apo form became recently available, the mechanisms of PgpB substrate binding and catalysis are still unclear. We found that PgpB was inhibited by phosphatidylethanolamine (PE) in a competitive mode in vitro Here we report the crystal structure of the lipid-bound form of PgpB. The structure shows that a PE molecule is stabilized in a membrane-embedded tunnel formed by TM3 and the "PSGH" fingerprint peptide near the catalytic site, providing structural insight into PgpB substrate binding mechanism. Noteworthy, in silico docking of varied lipid phosphates exhibited similar substrate binding modes to that of PE, and the residues in the lipid tunnel appear to be important for PgpB catalysis. The catalytic triad in the active site is essential for dephosphorylating substrates lysophosphatidic acid, phosphatidic acid, or sphingosine-1-phosphate but surprisingly not for the native substrate PGP. Remarkably, residue His-207 alone is sufficient to hydrolyze PGP, indicating a specific catalytic mechanism for PgpB in PG biosynthesis. We also identified two novel sensor residues, Lys-93 and Lys-97, on TM3. Our data show that Lys-97 is essential for the recognition of lyso-form substrates. Modification at the Lys-93 position may alter substrate specificity of lipid phosphate phosphatase proteins in prokaryotes versus eukaryotes. These studies reveal new mechanisms of lipid substrate selection and catalysis by PgpB and suggest that the enzyme rests in a PE-stabilized state in the bilayer. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.
Tong, Shuilong; Lin, Yibin; Lu, Shuo; Wang, Meitian; Bogdanov, Mikhail; Zheng, Lei
2016-01-01
PgpB belongs to the lipid phosphate phosphatase protein family and is one of three bacterial integral membrane phosphatases catalyzing dephosphorylation of phosphatidylglycerol phosphate (PGP) to generate phosphatidylglycerol. Although the structure of its apo form became recently available, the mechanisms of PgpB substrate binding and catalysis are still unclear. We found that PgpB was inhibited by phosphatidylethanolamine (PE) in a competitive mode in vitro. Here we report the crystal structure of the lipid-bound form of PgpB. The structure shows that a PE molecule is stabilized in a membrane-embedded tunnel formed by TM3 and the “PSGH” fingerprint peptide near the catalytic site, providing structural insight into PgpB substrate binding mechanism. Noteworthy, in silico docking of varied lipid phosphates exhibited similar substrate binding modes to that of PE, and the residues in the lipid tunnel appear to be important for PgpB catalysis. The catalytic triad in the active site is essential for dephosphorylating substrates lysophosphatidic acid, phosphatidic acid, or sphingosine-1-phosphate but surprisingly not for the native substrate PGP. Remarkably, residue His-207 alone is sufficient to hydrolyze PGP, indicating a specific catalytic mechanism for PgpB in PG biosynthesis. We also identified two novel sensor residues, Lys-93 and Lys-97, on TM3. Our data show that Lys-97 is essential for the recognition of lyso-form substrates. Modification at the Lys-93 position may alter substrate specificity of lipid phosphate phosphatase proteins in prokaryotes versus eukaryotes. These studies reveal new mechanisms of lipid substrate selection and catalysis by PgpB and suggest that the enzyme rests in a PE-stabilized state in the bilayer. PMID:27405756
Molecular basis of P450 OleTJE: an investigation of substrate binding mechanism and major pathways
Du, Juan; Liu, Lin; Guo, Li Zhong; Yao, Xiao Jun; Yang, Jian Ming
2017-05-01
Cytochrome P450 OleTJE has attracted much attention for its ability to catalyze the decarboxylation of long chain fatty acids to generate alkenes, which are not only biofuel molecule, but also can be used broadly for making lubricants, polymers and detergents. In this study, the molecular basis of the binding mechanism of P450 OleTJE for arachidic acid, myristic acid, and caprylic acid was investigated by utilizing conventional molecular dynamics simulation and binding free energy calculations. Moreover, random acceleration molecular dynamics (RAMD) simulations were performed to uncover the most probable access/egress channels for different fatty acids. The predicted binding free energy shows an order of arachidic acid acid acid. Key residues interacting with three substrates and residues specifically binding to one of them were identified. The RAMD results suggest the most likely channel for arachidic acid, myristic acid, and caprylic acid are 2e/2b, 2a and 2f/2a, respectively. It is suggested that the reaction is easier to carry out in myristic acid bound system than those in arachidic acid and caprylic acid bound system based on the distance of Hβ atom of substrate relative to P450 OleTJE Compound I states. This study provided novel insight to understand the substrate preference mechanism of P450 OleTJE and valuable information for rational enzyme design for short chain fatty acid decarboxylation.
An Exponential Bound for Cox Regression☆
Kosorok, M. R.
2012-01-01
We present an asymptotic exponential bound for the deviation of the survival function estimator of the Cox model. We show that the bound holds even when the proportional hazards assumption does not hold. PMID:23565013
An Exponential Bound for Cox Regression.
Goldberg, Y; Kosorok, M R
2012-07-01
We present an asymptotic exponential bound for the deviation of the survival function estimator of the Cox model. We show that the bound holds even when the proportional hazards assumption does not hold.
New bounds for multi-dimensional packing
Seiden, S.; Stee, van, Rob
2001-01-01
New upper and lower bounds are presented for a multi-dimensional generalization of bin packing called box packing. Several variants of this problem, including bounded space box packing, square packing, variable sized box packing and resource augmented box packing are also studied. The main results, stated for d=2, are as follows: A new upper bound of 2.66013 for online box packing, a new $14/9 + varepsilon$ polynomial time offline approximation algorithm for square packing, a new upper bound ...
The Acquisition of Bound and Free Anaphora.
Koster, Jan; Koster, Charlotte
Most linguists assume that bound anaphors such as "himself" are connected with their antecedents in a different way from free anaphors such as "him." Bound anaphora resolution is deterministic, based on Principle A of Chomsky's binding theory. Free anaphors, pronominals, cannot be bound in the domain of reflexives (principle…
Bounded rationality and heterogeneous expectations in macroeconomics
D. Massaro
2012-01-01
This thesis studies the effect of individual bounded rationality on aggregate macroeconomic dynamics. Boundedly rational agents are specified as using simple heuristics in their decision making. An important aspect of the type of bounded rationality described in this thesis is that the population of
Bound entangled states invariant under Ux
Institute of Scientific and Technical Information of China (English)
Wang Zhen; Wang Zhi-Xi
2008-01-01
This paper obtains an entangled condition for isotropic-like states by using an atomic map. It constructs a class of bound entangled states from the entangled condition and shows that the partial transposition of the state from the constructed bound entangled class is an edge bound entangled state by using range criterion.
Tight adversary bounds for composite functions
Hoyer, P.; Spalek, R.
2005-01-01
The quantum adversary method is a very versatile method for proving lower bounds on quantum algorithms. It has many equivalent formulations, yields tight bounds for many computational problems, and has natural connections to classical lower bounds. One of its formulations is in terms of the spectral
Determining Normal-Distribution Tolerance Bounds Graphically
Mezzacappa, M. A.
1983-01-01
Graphical method requires calculations and table lookup. Distribution established from only three points: mean upper and lower confidence bounds and lower confidence bound of standard deviation. Method requires only few calculations with simple equations. Graphical procedure establishes best-fit line for measured data and bounds for selected confidence level and any distribution percentile.
Computing the bounds on the loss rates
Fourneau J.-M.; Mokdad L.; Pekergin N.
2002-01-01
We consider an example network where we compute the bounds on cell loss rates. The stochastic bounds for these loss rates using simple arguments lead to models easier to solve. We proved, using stochastic orders, that the loss rates of these easier models are really the bounds of our original model. For ill-balanced configurations these models give good estimates of loss rates.
Labeling schemes for bounded degree graphs
DEFF Research Database (Denmark)
Adjiashvili, David; Rotbart, Noy Galil
2014-01-01
graphs. Our results complement a similar bound recently obtained for bounded depth trees [Fraigniaud and Korman, SODA 2010], and may provide new insights for closing the long standing gap for adjacency in trees [Alstrup and Rauhe, FOCS 2002]. We also provide improved labeling schemes for bounded degree...
Lightweight Distance bound Protocol for Low Cost RFID Tags
Ahmed, Eslam Gamal; Hashem, Mohamed
2010-01-01
Almost all existing RFID authentication schemes (tag/reader) are vulnerable to relay attacks, because of their inability to estimate the distance to the tag. These attacks are very serious since it can be mounted without the notice of neither the reader nor the tag and cannot be prevented by cryptographic protocols that operate at the application layer. Distance bounding protocols represent a promising way to thwart relay attacks, by measuring the round trip time of short authenticated messages. All the existing distance bounding protocols use random number generator and hash functions at the tag side which make them inapplicable at low cost RFID tags. This paper proposes a lightweight distance bound protocol for low cost RFID tags. The proposed protocol based on modified version of Gossamer mutual authentication protocol. The implementation of the proposed protocol meets the limited abilities of low-cost RFID tags.
Soft bounds on diffusion produce skewed distributions and Gompertz growth
Mandrà, Salvatore; Lagomarsino, Marco Cosentino; Gherardi, Marco
2014-09-01
Constraints can affect dramatically the behavior of diffusion processes. Recently, we analyzed a natural and a technological system and reported that they perform diffusion-like discrete steps displaying a peculiar constraint, whereby the increments of the diffusing variable are subject to configuration-dependent bounds. This work explores theoretically some of the revealing landmarks of such phenomenology, termed "soft bound." At long times, the system reaches a steady state irreversibly (i.e., violating detailed balance), characterized by a skewed "shoulder" in the density distribution, and by a net local probability flux, which has entropic origin. The largest point in the support of the distribution follows a saturating dynamics, expressed by the Gompertz law, in line with empirical observations. Finally, we propose a generic allometric scaling for the origin of soft bounds. These findings shed light on the impact on a system of such "scaling" constraint and on its possible generating mechanisms.
The Bethe ansatz for AdS5 × S5 bound states
de Leeuw, M.
2009-01-01
We reformulate the nested coordinate Bethe ansatz in terms of coproducts of Yangian symmetry generators. This allows us to derive the nested Bethe equations for arbitrary bound state string S-matrices. The bound state number dependence in the Bethe equations appears through the parameters x± and the
Asymmetric dark matter bound state
Bi, Xiao-Jun; Kang, Zhaofeng; Ko, P.; Li, Jinmian; Li, Tianjun
2017-02-01
We propose an interesting framework for asymmetric scalar dark matter (ADM), which has novel collider phenomenology in terms of an unstable ADM bound state (ADMonium) produced via Higgs portals. ADMonium is a natural consequence of the basic features of ADM: the (complex scalar) ADM is charged under a dark local U (1 )d symmetry which is broken at a low scale and provides a light gauge boson X . The dark gauge coupling is strong and then ADM can annihilate away into X -pair effectively. Therefore, the ADM can form a bound state due to its large self-interaction via X mediation. To explore the collider signature of ADMonium, we propose that ADM has a two-Higgs doublet portal. The ADMonium can have a sizable mixing with the heavier Higgs boson, which admits a large cross section of ADMonium production associated with b b ¯. The resulting signature at the LHC depends on the decays of X . In this paper we consider a case of particular interest: p p →b b ¯ +ADMonium followed by ADMonium→2 X →2 e+e- where the electrons are identified as (un)converted photons. It may provide a competitive explanation to heavy di-photon resonance searches at the LHC.
Endurance bounds of aerial systems
Harrington, Aaron M.; Kroninger, Christopher M.
2014-06-01
Within the past few years micro aerial vehicles (MAVs) have received much more attention and are starting to proliferate into military as well as civilian roles. However, one of the major drawbacks for this technology currently, has been their poor endurance, usually below 10 minutes. This is a direct result of the inefficiencies inherent in their design. Often times, designers do not consider the various components in the vehicle design and match their performance to the desired mission for the vehicle. These vehicles lack a prescribed set of design guidelines or empirically derived design equations which often limits their design to selection of commercial off-the-shelf components without proper consideration of their affect on vehicle performance. In the current study, the design space for different vehicle configurations has been examined including insect flapping, avian flapping, rotary wing, and fixed wing, and their performance bounds are established. The propulsion system typical of a rotary wing vehicle is analyzed to establish current baselines for efficiency of vehicles at this scale. The power draw from communications is analyzed to determine its impact on vehicle performance. Finally, a representative fixed wing MAV is examined and the effects of adaptive structures as a means for increasing vehicle endurance and range are examined. This paper seeks to establish the performance bounds for micro air vehicles and establish a path forward for future designs so that efficiency may be maximized.
Tang, J Y; Riley, W.J.
2013-01-01
We demonstrate that substrate uptake kinetics in any consumer–substrate network subject to the total quasi-steady-state assumption can be formulated as an equilibrium chemistry (EC) problem. If the consumer-substrate complexes equilibrate much faster than other metabolic processes, then the relationships between consumers, substrates, and consumer-substrate complexes are in quasi-equilibrium and the change of a given total substrate (free plus consumer-bounded) is determined...
Tang, J Y; Riley, W.J.
2013-01-01
We demonstrate that substrate uptake kinetics in any consumer-substrate network subject to the total quasi-steady-state assumption can be formulated as an equilibrium chemistry (EC) problem. If the consumer-substrate complexes equilibrate much faster than other metabolic processes, then the relationships between consumers, substrates, and consumer-substrate complexes are in quasi-equilibrium and the change of a given total substrate (free plus consumer-bounded) is determined by the deg...
The neural basis of bounded rational behavior
Directory of Open Access Journals (Sweden)
Coricelli, Giorgio
2012-03-01
Full Text Available Bounded rational behaviour is commonly observed in experimental games and in real life situations. Neuroeconomics can help to understand the mental processing underlying bounded rationality and out-of-equilibrium behaviour. Here we report results from recent studies on the neural basis of limited steps of reasoning in a competitive setting —the beauty contest game. We use functional magnetic resonance imaging (fMRI to study the neural correlates of human mental processes in strategic games. We apply a cognitive hierarchy model to classify subject’s choices in the experimental game according to the degree of strategic reasoning so that we can identify the neural substrates of different levels of strategizing. We found a correlation between levels of strategic reasoning and activity in a neural network related to mentalizing, i.e. the ability to think about other’s thoughts and mental states. Moreover, brain data showed how complex cognitive processes subserve the higher level of reasoning about others. We describe how a cognitive hierarchy model fits both behavioural and brain data.
La racionalidad limitada es un fenómeno observado de manera frecuente tanto en juegos experimentales como en situaciones cotidianas. La Neuroeconomía puede mejorar la comprensión de los procesos mentales que caracterizan la racionalidad limitada; en paralelo nos puede ayudar a comprender comportamientos que violan el equilibrio. Nuestro trabajo presenta resultados recientes sobre la bases neuronales del razonamiento estratégico (y sus límite en juegos competitivos —como el juego del “beauty contest”. Estudiamos las bases neuronales del comportamiento estratégico en juegos con interacción entre sujetos usando resonancia magnética funcional (fMRI. Las decisiones de los participantes se clasifican acorde al grado de razonamiento estratégico: el llamado modelo de Jerarquías Cognitivas. Los resultados muestran una correlación entre niveles de
Decoherence in time evolution of bound entanglement
Sun, Z; Sun, C P; Wang, X; Sun, Zhe; Wang, Xiaoguang
2007-01-01
We study a dynamic process of disentanglement by considering the time evolution of bound entanglement for a quantum open system, two qutrits coupling to a common environment. Here, the initial quantum correlations of the two qutrits are characterized by the bound entanglement. In order to show the universality of the role of environment on bound entanglement, both bosonic and spin environments are considered. We found that the bound entanglement displays collapses and revivals, and it can be stable against small temperature and time change. The thermal fluctuation effects on bound entanglement are also considered.
Functions of Bounded κφ-Variation in the Sense of Riesz-Korenblum
Mariela Castillo; Sergio Rivas; María Sanoja; Iván Zea
2013-01-01
We present the space of functions of bounded κφ-variation in the sense of Riesz-Korenblum, denoted by κBVφ[a,b], which is a combination of the notions of bounded φ-variation in the sense of Riesz and bounded κ-variation in the sense of Korenblum. Moreover, we prove that the space generated by this class of functions is a Banach space with a given norm and we prove that the uniformly bounded composition operator satisfies Matkowski's weak condition.
Capacity Bounds for Parallel Optical Wireless Channels
Chaaban, Anas
2016-01-01
A system consisting of parallel optical wireless channels with a total average intensity constraint is studied. Capacity upper and lower bounds for this system are derived. Under perfect channel-state information at the transmitter (CSIT), the bounds have to be optimized with respect to the power allocation over the parallel channels. The optimization of the lower bound is non-convex, however, the KKT conditions can be used to find a list of possible solutions one of which is optimal. The optimal solution can then be found by an exhaustive search algorithm, which is computationally expensive. To overcome this, we propose low-complexity power allocation algorithms which are nearly optimal. The optimized capacity lower bound nearly coincides with the capacity at high SNR. Without CSIT, our capacity bounds lead to upper and lower bounds on the outage probability. The outage probability bounds meet at high SNR. The system with average and peak intensity constraints is also discussed.
Exact entanglement bases and general bound entanglement
Zhong, Z Z
2004-01-01
In this paper, we give the more general bound entangled states associated with the unextendible product bases (UPB), i.e. by using of the exact entanglement bases (EEB) and the complete basis with unextendible product bases (CBUPB), we prove that the arbitrary convex sums of the uniform mixtures (bound entangled states) associated with UPBs are still bound entangled states. Further, we discuss the equivalent transformation group and classification of the CBUPBs, and by using this classification, we prove that in the meaning of indistinguishability, the set of the above all possible bound entangled states can be reduced to the set of all possible mixtures of some fixed basic bound entangled states. At last, we prove that every operating of the partial transposition (PT) map acting upon a density matrix under any bipartite partitioning induces a mapping from the above reduced set of bound entangled states to oneself, which corresponds to a non-identical permutation of the basic bound entangled states.
Thermodynamic law from the entanglement entropy bound
Park, Chanyong
2015-01-01
From black hole thermodynamics, the Bekenstein bound has been proposed as a universal thermal entropy bound. It has been further generalized to an entanglement entropy bound which is valid even in a quantum system. In a quantumly entangled system, the non-negativity of the relative entropy leads to the entanglement entropy bound. When the entanglement entropy bound is saturated, a quantum system satisfies the thermodynamics-like law with an appropriately defined entanglement temperature. We show that the saturation of the entanglement entropy bound accounts for a universal feature of the entanglement temperature proportional to the inverse of the system size. In addition, we also find that a global quench unlike the excitation does not preserve the entanglement entropy bound.
Resignation Syndrome: Catatonia? Culture-Bound?
Sallin, Karl; Lagercrantz, Hugo; Evers, Kathinka; Engström, Ingemar; Hjern, Anders; Petrovic, Predrag
2016-01-01
Resignation syndrome (RS) designates a long-standing disorder predominately affecting psychologically traumatized children and adolescents in the midst of a strenuous and lengthy migration process. Typically a depressive onset is followed by gradual withdrawal progressing via stupor into a state that prompts tube feeding and is characterized by failure to respond even to painful stimuli. The patient is seemingly unconscious. Recovery ensues within months to years and is claimed to be dependent on the restoration of hope to the family. Descriptions of disorders resembling RS can be found in the literature and the condition is unlikely novel. Nevertheless, the magnitude and geographical distribution stand out. Several hundred cases have been reported exclusively in Sweden in the past decade prompting the Swedish National Board of Health and Welfare to recognize RS as a separate diagnostic entity. The currently prevailing stress hypothesis fails to account for the regional distribution and contributes little to treatment. Consequently, a re-evaluation of diagnostics and treatment is required. Psychogenic catatonia is proposed to supply the best fit with the clinical presentation. Treatment response, altered brain metabolism or preserved awareness would support this hypothesis. Epidemiological data suggests culture-bound beliefs and expectations to generate and direct symptom expression and we argue that culture-bound psychogenesis can accommodate the endemic distribution. Last, we review recent models of predictive coding indicating how expectation processes are crucially involved in the placebo and nocebo effect, delusions and conversion disorders. Building on this theoretical framework we propose a neurobiological model of RS in which the impact of overwhelming negative expectations are directly causative of the down-regulation of higher order and lower order behavioral systems in particularly vulnerable individuals. PMID:26858615
Resignation syndrome: Catatonia? Culture-bound?
Directory of Open Access Journals (Sweden)
Karl eSallin
2016-01-01
Full Text Available Resignation syndrome (RS designates a long-standing disorder predominately affecting psychologically traumatised children and adolescents in the midst of a strenuous and lengthy migration process. Typically a depressive onset is followed by gradual withdrawal progressing via stupor into a state that prompts tube feeding and is characterised by failure to respond even to painful stimuli. The patient is seemingly unconscious. Recovery ensues within months to years and is claimed to be dependent on the restoration of hope to the family.Descriptions of disorders resembling RS can be found in the literature and the condition is unlikely novel. Nevertheless, the magnitude and geographical distribution stand out. Several hundred cases have been reported exclusively in Sweden in the past decade prompting the Swedish National Board of Health and Welfare to recognise RS as a separate diagnostic entity. The currently prevailing stress hypothesis fails to account for the regional distribution and contributes little to treatment. Consequently, a re-evaluation of diagnostics and treatment is required. Psychogenic catatonia is proposed to supply the best fit with the clinical presentation. Treatment response, altered brain metabolism or preserved awareness would support this hypothesis.Epidemiological data suggests culture-bound beliefs and expectations to generate and direct symptom expression and we argue that culture-bound psychogenesis can accommodate the endemic distribution.Last, we review recent models of predictive coding indicating how expectation processes are crucially involved in the placebo and nocebo effect, delusions and conversion disorders. Building on this theoretical framework we propose a neurobiological model of RS in which the impact of overwhelming negative expectations are directly causative of the down-regulation of higher order and lower order behavioural systems in particularly vulnerable individuals.
Spectral computations for bounded operators
Ahues, Mario; Limaye, Balmohan
2001-01-01
Exact eigenvalues, eigenvectors, and principal vectors of operators with infinite dimensional ranges can rarely be found. Therefore, one must approximate such operators by finite rank operators, then solve the original eigenvalue problem approximately. Serving as both an outstanding text for graduate students and as a source of current results for research scientists, Spectral Computations for Bounded Operators addresses the issue of solving eigenvalue problems for operators on infinite dimensional spaces. From a review of classical spectral theory through concrete approximation techniques to finite dimensional situations that can be implemented on a computer, this volume illustrates the marriage of pure and applied mathematics. It contains a variety of recent developments, including a new type of approximation that encompasses a variety of approximation methods but is simple to verify in practice. It also suggests a new stopping criterion for the QR Method and outlines advances in both the iterative refineme...
Hsu, Chia Wei; Zhen, Bo; Stone, A. Douglas; Joannopoulos, John D.; Soljačić, Marin
2016-09-01
Bound states in the continuum (BICs) are waves that remain localized even though they coexist with a continuous spectrum of radiating waves that can carry energy away. Their very existence defies conventional wisdom. Although BICs were first proposed in quantum mechanics, they are a general wave phenomenon and have since been identified in electromagnetic waves, acoustic waves in air, water waves and elastic waves in solids. These states have been studied in a wide range of material systems, such as piezoelectric materials, dielectric photonic crystals, optical waveguides and fibres, quantum dots, graphene and topological insulators. In this Review, we describe recent developments in this field with an emphasis on the physical mechanisms that lead to BICs across seemingly very different materials and types of waves. We also discuss experimental realizations, existing applications and directions for future work.
Towards Bounded Infeasible Code Detection
Christ, Jürgen; Schäf, Martin
2012-01-01
A first step towards more reliable software is to execute each statement and each control-flow path in a method once. In this paper, we present a formal method to automatically compute test cases for this purpose based on the idea of a bounded infeasible code detection. The method first unwinds all loops in a program finitely often and then encodes all feasible executions of the loop-free programs in a logical formula. Helper variables are introduced such that a theorem prover can reconstruct the control-flow path of a feasible execution from a satisfying valuation of this formula. Based on this formula, we present one algorithm that computes a feasible path cover and one algorithm that computes a feasible statement cover. We show that the algorithms are complete for loop-free programs and that they can be implemented efficiently. We further provide a sound algorithm to compute procedure summaries which makes the method scalable to larger programs.
The expected variation of random bounded integer sequences of finite length
Rudolfo Angeles; Don Rawlings; Lawrence Sze; Mark Tiefenbruck
2005-01-01
From the enumerative generating function of an abstract adjacency statistic, we deduce the mean and variance of the variation on random permutations, rearrangements, compositions, and bounded integer sequences of finite length.
The expected variation of random bounded integer sequences of finite length
Directory of Open Access Journals (Sweden)
Rudolfo Angeles
2005-09-01
Full Text Available From the enumerative generating function of an abstract adjacency statistic, we deduce the mean and variance of the variation on random permutations, rearrangements, compositions, and bounded integer sequences of finite length.
DEFF Research Database (Denmark)
Kostiučenko, Oksana; Fiutowski, Jacek; Tamulevicius, Tomas
2014-01-01
substrates is presented, which relies on the coverage of gold nanostructures with diamond-like carbon (DLC) thin films of thicknesses 25, 55 and 105 nm. DLC thin films were grown by direct hydrocarbon ion beam deposition. In order to find the optimum balance between optical and mechanical properties...... and breaking. DLC coating with thicknesses between 25 and 105 nm is found to considerably increase the mechanical strength of the substrates while at the same time ensuring conservation of sufficient field enhancements of the gold plasmonic substrates....
Couvineau, Pierre; de Almeida, Hugo; Maigret, Bernard; Llorens-Cortes, Catherine
2017-01-01
Aminopeptidase A (APA) is a membrane-bound zinc metalloprotease cleaving, in the brain, the N-terminal aspartyl residue of angiotensin II to generate angiotensin III, which exerts a tonic stimulatory effect on the control of blood pressure in hypertensive animals. Using a refined APA structure derived from the human APA crystal structure, we docked the specific and selective APA inhibitor, EC33 in the presence of Ca2+. We report the presence in the S1 subsite of Arg-887 (Arg-878 in mouse APA), the guanidinium moiety of which established an interaction with the electronegative sulfonate group of EC33. Mutagenic replacement of Arg-878 with an alanine or a lysine residue decreased the affinity of the recombinant enzymes for the acidic substrate, α-L-glutamyl-β-naphthylamide, with a slight decrease in substrate hydrolysis velocity either with or without Ca2+. In the absence of Ca2+, the mutations modified the substrate specificity of APA for the acidic substrate, the mutated enzymes hydrolyzing more efficiently basic and neutral substrates, although the addition of Ca2+ partially restored the acidic substrate specificity. The analysis of the 3D models of the Arg-878 mutated APAs revealed a change in the volume of the S1 subsite, which may impair the binding and/or the optimal positioning of the substrate in the active site as well as its hydrolysis. These findings demonstrate the key role of Arg-878 together with Ca2 + in APA substrate specificity for N-terminal acidic amino acid residues by ensuring the optimal positioning of acidic substrates during catalysis. PMID:28877217
Yachnin, Brahm J; McEvoy, Michelle B; MacCuish, Roderick J D; Morley, Krista L; Lau, Peter C K; Berghuis, Albert M
2014-12-19
The Baeyer-Villiger monooxygenases (BVMOs) are microbial enzymes that catalyze the synthetically useful Baeyer-Villiger oxidation reaction. The available BVMO crystal structures all lack a substrate or product bound in a position that would determine the substrate specificity and stereospecificity of the enzyme. Here, we report two crystal structures of cyclohexanone monooxygenase (CHMO) with its product, ε-caprolactone, bound: the CHMO(Tight) and CHMO(Loose) structures. The CHMO(Tight) structure represents the enzyme state in which substrate acceptance and stereospecificity is determined, providing a foundation for engineering BVMOs with altered substrate spectra and/or stereospecificity. The CHMO(Loose) structure is the first structure where the product is solvent accessible. This structure represents the enzyme state upon binding and release of the substrate and product. In addition, the role of the invariant Arg329 in chaperoning the substrate/product during the catalytic cycle is highlighted. Overall, these data provide a structural framework for the engineering of BVMOs with altered substrate spectra and/or stereospecificity.
Enhanced photoacoustic detection using photonic crystal substrate
Energy Technology Data Exchange (ETDEWEB)
Zhao, Yunfei; Liu, Kaiyang [Department of Electrical and Computer Engineering, Iowa State University, Ames, Iowa 50011 (United States); McClelland, John [Ames Laboratory-USDOE, Ames, Iowa 50011 (United States); Department of Mechanical Engineering, Iowa State University, Ames, Iowa 50011 (United States); Department of Biochemistry, Biophysics, and Molecular Biology, Iowa State University, Ames, Iowa 50011 (United States); Lu, Meng, E-mail: menglu@iastate.edu [Department of Electrical and Computer Engineering, Iowa State University, Ames, Iowa 50011 (United States); Department of Mechanical Engineering, Iowa State University, Ames, Iowa 50011 (United States)
2014-04-21
This paper demonstrates the enhanced photoacoustic sensing of surface-bound light absorbing molecules and metal nanoparticles using a one-dimensional photonic crystal (PC) substrate. The PC structure functions as an optical resonator at the wavelength where the analyte absorption is strong. The optical resonance of the PC sensor provides an intensified evanescent field with respect to the excitation light source and results in enhanced optical absorption by surface-immobilized samples. For the analysis of a light absorbing dye deposited on the PC surface, the intensity of photoacoustic signal was enhanced by more than 10-fold in comparison to an un-patterned acrylic substrate. The technique was also applied to detect gold nanorods and exhibited more than 40 times stronger photoacoustic signals. The demonstrated approach represents a potential path towards single molecule absorption spectroscopy with greater performance and inexpensive instrumentation.
Structure of Human GIVD Cytosolic Phospholipase A2 Reveals Insights into Substrate Recognition
Energy Technology Data Exchange (ETDEWEB)
Wang, Hui; Klein, Michael G.; Snell, Gyorgy; Lane, Weston; Zou, Hua; Levin, Irena; Li, Ke; Sang, Bi-Ching (Takeda Cali)
2016-07-01
Cytosolic phospholipases A2 (cPLA2s) consist of a family of calcium-sensitive enzymes that function to generate lipid second messengers through hydrolysis of membrane-associated glycerophospholipids. The GIVD cPLA2 (cPLA2δ) is a potential drug target for developing a selective therapeutic agent for the treatment of psoriasis. Here, we present two X-ray structures of human cPLA2δ, capturing an apo state, and in complex with a substrate-like inhibitor. Comparison of the apo and inhibitor-bound structures reveals conformational changes in a flexible cap that allows the substrate to access the relatively buried active site, providing new insight into the mechanism for substrate recognition. The cPLA2δ structure reveals an unexpected second C2 domain that was previously unrecognized from sequence alignments, placing cPLA2δ into the class of membrane-associated proteins that contain a tandem pair of C2 domains. Furthermore, our structures elucidate novel inter-domain interactions and define three potential calcium-binding sites that are likely important for regulation and activation of enzymatic activity. These findings provide novel insights into the molecular mechanisms governing cPLA2's function in signal transduction.
Molecular Determinants of Substrate Specificity in Plant 5-Methylthioadenosine Nucleosidases
Energy Technology Data Exchange (ETDEWEB)
Siu,K.; Lee, J.; Sufrin, J.; Moffatt, B.; McMillan, M.; Cornell, K.; Isom, C.; Howell, L.
2008-01-01
5?-Methylthioadenosine (MTA)/S-adenosylhomocysteine (SAH) nucleosidase (MTAN) is essential for cellular metabolism and development in many bacterial species. While the enzyme is found in plants, plant MTANs appear to select for MTA preferentially, with little or no affinity for SAH. To understand what determines substrate specificity in this enzyme, MTAN homologues from Arabidopsis thaliana (AtMTAN1 and AtMTAN2, which are referred to as AtMTN1 and AtMTN2 in the plant literature) have been characterized kinetically. While both homologues hydrolyze MTA with comparable kinetic parameters, only AtMTAN2 shows activity towards SAH. AtMTAN2 also has higher catalytic activity towards other substrate analogues with longer 5?-substituents. The structures of apo AtMTAN1 and its complexes with the substrate- and transition-state-analogues, 5?-methylthiotubercidin and formycin A, respectively, have been determined at 2.0-1.8 Angstroms resolution. A homology model of AtMTAN2 was generated using the AtMTAN1 structures. Comparison of the AtMTAN1 and AtMTAN2 structures reveals that only three residues in the active site differ between the two enzymes. Our analysis suggests that two of these residues, Leu181/Met168 and Phe148/Leu135 in AtMTAN1/AtMTAN2, likely account for the divergence in specificity of the enzymes. Comparison of the AtMTAN1 and available Escherichia coli MTAN (EcMTAN) structures suggests that a combination of differences in the 5?-alkylthio binding region and reduced conformational flexibility in the AtMTAN1 active site likely contribute to its reduced efficiency in binding substrate analogues with longer 5?-substituents. In addition, in contrast to EcMTAN, the active site of AtMTAN1 remains solvated in its ligand-bound forms. As the apparent pKa of an amino acid depends on its local environment, the putative catalytic acid Asp225 in AtMTAN1 may not be protonated at physiological pH and this suggests the transition state of AtMTAN1, like human MTA phosphorylase and
Functions of Bounded kth p-Variation and Continuity Modulus
Directory of Open Access Journals (Sweden)
Odalis Mejía
2015-01-01
Full Text Available A scale of spaces exists connecting the class of functions of bounded kth p-variation in the sense of Riesz-Merentes with the Sobolev space of functions with p-integrable kth derivative. This scale is generated by the generalized functionals of Merentes type. We prove some limiting relations for these functionals as well as sharp estimates in terms of the fractional modulus of smoothness of order k-1/p.
Relaxing the Bounds on Primordial Magnetic Seed Fields
1999-01-01
We point out that the lower bound on the primordial magnetic field required to seed the galactic dynamo is significantly relaxed in an open universe or in a universe with a positive cosmological constant. It is shown that, for reasonable cosmological parameters, primordial seed fields of strength 10^{-30} Gauss or less at the time of galaxy formation could explain observed galactic magnetic fields. As a consequence, mechanisms of primordial magnetic seed-field generation that have previously ...
Enhanced 3D fluorescence live cell imaging on nanoplasmonic substrate
Energy Technology Data Exchange (ETDEWEB)
Gartia, Manas Ranjan [Department of Nuclear, Plasma and Radiological Engineering, University of Illinois, Urbana, IL 61801 (United States); Hsiao, Austin; Logan Liu, G [Department of Bioengineering, University of Illinois, Urbana, IL 61801 (United States); Sivaguru, Mayandi [Institute for Genomic Biology, University of Illinois, Urbana, IL 61801 (United States); Chen Yi, E-mail: loganliu@illinois.edu [Department of Electrical and Computer Engineering, University of Illinois, Urbana, IL 61801 (United States)
2011-09-07
We have created a randomly distributed nanocone substrate on silicon coated with silver for surface-plasmon-enhanced fluorescence detection and 3D cell imaging. Optical characterization of the nanocone substrate showed it can support several plasmonic modes (in the 300-800 nm wavelength range) that can be coupled to a fluorophore on the surface of the substrate, which gives rise to the enhanced fluorescence. Spectral analysis suggests that a nanocone substrate can create more excitons and shorter lifetime in the model fluorophore Rhodamine 6G (R6G) due to plasmon resonance energy transfer from the nanocone substrate to the nearby fluorophore. We observed three-dimensional fluorescence enhancement on our substrate shown from the confocal fluorescence imaging of chinese hamster ovary (CHO) cells grown on the substrate. The fluorescence intensity from the fluorophores bound on the cell membrane was amplified more than 100-fold as compared to that on a glass substrate. We believe that strong scattering within the nanostructured area coupled with random scattering inside the cell resulted in the observed three-dimensional enhancement in fluorescence with higher photostability on the substrate surface.
Bound anionic states of adenine
Energy Technology Data Exchange (ETDEWEB)
Haranczyk, Maciej; Gutowski, Maciej S; Li, Xiang; Bowen, Kit H
2007-03-20
Anionic states of nucleic acid bases are involved in DNA damage by low-energy electrons and in charge transfer through DNA. Previous gas phase studies of free, unsolvated nucleic acid base parent anions probed only dipole-bound states, which are not present in condensed phase environments, but did not observe valence anionic states, which for purine bases, are thought to be adiabatically unbound. Contrary to this expectation, we have demonstrated that some thus far ignored tautomers of adenine, which result from enamine-imine transformations, support valence anionic states with electron vertical detachment energies as large as 2.2 eV, and at least one of these anionic tautomers is adiabatically bound. Moreover, we predict that the new anionic tautomers should also dominate in solutions and should be characterized by larger values of electron vertical detachment energy than the canonical valence anion. All of the new-found anionic tautomers might be formed in the course of dissociative electron attachment followed by a hydrogen atom attachment to a carbon atom, and they might affect the structure and properties of DNA and RNA exposed to low-energy electrons. The discovery of these valence anionic states of adenine was facilitated by the development of: (i) a new experimental method for preparing parent anions of nucleic acid bases for photoelectron experiments, and (ii) a new combinatorial/ quantum chemical approach for identification of the most stable tautomers of organic molecules. The computational portion of this work was supported by the: (i) Polish State Committee for Scientific Research (KBN) Grants: DS/8000-4-0140-7 (M.G.) and N204 127 31/2963 (M.H.), (ii) European Social Funds (EFS) ZPORR/2.22/II/2.6/ARP/U/2/05 (M.H.), and (iii) US DOE Office of Biological and Environmental Research, Low Dose Radiation Research Program (M.G.). M.H. holds the Foundation for Polish Science (FNP) award for young scientists. The calculations were performed at the Academic
PREFACE: Cell-substrate interactions Cell-substrate interactions
Gardel, Margaret; Schwarz, Ulrich
2010-05-01
cytoskeleton-bound microbeads—the effect of bead-receptor binding dynamics J. Phys.: Condens. Matter 22 194105 [10] Ryzhkov P, Prass M, Gummich M, Kühn J-S, Oettmeier C and Döbereiner H-G 2010 Adhesion patterns in early cell spreading J. Phys.: Condens. Matter 22 194106 [11] Cretel E, Touchard D, Benoliel A M, Bongrand P and Pierres A 2010 Early contacts between T lymphocytes and activating surfaces J. Phys.: Condens. Matter 22 194107 [12] Heil P and Spatz J P 2010 Lateral shear forces applied to cells with single elastic micropillars to influence focal adhesion dynamics J. Phys.: Condens. Matter 22 194108 [13] Kirchenbüchler D, Born S, Kirchgeßner N, Houben S, Hoffmann B and Merkel R 2010 Substrate, focal adhesions, and actin filaments: a mechanical unit with a weak spot for mechanosensitive proteins J. Phys.: Condens. Matter 22 194109 [14] Zemel A, Rehfeldt F, Brown A E X, Discher D E and Safran S A 2010 Cell shape, spreading symmetry, and the polarization of stress-fibers in cells J. Phys.: Condens. Matter 22 194110 [15] Biton Y Y and Safran S A 2010 Theory of the mechanical response of focal adhesions to shear flow J. Phys.: Condens. Matter 22 194111 [16] Sabass B and Schwarz U S 2010 Modeling cytoskeletal flow over adhesion sites: competition between stochastic bond dynamics and intracellular relaxation J. Phys.: Condens. Matter 22 194112 [17] Li Y, Bhimalapuram P and Dinner A R 2010 Model for how retrograde actin flow regulates adhesion traction stresses J. Phys.: Condens. Matter 22 194113 [18] Moshayedi P, da F Costa L, Christ A, Lacour S P, Fawcett J, Guck J and Franze K 2010 Mechanosensitivity of astrocytes on optimized polyacrylamide gels analyzed by quantitative morphometry J. Phys.: Condens. Matter 22 194114 [19] Lee S, Zeiger A, Maloney J M, Kotecki M, Van Vliet K J and Herman I M 2010 Pericyte contraction at the cell-material interface can modulate the microvascular niche J. Phys.: Condens. Matter 22 194115 [20] Buxboim A, Rajagopal K, Brown A E X and
Nonadditivity of Rains' bound for distillable entanglement
Wang, Xin; Duan, Runyao
2017-06-01
Rains' bound is arguably the best known upper bound of the distillable entanglement by operations completely preserving positivity of partial transpose (PPT) and was conjectured to be additive and coincide with the asymptotic relative entropy of entanglement. We disprove both conjectures by explicitly constructing a special class of mixed two-qubit states. We then introduce an additive semidefinite programming lower bound (EM) for the asymptotic Rains' bound, and it immediately becomes a computable lower bound for entanglement cost of bipartite states. Furthermore, EM is also proved to be the best known upper bound of the PPT-assisted deterministic distillable entanglement and gives the asymptotic rates for all pure states and some class of genuinely mixed states.
Process expression of bounded Petri nets
Institute of Scientific and Technical Information of China (English)
吴哲辉
1996-01-01
The concept of process expression of bounded Petri nets is presented.Moreover,an algorithm to find the process expression for a bounded Petri net is given.A process expression of a bounded Petri net is a regular expression whose every alphabet symbol represents a basic subprocess of the net.The regular set expressed by the regular expression is the set of all surjective processes of a bounded Petri net.A surjective process of a bounded Petri net is a process of this net in which every s-cut corresponds to a reachable marking of the net.Therefore,all surjective processes of a bounded Petri net can be obtained as long as its process expression and the basic subprocess represented by the alphabet symbols of the process expression are given.
Thermodynamic law from the entanglement entropy bound
Park, Chanyong
2016-04-01
From black hole thermodynamics, the Bekenstein bound has been proposed as a universal thermal entropy bound. It has been further generalized to an entanglement entropy bound which is valid even in a quantum system. In a quantumly entangled system, the non-negativity of the relative entropy leads to the entanglement entropy bound. When the entanglement entropy bound is saturated, a quantum system satisfies the thermodynamicslike law with an appropriately defined entanglement temperature. We show that the saturation of the entanglement entropy bound accounts for a universal feature of the entanglement temperature proportional to the inverse of the system size. In addition, we show that the deformed modular Hamiltonian under a global quench also satisfies the generalized entanglement entropy boundary after introducing a new quantity called the entanglement chemical potential.
Bounds on double-diffusive convection
Balmforth, Neil J.; Ghadge, Shilpa A.; Kettapun, Atichart; Mandre, Shreyas D.
2006-12-01
We consider double-diffusive convection between two parallel plates and compute bounds on the flux of the unstably stratified species using the background method. The bound on the heat flux for Rayleigh Bénard convection also serves as a bound on the double-diffusive problem (with the thermal Rayleigh number equal to that of the unstably stratified component). In order to incorporate a dependence of the bound on the stably stratified component, an additional constraint must be included, like that used by Joseph (Stability of Fluid Motion, 1976, Springer) to improve the energy stability analysis of this system. Our bound extends Joseph's result beyond his energy stability boundary. At large Rayleigh number, the bound is found to behave like R_T(1/2) for fixed ratio R_S/R_T, where R_T and R_S are the Rayleigh numbers of the unstably and stably stratified components, respectively.
Instanton bound states in ABJM theory
Energy Technology Data Exchange (ETDEWEB)
Hatsuda, Yasuyuki [DESY Hamburg (Germany). Theory Group; Tokyo Institute of Technology (Japan). Dept. of Physics; Moriyama, Sanefumi [Nagoya Univ. (Japan). Kobayashi Maskawa Inst. and Graduate School of Mathematics; Okuyama, Kazumi [Shinshu Univ., Matsumoto, Nagano (Japan). Dept. of Physics
2013-06-15
The partition function of the ABJM theory receives non-perturbative corrections due to instanton effects. We study these non-perturbative corrections, including bound states of worldsheet instantons and membrane instantons, in the Fermi-gas approach. We require that the total non-perturbative correction should be always finite for arbitrary Chern-Simons level. This finiteness is realized quite non-trivially because each bound state contribution naively diverges at some levels. The poles of each contribution should be canceled out in total. We use this pole cancellation mechanism to find unknown bound state corrections from known ones. We conjecture a general expression of the bound state contribution. Summing up all the bound state contributions, we find that the effect of bound states is simply incorporated into the worldsheet instanton correction by a redefinition of the chemical potential in the Fermi-gas system. Analytic expressions of the 3- and 4-membrane instanton corrections are also proposed.
Conditionally bounding analytic ranks of elliptic curves
Bober, Jonathan W
2011-01-01
We describe a method for bounding the rank of an elliptic curve under the assumptions of the Birch and Swinnerton-Dyer conjecture and the generalized Riemann hypothesis. As an example, we compute, under these conjectures, exact upper bounds for curves which are known to have rank at least as large as 20, 21, 22, 23, and 24. For the known curve of rank at least 28, we get a bound of 30.
Computing the bounds on the loss rates
Directory of Open Access Journals (Sweden)
Fourneau J.-M.
2002-01-01
Full Text Available We consider an example network where we compute the bounds on cell loss rates. The stochastic bounds for these loss rates using simple arguments lead to models easier to solve. We proved, using stochastic orders, that the loss rates of these easier models are really the bounds of our original model. For ill-balanced configurations these models give good estimates of loss rates.
Scalable Capacity Bounding Models for Wireless Networks
Du, Jinfeng; Medard, Muriel; Xiao, Ming; Skoglund, Mikael
2014-01-01
The framework of network equivalence theory developed by Koetter et al. introduces a notion of channel emulation to construct noiseless networks as upper (resp. lower) bounding models, which can be used to calculate the outer (resp. inner) bounds for the capacity region of the original noisy network. Based on the network equivalence framework, this paper presents scalable upper and lower bounding models for wireless networks with potentially many nodes. A channel decoupling method is proposed...
Optimum selection of high performance mirror substrates for diamond finishing
Woodard, Kenneth S.; Comstock, Lovell E.; Wamboldt, Leonard; Sutherland, James S.
2016-05-01
Due to advances in manufacturing processes, the substrate options for high performance diamond machined mirrors are expanding. Fewer compromises have to be made to achieve the needed weight, stiffness and finish while maintaining reasonable costs. In addition to the traditional mirror materials like aluminum and beryllium, there are some less common materials that can now be included in the trade space that fill the cost and performance continuum between wrought aluminum and beryllium mirrors. Aluminum and beryllium, respectively, had been the low cost/fair performance and very high cost/very high performance bounds for substrate selection. These additional substrates provide multiple near net shape blank options and processes, mostly within these bounds, that can be considered in a mirror cost versus performance trade analysis. This paper will include a summary of some advances in manufacturing processes that provide more substrate options for diamond machined mirrors with some sample performance analysis and data. This is merged with the traditional substrate options to illustrate the now larger mirror substrate trade space. Some benchmark structural analysis is provided to back up a generic mirror design trade study.
Risk Bounds for Infinitely Divisible Distribution
Zhang, Chao
2012-01-01
In this paper, we study the risk bounds for samples independently drawn from an infinitely divisible (ID) distribution. In particular, based on a martingale method, we develop two deviation inequalities for a sequence of random variables of an ID distribution with zero Gaussian component. By applying the deviation inequalities, we obtain the risk bounds based on the covering number for the ID distribution. Finally, we analyze the asymptotic convergence of the risk bound derived from one of the two deviation inequalities and show that the convergence rate of the bound is faster than the result for the generic i.i.d. empirical process (Mendelson, 2003).
Some Improved Nonperturbative Bounds for Fermionic Expansions
Energy Technology Data Exchange (ETDEWEB)
Lohmann, Martin, E-mail: marlohmann@gmail.com [Universita di Roma Tre, Dipartimento di Matematica (Italy)
2016-06-15
We reconsider the Gram-Hadamard bound as it is used in constructive quantum field theory and many body physics to prove convergence of Fermionic perturbative expansions. Our approach uses a recursion for the amplitudes of the expansion, discovered in a model problem by Djokic (2013). It explains the standard way to bound the expansion from a new point of view, and for some of the amplitudes provides new bounds, which avoid the use of Fourier transform, and are therefore superior to the standard bounds for models like the cold interacting Fermi gas.
Bounds in the location-allocation problem
DEFF Research Database (Denmark)
Juel, Henrik
1981-01-01
Develops a family of stronger lower bounds on the objective function value of the location-allocation problem. Solution methods proposed to solve problems in location-allocation; Efforts to develop a more efficient bound solution procedure; Determination of the locations of the sources.......Develops a family of stronger lower bounds on the objective function value of the location-allocation problem. Solution methods proposed to solve problems in location-allocation; Efforts to develop a more efficient bound solution procedure; Determination of the locations of the sources....
Conductivity bounds in probe brane models
Ikeda, Tatsuhiko N; Nakai, Yuichiro
2016-01-01
We discuss upper and lower bounds on the electrical conductivity of finite temperature strongly coupled quantum field theories, holographically dual to probe brane models, within linear response. In a probe limit where disorder is introduced entirely through an inhomogeneous background charge density, we find simple lower and upper bounds on the electrical conductivity in arbitrary dimensions. In field theories in two spatial dimensions, we show that both bounds persist even when disorder is included in the bulk metric. We discuss the challenges with finding sharp lower bounds on conductivity in three or more spatial dimensions when the metric is inhomogeneous.
A violation of the covariant entropy bound?
Masoumi, Ali
2014-01-01
Several arguments suggest that the entropy density at high energy density $\\rho$ should be given by the expression $s=K\\sqrt{\\rho/G}$, where $K$ is a constant of order unity. On the other hand the covariant entropy bound requires that the entropy on a light sheet be bounded by $A/4G$, where $A$ is the area of the boundary of the sheet. We find that in a suitably chosen cosmological geometry, the above expression for $s$ violates the covariant entropy bound. We consider different possible explanations for this fact; in particular the possibility that entropy bounds should be defined in terms of volumes of regions rather than areas of surfaces.
A Stronger LP Bound for Formula Size Lower Bounds via Clique Constraints
Ueno, Kenya
2009-01-01
We introduce a new technique proving formula size lower bounds based on the linear programming bound originally introduced by Karchmer, Kushilevitz and Nisan [11] and the theory of stable set polytope. We apply it to majority functions and prove their formula size lower bounds improved from the classical result of Khrapchenko [13]. Moreover, we introduce a notion of unbalanced recursive ternary majority functions motivated by a decomposition theory of monotone self-dual functions and give integrally matching upper and lower bounds of their formula size. We also show monotone formula size lower bounds of balanced recursive ternary majority functions improved from the quantum adversary bound of Laplante, Lee and Szegedy [15].
An outer bound for 2-receiver discrete memoryless broadcast channels
Nair, Chandra
2008-01-01
An outer bound to the two-receiver discrete memoryless broadcast channel is presented. We compare it to the known outer bounds and show that the outer bound presented is at least as tight as the existing bounds.
Detailed model of bouncing drops on a bounded, vibrated bath
Blanchette, Francois; Gilet, Tristan
2014-11-01
We present a detailed model of drops bouncing on a bounded vibrated bath. These drops are known to bounce indefinitely and to exhibit complex and varied vertical dynamics depending on the acceleration of the bath. In addition, in a narrow parameter regime, these drops travel horizontally while being guided by the waves they generate. Our model tracks the drop's vertical radius and position, as well as the eigenmodes of the waves generated via ordinary differential equations only. We accurately capture the vertical dynamics, as well as some of the horizontal dynamics. Our model may be extended to account for interactions with other drops or obstacles, such as slits and corrals.
Exotic Hadron Bound State Production at Hadronic Colliders
Jin, Yi; Liu, Yan-Rui; Meng, Lu; Si, Zon-Guo; Zhang, Xiao-Feng
2016-01-01
The non-relativistic wave function framework is applied to study the production and decay of the exotic hadrons which can be effectively described as bound states of other hadrons. The ingredient hadron production can be calculated by event generators. We investigate the production of exotic hadrons in the multiproduction processes at high energy hadronic colliders with the help of the event generators. We illustrate the crucial information such as their momentum distributions and production rate for the measurements at the large hadron collider. This study provides crucial information for the measurements of the relevant exotic hadrons.
Bounding the current in nonlinear conducting composites
Milton, Graeme W.; Serkov, Sergey K.
2000-06-01
Suppose a three-dimensional composite of two nonlinear conducting phases mixed in fixed proportions is subject to a fixed average electric field. What values can the average current take as the microstructure varies over all configurations? What microstructures produce the maximum or minimum current flow? Which microstructures are best for guiding the current in a given direction? Here, following the compensated compactness method of Tartar (1977: Estimation de coefficients homogénéisés. In: Glowinski, R., Lions, J.-L. (Eds.), Computer Methods in Applied Sciences and Engineering, Springer-Verlag Lecture Notes in Mathematics 704. Springer-Verlag, Berlin, pp. 136-212) we show how one can obtain remarkably tight bounds on the average current flow. In many, but not all cases, we find that simple laminate structures produce the maximum or minimum current flow, and are best for guiding the current in a given direction. Sometimes it is advantageous to orient the layer surfaces parallel (rather than orthogonal) to the direction of the applied field to generate the minimum current flow in that direction.
Wang, Ling; Althoff, Eric A; Bolduc, Jill; Jiang, Lin; Moody, James; Lassila, Jonathan K; Giger, Lars; Hilvert, Donald; Stoddard, Barry; Baker, David
2012-01-20
We report the cocrystal structures of a computationally designed and experimentally optimized retro-aldol enzyme with covalently bound substrate analogs. The structure with a covalently bound mechanism-based inhibitor is similar to, but not identical with, the design model, with an RMSD of 1.4 Å over active-site residues and equivalent substrate atoms. As in the design model, the binding pocket orients the substrate through hydrophobic interactions with the naphthyl moiety such that the oxygen atoms analogous to the carbinolamine and β-hydroxyl oxygens are positioned near a network of bound waters. However, there are differences between the design model and the structure: the orientation of the naphthyl group and the conformation of the catalytic lysine are slightly different; the bound water network appears to be more extensive; and the bound substrate analog exhibits more conformational heterogeneity than typical native enzyme-inhibitor complexes. Alanine scanning of the active-site residues shows that both the catalytic lysine and the residues around the binding pocket for the substrate naphthyl group make critical contributions to catalysis. Mutating the set of water-coordinating residues also significantly reduces catalytic activity. The crystal structure of the enzyme with a smaller substrate analog that lacks naphthyl ring shows the catalytic lysine to be more flexible than in the naphthyl-substrate complex; increased preorganization of the active site would likely improve catalysis. The covalently bound complex structures and mutagenesis data highlight the strengths and weaknesses of the de novo enzyme design strategy.
Computational rationality: linking mechanism and behavior through bounded utility maximization.
Lewis, Richard L; Howes, Andrew; Singh, Satinder
2014-04-01
We propose a framework for including information-processing bounds in rational analyses. It is an application of bounded optimality (Russell & Subramanian, 1995) to the challenges of developing theories of mechanism and behavior. The framework is based on the idea that behaviors are generated by cognitive mechanisms that are adapted to the structure of not only the environment but also the mind and brain itself. We call the framework computational rationality to emphasize the incorporation of computational mechanism into the definition of rational action. Theories are specified as optimal program problems, defined by an adaptation environment, a bounded machine, and a utility function. Such theories yield different classes of explanation, depending on the extent to which they emphasize adaptation to bounds, and adaptation to some ecology that differs from the immediate local environment. We illustrate this variation with examples from three domains: visual attention in a linguistic task, manual response ordering, and reasoning. We explore the relation of this framework to existing "levels" approaches to explanation, and to other optimality-based modeling approaches.
Hyperquarks and generation number
Buchmann, Alfons J
2013-01-01
In a model in which quarks and leptons are built up from two spin 1/2 preons as fundamental entities, a new class of fermionic bound states (hyperquarks) arises. It turns out that these hyperquarks are necessary to fulfill the 't Hooft anomaly constraint, which then links the number of fermionic generations to the number of colors and hypercolors.
Optimal online bounded space multidimensional packing
L. Epstein (Lea); R. van Stee (Rob)
2003-01-01
textabstractWe solve an open problem in the literature by providing an online algorithm for multidimensional bin packing that uses only bounded space. We show that it is optimal among bounded space algorithms for any dimension $d>1$. Its asymptotic performance ratio is $(Pi_{infty})^d$, where
New bounds for multi-dimensional packing
S. Seiden; R. van Stee (Rob)
2001-01-01
textabstractNew upper and lower bounds are presented for a multi-dimensional generalization of bin packing called box packing. Several variants of this problem, including bounded space box packing, square packing, variable sized box packing and resource augmented box packing are also studied. The
Lower Bounds of Concurrence for Multipartite States
Zhu, Xue-Na; Fei, Shao-Ming
2012-01-01
We study the entanglement of multipartite quantum states. Some lower bounds of the multipartite concurrence are reviewed. We further present more effective lower bounds for detecting and qualifying entanglement, by establishing functional relations between the concurrence and the generalized partial transpositions of the multipartite systems.
A Note on Geodesically Bounded -Trees
Directory of Open Access Journals (Sweden)
Kirk WA
2010-01-01
Full Text Available It is proved that a complete geodesically bounded -tree is the closed convex hull of the set of its extreme points. It is also noted that if is a closed convex geodesically bounded subset of a complete -tree and if a nonexpansive mapping satisfies then has a fixed point. The latter result fails if is only continuous.
New bounds for multi-dimensional packing
Seiden, S.; Stee, R. van
2001-01-01
New upper and lower bounds are presented for a multi-dimensional generalization of bin packing called box packing. Several variants of this problem, including bounded space box packing, square packing, variable sized box packing and resource augmented box packing are also studied. The main results,
Threshold Circuit Lower Bounds on Cryptographic Functions
Kiltz, E.; Simon, H.U.
2005-01-01
In this work, we are interested in non-trivial upper bounds on the spectral norm of binary matrices $M$ from {-1, 1} $^{N × N}$. It is known that the distributed Boolean function represented by $M$ is hard to compute in various restricted models of computation if the spectral norm is bounded from ab
Experimental evidence of bounds of quantum correlations
Bovino, F A; Castelletto, S; Degiovanni, I P; Rastello, M L; Berchera, I R
2003-01-01
We implemented the experiment proposed by Cabello [arXiv:quant-ph/0309172] to test the bounds of quantum correlation. As expected from the theory we found that, for certain choices of local observables, Cirel'son's bound of the Clauser-Horne-Shimony-Holt inequality ($2\\sqrt{2}$) is not reached by any quantum states.
Spatial coagulation with bounded coagulation rate
Bailleul, Ismael
2010-01-01
We prove that the spatial coagulation equation with bounded coagulation rate is well-posed for all times in a given class of kernels if the convection term of the underlying particle dynamics has divergence bounded below by a positive constant. Multiple coagulations, fragmentation and scattering are also considered.
Generalized upper bound for inelastic diffraction
Troshin, S. M.; Tyurin, N. E.
2017-01-01
For inelastic diffraction, we obtain an upper bound valid for the whole range of the elastic scattering amplitude variation allowed by unitarity. We discuss the energy dependence of the inelastic diffractive cross-section on the base of this bound and recent Large Hadron Collider (LHC) data.
A generalized upper bound for inelastic diffraction
Troshin, S M
2016-01-01
For the inelastic diffraction, we obtain an upper bound valid in the whole range of the elastic scattering amplitude variation allowed by unitarity. We discuss the energy dependence of the inelastic diffractive cross-section on the base of this bound and recent LHC data.
On the range of completely bounded maps
Directory of Open Access Journals (Sweden)
Richard I. Loebl
1978-01-01
Full Text Available It is shown that if every bounded linear map from a C*-algebra α to a von Neumann algebra β is completely bounded, then either α is finite-dimensional or β⫅⊗Mn, where is a commutative von Neumann algebra and Mn is the algebra of n×n complex matrices.
Bounds in the location-allocation problem
DEFF Research Database (Denmark)
Juel, Henrik
1981-01-01
Develops a family of stronger lower bounds on the objective function value of the location-allocation problem. Solution methods proposed to solve problems in location-allocation; Efforts to develop a more efficient bound solution procedure; Determination of the locations of the sources....
Automatic analysis of distance bounding protocols
Malladi, Sreekanth; Kothapalli, Kishore
2010-01-01
Distance bounding protocols are used by nodes in wireless networks to calculate upper bounds on their distances to other nodes. However, dishonest nodes in the network can turn the calculations both illegitimate and inaccurate when they participate in protocol executions. It is important to analyze protocols for the possibility of such violations. Past efforts to analyze distance bounding protocols have only been manual. However, automated approaches are important since they are quite likely to find flaws that manual approaches cannot, as witnessed in literature for analysis pertaining to key establishment protocols. In this paper, we use the constraint solver tool to automatically analyze distance bounding protocols. We first formulate a new trace property called Secure Distance Bounding (SDB) that protocol executions must satisfy. We then classify the scenarios in which these protocols can operate considering the (dis)honesty of nodes and location of the attacker in the network. Finally, we extend the const...
Structural Bounds on the Dyadic Effect
Cinelli, Matteo; Iovanella, Antonio
2016-01-01
In this paper we consider the dyadic effect introduced in complex networks when nodes are distinguished by a binary characteristic. Under these circumstances two independent parameters, namely dyadicity and heterophilicity, are able to measure how much the assigned characteristic affects the network topology. All possible configurations can be represented in a phase diagram lying in a two-dimensional space that represents the feasible region of the dyadic effect, which is bound by two upper bounds on dyadicity and heterophilicity. Using some network's structural arguments, we are able to improve such upper bounds and introduce two new lower bounds, providing a reduction of the feasible region of the dyadic effect as well as constraining dyadicity and heterophilicity within a specific range. Some computational experiences show the bounds' effectiveness and their usefulness with regards to different classes of networks.
Direct Printing of Graphene onto Plastic Substrates.
Hines, Daniel; Lock, Evgeniya; Walton, Scott; Baraket, Mira; Laskoski, Matthew; Mulvaney, Shawn; Sheehan, Paul; Lee, Woo; Robinson, Jeremy
2011-03-01
Graphene films have been synthesized on metal foils using CVD growth and have the potential to be compatible with roll-to-roll printing. To be usable in electronic devices, these films need to be removed from the metallic substrate. Currently this is accomplished by spin coating a polymer film over the graphene and chemically etching away the metal substrate. We have developed a direct printing method that allows graphene films to be printed off the metal substrate onto a polymer substrate. This printing process does not generate chemical waste, is compatible with roll-to-toll processing and renders the metal foil reusable. Adhesion of the graphene film to the polymer substrate is established by attaching perfluorophenylazides (PFPA) azide linker molecules to a plasma activated polymer surface. The transfer printing was performed by placing the PFPA treated polymer surface in contact with a graphene covered Cu foil and heating under pressure. Graphene films successfully printed onto a polystyrene substrate have been characterized by Raman spectroscopy and electrical measurements revealed the presence of Gr on the polymer surface. Details of the printing process along with characteristics of the graphene film after printing will be presented.
Multiple alternative substrate kinetics.
Anderson, Vernon E
2015-11-01
The specificity of enzymes for their respective substrates has been a focal point of enzyme kinetics since the initial characterization of metabolic chemistry. Various processes to quantify an enzyme's specificity using kinetics have been utilized over the decades. Fersht's definition of the ratio kcat/Km for two different substrates as the "specificity constant" (ref [7]), based on the premise that the important specificity existed when the substrates were competing in the same reaction, has become a consensus standard for enzymes obeying Michaelis-Menten kinetics. The expansion of the theory for the determination of the relative specificity constants for a very large number of competing substrates, e.g. those present in a combinatorial library, in a single reaction mixture has been developed in this contribution. The ratio of kcat/Km for isotopologs has also become a standard in mechanistic enzymology where kinetic isotope effects have been measured by the development of internal competition experiments with extreme precision. This contribution extends the theory of kinetic isotope effects to internal competition between three isotopologs present at non-tracer concentrations in the same reaction mix. This article is part of a special issue titled: Enzyme Transition States from Theory and Experiment.
Substrate mediated enzyme prodrug therapy.
Directory of Open Access Journals (Sweden)
Betina Fejerskov
Full Text Available In this report, we detail Substrate Mediated Enzyme Prodrug Therapy (SMEPT as a novel approach in drug delivery which relies on enzyme-functionalized cell culture substrates to achieve a localized conversion of benign prodrug(s into active therapeutics with subsequent delivery to adhering cells or adjacent tissues. For proof-of-concept SMEPT, we use surface adhered micro-structured physical hydrogels based on poly(vinyl alcohol, β-glucuronidase enzyme and glucuronide prodrugs. We demonstrate enzymatic activity mediated by the assembled hydrogel samples and illustrate arms of control over rate of release of model fluorescent cargo. SMEPT was not impaired by adhering cells and afforded facile time - and dose - dependent uptake of the in situ generated fluorescent cargo by hepatic cells, HepG2. With the use of a glucuronide derivative of an anticancer drug, SN-38, SMEPT afforded a decrease in cell viability to a level similar to that achieved using parent drug. Finally, dose response was achieved using SMEPT and administration of judiciously chosen concentration of SN-38 glucuronide prodrug thus revealing external control over drug delivery using drug eluting surface. We believe that this highly adaptable concept will find use in diverse biomedical applications, specifically surface mediated drug delivery and tissue engineering.
Function estimation by feedforward sigmoidal networks with bounded weights
Energy Technology Data Exchange (ETDEWEB)
Rao, N.S.V.; Protopoescu, V. [Oak Ridge National Lab., TN (United States). Center for Engineering Systems Advanced Research; Qiao, H. [Fort Valley State Coll., GA (United States). Dept. of Mathematics and Physics
1996-05-01
The authors address the problem of PAC (probably and approximately correct) learning functions f : [0, 1]{sup d} {r_arrow} [{minus}K, K] based on iid (independently and identically distributed) sample generated according to an unknown distribution, by using feedforward sigmoidal networks. They use two basic properties of the neural networks with bounded weights, namely: (a) they form a Euclidean class, and (b) for hidden units of the form tanh ({gamma}z) they are Lipschitz functions. Either property yields sample sizes for PAC function learning under any Lipschitz cost function. The sample size based on the first property is tighter compared to the known bounds based on VC-dimension. The second estimate yields a sample size that can be conveniently adjusted by a single parameter, {gamma}, related to the hidden nodes.
Self-adjoint integral operator for bounded nonlocal transport
Maggs, J. E.; Morales, G. J.
2016-11-01
An integral operator is developed to describe nonlocal transport in a one-dimensional system bounded on both ends by material walls. The "jump" distributions associated with nonlocal transport are taken to be Lévy α -stable distributions, which become naturally truncated by the bounding walls. The truncation process results in the operator containing a self-consistent, convective inward transport term (pinch). The properties of the integral operator as functions of the Lévy distribution parameter set [α ,γ ] and the wall conductivity are presented. The integral operator continuously recovers the features of local transport when α =2 . The self-adjoint formulation allows for an accurate description of spatial variation in the Lévy parameters in the nonlocal system. Spatial variation in the Lévy parameters is shown to result in internally generated flows. Examples of cold-pulse propagation in nonlocal systems illustrate the capabilities of the methodology.
A Note on Lower Bounds for Colourful Simplicial Depth
Directory of Open Access Journals (Sweden)
Antoine Deza
2013-01-01
Full Text Available The colourful simplicial depth problem in dimension d is to find a configuration of (d+1 sets of (d+1 points such that the origin is contained in the convex hull of each set, or colour, but contained in a minimal number of colourful simplices generated by taking one point from each set. A construction attaining d2 + 1 simplices is known, and is conjectured to be minimal. This has been confirmed up to d = 3, however the best known lower bound for d ≥ 4 is ⌈(d+12 /2 ⌉. In this note, we use a branching strategy to improve the lower bound in dimension 4 from 13 to 14.
Understanding the nucleon as a Borromean bound-state
Directory of Open Access Journals (Sweden)
Jorge Segovia
2015-11-01
Full Text Available Analyses of the three valence-quark bound-state problem in relativistic quantum field theory predict that the nucleon may be understood primarily as a Borromean bound-state, in which binding arises mainly from two separate effects. One originates in non-Abelian facets of QCD that are expressed in the strong running coupling and generate confined but strongly-correlated colour-antitriplet diquark clusters in both the scalar–isoscalar and pseudovector–isotriplet channels. That attraction is magnified by quark exchange associated with diquark breakup and reformation. Diquark clustering is driven by the same mechanism which dynamically breaks chiral symmetry in the Standard Model. It has numerous observable consequences, the complete elucidation of which requires a framework that also simultaneously expresses the running of the coupling and masses in the strong interaction. Planned experiments are capable of validating this picture.
Elreedy, Ahmed; Fujii, Manabu; Tawfik, Ahmed
2017-01-01
This study aims to assess the effect of inoculum-to-substrate ratio (ISR) and nitrogen-to-phosphorus balance on hythane production from thermophilic anaerobic decomposition of mono-ethylene glycol (MEG) contaminated wastewater. ISRs ranging from 2.65 to 13.23gVSS/gCOD were employed, whereas the tested N/P ratios varied from 4.6 to 8.5. Maximum methane and hydrogen yields (MY and HY) of 151.86±10.8 and 22.27±1.1mL/gCODinitial were achieved at ISRs of 5.29 and 3.78gVSS/gCOD, respectively. HY increased 1.45-fold by decreasing N/P from 8.5 to 4.6, while MY improved 1.6-fold by increasing N/P from 4.6 to 5.5. Methane production was strongly influenced by initial NH4-N, compared to initial PO4-P. Optimal HY of 47.55mL/gCODinitial was achieved at pH 5.0 and ISR of 3.78gVSS/gCOD using thermal-treated sludge. Three-dimensional regression model was applied for the combined effect of initial MEG, NH4-N and PO4-P on hythane production. Potential economic benefits of hythane production from MEG contaminated wastewater were assessed. Copyright © 2016 Elsevier Ltd. All rights reserved.
The lower bound on complexity of parallel branch-and-bound algorithm for subset sum problem
Kolpakov, Roman; Posypkin, Mikhail
2016-10-01
The subset sum problem is a particular case of the Boolean knapsack problem where each item has the price equal to its weight. This problem can be informally stated as searching for most dense packing of a set of items into a box with limited capacity. Recently, coarse-grain parallelization approaches to Branch-and-Bound (B&B) method attracted some attention due to the growing popularity of weakly-connected distributed computing platforms. In this paper we consider one of such approaches for solving the subset sum problem. One of the processors (manager) performs some number of B&B steps on the first stage with generating some subproblems. On the second stage, the generated subproblems are sent to other processors, one subproblem per processor. The processors solve completely the received subproblems, the manager collects all the obtained solutions and chooses the optimal one. For this algorithm we formally define the parallel execution model (frontal scheme of parallelization) and the notion of the frontal scheme complexity. We study the frontal scheme complexity for a series of subset sum problems.
On an Outer bound and an Inner Bound for the General Broadcast Channel
Gohari, Amin Aminzadeh; Anantharam, Venkat
2010-01-01
In this paper, we study the Nair-El Gamal outer bound and Marton's inner bound for general two-receiver broadcast channels. We show that the Nair-El Gamal outer bound can be made fully computable. For the inner bound, we show that, unlike in the Gaussian case, for a degraded broadcast channel even without a common message, Marton's coding scheme without a superposition variable is in general insufficient for obtaining the capacity region. Further, we prove various results that help to restrict the search space for computing the sum-rate for Marton's inner bound. We establish the capacity region along certain directions and show that it coincides with Marton's inner bound. Lastly, we discuss an idea that may lead to a larger inner bound.
Positivity bounds on double parton distributions
Energy Technology Data Exchange (ETDEWEB)
Diehl, Markus; Kasemets, Tomas
2013-03-15
Double hard scattering in proton-proton collisions is described in terms of double parton distributions. We derive bounds on these distributions that follow from their interpretation as probability densities, taking into account all possible spin correlations between two partons in an unpolarized proton. These bounds constrain the size of the polarized distributions and can for instance be used to set upper limits on the effects of spin correlations in double hard scattering. We show that the bounds are stable under leading-order DGLAP evolution to higher scales.
Bounds for convection between rough boundaries
Goluskin, David
2016-01-01
We consider Rayleigh-B\\'enard convection in a layer of fluid between no-slip rough boundaries, where the top and bottom boundary heights are functions of the horizontal coordinates with bounded gradients. We use the background method to derive an upper bound on mean heat flux across the layer for all admissible boundary geometries. This flux, normalized by the temperature difference between the boundaries, can grow with the Rayleigh number ($Ra$) no faster than $Ra^{1/2}$ as $Ra \\rightarrow \\infty$. Coefficients of the bound are given explicitly in terms of the geometry, and evaluation of the coefficients is illustrated for sinusoidal boundaries.
On the reflection of magnon bound states
MacKay, Niall
2010-01-01
We investigate the reflection of two-particle bound states of a free open string in the light-cone AdS_5 x S^5 string sigma model, for large angular momentum J=J_56 and ending on a D7 brane which wraps the entire AdS_5 and a maximal S^3 of S^5. We use the superspace formalism to analyse fundamental and two-particle bound states in the cases of supersymmetry-preserving and broken-supersymmetry boundaries. We find the boundary S-matrices corresponding to bound states both in the bulk and on the boundary.
Bounds on List Decoding Gabidulin Codes
Wachter-Zeh, Antonia
2012-01-01
An open question about Gabidulin codes is whether polynomial-time list decoding beyond half the minimum distance is possible or not. In this contribution, we give a lower and an upper bound on the list size, i.e., the number of codewords in a ball around the received word. The lower bound shows that if the radius of this ball is greater than the Johnson radius, this list size can be exponential and hence, no polynomial-time list decoding is possible. The upper bound on the list size uses subspace properties.
Lightweight Distance Bounding Protocol against Relay Attacks
Kim, Jin Seok; Cho, Kookrae; Yum, Dae Hyun; Hong, Sung Je; Lee, Pil Joong
Traditional authentication protocols are based on cryptographic techniques to achieve identity verification. Distance bounding protocols are an enhanced type of authentication protocol built upon both signal traversal time measurement and cryptographic techniques to accomplish distance verification as well as identity verification. A distance bounding protocol is usually designed to defend against the relay attack and the distance fraud attack. As there are applications to which the distance fraud attack is not a serious threat, we propose a streamlined distance bounding protocol that focuses on the relay attack. The proposed protocol is more efficient than previous protocols and has a low false acceptance rate under the relay attack.
The dynamical gluon mass in the massless bound-state formalism
Ibanez, David
2014-01-01
We describe the phenomenon of dynamical gluon mass generation within the massless bound-state formalism, which constitutes the general framework for the systematic implementation of the Schwinger mechanism in non-Abelian gauge theories. The main ingredient of this formalism is the dynamical formation of bound states with vanishing mass, which gives rise to effective vertices containing massless poles; these vertices, in turn, trigger the Schwinger mechanism, and allow for the gauge-invariant generation of an effective gluon mass. In this particular approach, the gluon mass is directly related to quantities that are intrinsic to the bound-state formation itself, such as the "transition amplitude" and the corresponding "bound-state wave-function". Specifically, a set of powerful relations discussed in the text, allows one to determine the dynamical evolution of the gluon mass through a Bethe-Salpeter equation, which controls the dynamics of the relevant wave-function. In addition, it is possible to demonstrate ...
Califano, Joseph P.; Reinhart-King, Cynthia A.
2010-01-01
Cells generate traction stresses against their substrate during adhesion and migration, and traction stresses are used in part by the cell to sense the substrate. While it is clear that traction stresses, substrate stiffness, and cell area are related, it is unclear whether or how area and substrate stiffness affect force generation in cells. Moreover, multiple studies have investigated traction stresses of single cells, but few have focused on forces exerted by cells in contact, which more c...
How entangled are bound entangled states?
Wei, T C; Goldbart, P M; Munro, W J; Wei, Tzu-Chieh; Altepeter, Joseph B.; Goldbart, Paul M.; Munro, William J.
2003-01-01
Bound entangled states are states that are entangled but from which no entanglement can be distilled if all parties are allowed only local operations and classical communication. However, in creating these states one needs nonzero entanglement to start with. To date, no analytic results reveal the entanglement content of these strange states. Here, the entanglement of two distinct multipartite bound entangled states is determined analytically in terms of geometric measure of entanglement and a related quantity. The results are compared with those for the relative entropy of entanglement and the negativity, and plausible lower bounds on the entanglement of formation are given. Along the way, an intriguing example emerges, in which a bipartite mixed state, associated with Smolin's bound entangled state, can be reversibly converted into a bipartite Bell state, and vice versa. Furthermore, for any N-qubit state that is PPT for all bipartite partitionings, there is no violation of the two-setting, three-setting, a...
THE EIGENVALUE PERTURBATION BOUND FOR ARBITRARY MATRICES
Institute of Scientific and Technical Information of China (English)
Wen Li; Jian-xin Chen
2006-01-01
In this paper we present some new absolute and relative perturbation bounds for the eigenvalue for arbitrary matrices, which improves some recent results. The eigenvalue inclusion region is also discussed.
Compositional encoding for bounded model checking
Institute of Scientific and Technical Information of China (English)
Jun SUN; Yang LIU; Jin Song DONG; Jing SUN
2008-01-01
Verification techniques like SAT-based bounded model checking have been successfully applied to a variety of system models. Applying bounded model checking to compositional process algebras is, however, a highly non-trivial task. One challenge is that the number of system states for process algebra models is not statically known, whereas exploring the full state space is computa-tionally expensive. This paper presents a compositional encoding of hierarchical processes as SAT problems and then applies state-of-the-art SAT solvers for bounded model checking. The encoding avoids exploring the full state space for complex systems so as to deal with state space explosion. We developed an automated analyzer which combines complementing model checking tech-niques (I.e., bounded model checking and explicit on-the-fly model checking) to validate system models against event-based temporal properties. The experiment results show the analyzer handles large systems.
Entropy bounds for uncollapsed rotating bodies
Abreu, Gabriel
2010-01-01
Entropy bounds in black hole physics, based on a wide variety of different approaches, have had a long and distinguished history. Recently the current authors have turned attention to uncollapsed systems and obtained a robust entropy bound for uncollapsed static spherically symmetric configurations. In the current article we extend this bound to rotating systems. This extension is less simple than one might at first suppose. Purely classically, (using only classical general relativity and basic thermodynamics), it is possible to show that the entropy of uncollapsed matter inside a region enclosed by a surface of area A is bounded from above by S = max kappa(FIDOs) / (2 pi). Thus, using only classical general relativity, basic thermodynamics, and the Unruh effect, we are able to argue that for uncollapsed matter S <= {1/2} A.
Constructive spherical codes near the Shannon bound
Solé, Patrick
2011-01-01
Shannon gave a lower bound in 1959 on the binary rate of spherical codes of given minimum Euclidean distance $\\rho$. Using nonconstructive codes over a finite alphabet, we give a lower bound that is weaker but very close for small values of $\\rho$: The construction is based on the Yaglom map combined with some finite sphere packings obtained from nonconstructive codes for the Euclidean metric. Concatenating geometric codes meeting the TVZ bound with a Lee metric BCH code over GF(p); we obtain spherical codes that are polynomial time constructible. Their parameters outperform those obtained by Lachaud and Stern in 1994. At very high rate they are above 98 per cent of the Shannon bound.
An Exact Black Hole Entropy Bound
Birmingham, Daniel; Birmingham, Danny; Sen, Siddhartha
2001-01-01
We show that a Rademacher expansion can be used to establish an exact bound for the entropy of black holes within a conformal field theory framework. This convergent expansion includes all subleading corrections to the Bekenstein-Hawking term.
Family of nonlocal bound entangled states
Yu, Sixia; Oh, C. H.
2017-03-01
Bound entanglement, being entangled yet not distillable, is essential to our understanding of the relations between nonlocality and entanglement besides its applications in certain quantum information tasks. Recently, bound entangled states that violate a Bell inequality have been constructed for a two-qutrit system, disproving a conjecture by Peres that bound entanglement is local. Here we construct this kind of nonlocal bound entangled state for all finite dimensions larger than two, making possible their experimental demonstration in most general systems. We propose a Bell inequality, based on a Hardy-type argument for nonlocality, and a steering inequality to identify their nonlocality. We also provide a family of entanglement witnesses to detect their entanglement beyond the Bell inequality and the steering inequality.
Vulnerable Derivatives and Good Deal Bounds
DEFF Research Database (Denmark)
Murgoci, Agatha
2013-01-01
can be obtained. We provide a link between the objective probability measure and the range of potential risk-neutral measures, which has an intuitive economic meaning. We also provide tight pricing bounds for European calls and show how to extend the call formula to pricing other financial products......We price vulnerable derivatives – i.e. derivatives where the counterparty may default. These are basically the derivatives traded on the over-the-counter (OTC) markets. Default is modelled in a structural framework. The technique employed for pricing is good deal bounds (GDBs). The method imposes...... a new restriction in the arbitrage free model by setting upper bounds on the Sharpe ratios (SRs) of the assets. The potential prices that are eliminated represent unreasonably good deals. The constraint on the SR translates into a constraint on the stochastic discount factor. Thus, tight pricing bounds...
Bound phenolics in foods, a review.
Acosta-Estrada, Beatriz A; Gutiérrez-Uribe, Janet A; Serna-Saldívar, Sergio O
2014-01-01
Among phytochemicals, phenolic compounds have been extensively researched due to their diverse health benefits. Phenolic compounds occur mostly as soluble conjugates and insoluble forms, covalently bound to sugar moieties or cell wall structural components. Absorption mechanisms for bound phenolic compounds in the gastrointestinal tract greatly depend on the liberation of sugar moieties. Food processes such as fermentation, malting, thermoplastic extrusion or enzymatic, alkaline and acid hydrolyses occasionally assisted with microwave or ultrasound have potential to release phenolics associated to cell walls. Different kinds of wet chemistry methodologies to release and detect bound phenolic have been developed. These include harsh heat treatments, chemical modifications or biocatalysis. New protocols for processing and determining phenolics in food matrices must be devised in order to release bound phenolics and for quality control in the growing functional food industry.
New Spectral Features from Bound Dark Matter
Catena, Riccardo
2016-01-01
We demonstrate that dark matter particles gravitationally bound to the Earth can induce a characteristic nuclear recoil signal at low energies in direct detection experiments. The new spectral feature we predict can provide the ultimate smoking gun for dark matter discovery for experiments with positive signal but unclear background. The new feature is universal, in that the ratio of bound over halo dark matter event rates at detectors is independent of the dark matter-nucleon cross section.
Upper Bounds for the Laplacian Graph Eigenvalues
Institute of Scientific and Technical Information of China (English)
Jiong Sheng LI; Yong Liang PAN
2004-01-01
We first apply non-negative matrix theory to the matrix K = D + A, where D and A are the degree-diagonal and adjacency matrices of a graph G, respectively, to establish a relation on the largest Laplacian eigenvalue λ1 (G) of G and the spectral radius ρ(K) of K. And then by using this relation we present two upper bounds for λ1 (G) and determine the extremal graphs which achieve the upper bounds.
New Spectral Features from Bound Dark Matter
DEFF Research Database (Denmark)
Catena, Riccardo; Kouvaris, Chris
2016-01-01
We demonstrate that dark matter particles gravitationally bound to the Earth can induce a characteristic nuclear recoil signal at low energies in direct detection experiments. The new spectral feature we predict can provide the ultimate smoking gun for dark matter discovery for experiments...... with positive signal but unclear background. The new feature is universal, in that the ratio of bound over halo dark matter event rates at detectors is independent of the dark matter-nucleon cross section....
New Spectral Features from Bound Dark Matter
DEFF Research Database (Denmark)
Catena, Riccardo; Kouvaris, Chris
2016-01-01
We demonstrate that dark matter particles gravitationally bound to the Earth can induce a characteristic nuclear recoil signal at low energies in direct detection experiments. The new spectral feature we predict can provide the ultimate smoking gun for dark matter discovery for experiments...... with positive signal but unclear background. The new feature is universal, in that the ratio of bound over halo dark matter event rates at detectors is independent of the dark matter-nucleon cross section....
The neural basis of bounded rational behavior
Coricelli, Giorgio; Nagel, Rosemarie
2010-01-01
Bounded rational behaviour is commonly observed in experimental games and in real life situations. Neuroeconomics can help to understand the mental processing underlying bounded rationality and out-of-equilibrium behaviour. Here we report results from recent studies on the neural basis of limited steps of reasoning in a competitive setting —the beauty contest game. We use functional magnetic resonance imaging (fMRI) to study the neural correlates of human mental processes in strategic games. ...
New spectral features from bound dark matter
Catena, Riccardo; Kouvaris, Chris
2016-07-01
We demonstrate that dark matter particles gravitationally bound to the Earth can induce a characteristic nuclear recoil signal at low energies in direct detection experiments. The new spectral feature that we predict can provide a complementary verification of dark matter discovery at experiments with positive signal but unclear background. The effect is generically expected, in that the ratio of bound over halo dark matter event rates at detectors is independent of the dark matter-nucleon cross section.
Generalization error bounds for stationary autoregressive models
McDonald, Daniel J; Schervish, Mark
2011-01-01
We derive generalization error bounds for stationary univariate autoregressive (AR) models. We show that the stationarity assumption alone lets us treat the estimation of AR models as a regularized kernel regression without the need to further regularize the model arbitrarily. We thereby bound the Rademacher complexity of AR models and apply existing Rademacher complexity results to characterize the predictive risk of AR models. We demonstrate our methods by predicting interest rate movements.
Lower Bound of Electrical Conductivity from Holography
Ge, Xian-Hui; Wu, Shao-Feng
2015-01-01
We propose a universal lower bound of dc electrical conductivity in rotational- and translational- symmetries breaking systems via the holographic duality. This bound predicts that BTZ-black brane can be easily used to realize linear temperature resistivity. We also construct an anisotropic black brane solution, which yields linear temperature for the in-plane resistivity and insulating behavior for the out-of-plane resistivity. Ultimately, we discuss its implications in experiments.
Eigenvalue variance bounds for covariance matrices
Dallaporta, Sandrine
2013-01-01
This work is concerned with finite range bounds on the variance of individual eigenvalues of random covariance matrices, both in the bulk and at the edge of the spectrum. In a preceding paper, the author established analogous results for Wigner matrices and stated the results for covariance matrices. They are proved in the present paper. Relying on the LUE example, which needs to be investigated first, the main bounds are extended to complex covariance matrices by means of the Tao, Vu and Wan...
Effective Height Upper Bounds on Algebraic Tori
Habegger, Philipp
2012-01-01
The main emphasis will be on height upper bounds in the algebraic torus G^{n}_{m}. By height we will mean the absolute logarithmic Weil height. Section 3.2 contains a precise definition of this and other more general height functions. The first appendix gives a short overview of known results in the abelian case. The second appendix contains a few height bounds in Shimura varieties.
N5-CAIR mutase: role of a CO2 binding site and substrate movement in catalysis.
Hoskins, Aaron A; Morar, Mariya; Kappock, T Joseph; Mathews, Irimpan I; Zaugg, Judith B; Barder, Timothy E; Peng, Paul; Okamoto, Akimitsu; Ealick, Steven E; Stubbe, JoAnne
2007-03-13
N5-Carboxyaminoimidazole ribonucleotide mutase (N5-CAIR mutase or PurE) from Escherichia coli catalyzes the reversible interconversion of N5-CAIR to carboxyaminoimidazole ribonucleotide (CAIR) with direct CO2 transfer. Site-directed mutagenesis, a pH-rate profile, DFT calculations, and X-ray crystallography together provide new insight into the mechanism of this unusual transformation. These studies suggest that a conserved, protonated histidine (His45) plays an essential role in catalysis. The importance of proton transfers is supported by DFT calculations on CAIR and N5-CAIR analogues in which the ribose 5'-phosphate is replaced with a methyl group. The calculations suggest that the nonaromatic tautomer of CAIR (isoCAIR) is only 3.1 kcal/mol higher in energy than its aromatic counterpart, implicating this species as a potential intermediate in the PurE-catalyzed reaction. A structure of wild-type PurE cocrystallized with 4-nitroaminoimidazole ribonucleotide (NO2-AIR, a CAIR analogue) and structures of H45N and H45Q PurEs soaked with CAIR have been determined and provide the first insight into the binding of an intact PurE substrate. A comparison of 19 available structures of PurE and PurE mutants in apo and nucleotide-bound forms reveals a common, buried carboxylate or CO2 binding site for CAIR and N5-CAIR in a hydrophobic pocket in which the carboxylate or CO2 interacts with backbone amides. This work has led to a mechanistic proposal in which the carboxylate orients the substrate for proton transfer from His45 to N5-CAIR to form an enzyme-bound aminoimidazole ribonucleotide (AIR) and CO2 intermediate. Subsequent movement of the aminoimidazole moiety of AIR reorients it for addition of CO2 at C4 to generate isoCAIR. His45 is now in a position to remove a C4 proton to produce CAIR.
Spatially Adaptive Intensity Bounds for Image Restoration
Directory of Open Access Journals (Sweden)
Kaaren L. May
2003-11-01
Full Text Available Spatially-adaptive intensity bounds on the image estimate are shown to be an effective means of regularising the ill-posed image restoration problem. For blind restoration, the local intensity constraints also help to further define the solution, thereby reducing the number of multiple solutions and local minima. The bounds are defined in terms of the local statistics of the image estimate and a control parameter which determines the scale of the bounds. Guidelines for choosing this parameter are developed in the context of classical (nonblind image restoration. The intensity bounds are applied by means of the gradient projection method, and conditions for convergence are derived when the bounds are refined using the current image estimate. Based on this method, a new alternating constrained minimisation approach is proposed for blind image restoration. On the basis of the experimental results provided, it is found that local intensity bounds offer a simple, flexible method of constraining both the nonblind and blind restoration problems.
Quantum bounds for ordered searching and sorting
Hoyer, P; Shi, Y; Hoyer, Peter; Neerbek, Jan; Shi, Yaoyun
2001-01-01
We consider the quantum complexities of searching an ordered list and sorting an un-ordered list. For searching an ordered list of N elements, we prove a lower bound of \\frac{1}{\\pi}(\\ln(N)-1) on the number of oracle queries that access the list elements. This improves the previously best lower bound of ({1/12}\\log_2(N) - O(1)) due to Ambainis. For sorting N numbers, we prove a lower bound of \\frac{N}{2\\pi}(\\ln(N)-1) on the number of binary comparisons. The previously best lower bound is \\Omega(N). Our proofs are based on a weighted all-pairs inner product argument, and our results generalize to bounded error quantum algorithms. Both results are proven in the so-called quantum black box model, a quantum analogue of classical decision trees. In addition to our lower bound results, we give an exact quantum algorithm for ordered searching using (\\log_3(N) + O(1)) queries, which is roughly 0.631 \\log_2(N). Although our algorithm is worse than that of Farhi, Goldstone, Gutmann and Sipser, which makes 0.526 \\log_2(...
DEFF Research Database (Denmark)
Geil, Hans Olav; Matsumoto, Ryutaroh
2009-01-01
We present a new bound on the number of Fq -rational places in an algebraic function field. It uses information about the generators of the Weierstrass semigroup related to a rational place. As we demonstrate, the bound has implications to the theory of towers of function fields....
Directory of Open Access Journals (Sweden)
Giriyappa Ramesh
2008-01-01
Full Text Available Aim: The aim of this study was to test the hypothesis that bonding to caries-affected dentin would yield strengths that are lower than bond strengths achievable when bonded to normal dentin. Dentin-bonding systems used in this study were fourth and fifth generation as well as self-etching primers. Materials and Methods: Forty-eight freshly extracted mandibular and maxillary molars were selected of which 24 were caries-affected teeth and the remaining were noncarious teeth. Random sampling was done with eight teeth in each group based on the bonding system used. In caries-affected teeth, the soft, stainable, caries-infected dentin was excavated using a caries detector dye whereas the hard, caries-affected, nonstainable dentin was retained. All the teeth were subsequently mounted in a suitable acrylic mould. Prepared teeth were restored with a single composite resin, using three different dentin bonding systems. These prepared specimens were transferred to a Hounsfield tensometer to measure the shear bond strength. The results obtained were analyzed using Anova, Student′s unpaired t-test, and Student Neuman Keulis test. Results: The results showed that the self-etching primer required the highest mean shear load compared to the fifth and fourth generation dentin-bonding systems in both normal dentin and caries-affected dentin. Conclusion: Bond strength to dentin depends on whether the dentinal tubule is open or occluded. Within the limitations of this study, it was observed that bond strength to caries-affected dentin was low compared to normal dentin.
An Analytical Model for Spectral Peak Frequency Prediction of Substrate Noise in CMOS Substrates
DEFF Research Database (Denmark)
Shen, Ming; Mikkelsen, Jan H.
2013-01-01
This paper proposes an analytical model describing the generation of switching current noise in CMOS substrates. The model eliminates the need for SPICE simulations in existing methods by conducting a transient analysis on a generic CMOS inverter and approximating the switching current waveform us...
Identification of She3 as an SCF(Grr1 substrate in budding yeast.
Directory of Open Access Journals (Sweden)
Ruiwen Wang
Full Text Available The highly orchestrated progression of the cell cycle depends on the degradation of many regulatory proteins at different cell cycle stages. One of the key cell cycle ubiquitin ligases is the Skp1-cullin-F-box (SCF complex. Acting in concert with the substrate-binding F-box protein Grr1, SCF(Grr1 promotes the degradation of cell cycle regulators as well as various metabolic enzymes. Using a yeast two-hybrid assay with a Grr1 derivative as the bait, we identified She3, which is an adaptor protein in the asymmetric mRNA transport system, as a novel Grr1 substrate. We generated stabilized She3 mutants, which no longer bound to Grr1, and found that the degradation of She3 is not required for regulating asymmetric mRNA transport. However, She3 stabilization leads to slower growth compared to wild-type cells in a co-culture assay, demonstrating that the degradation of She3 by Grr1 is required for optimal cell growth.
M-MRAC for Nonlinear Systems with Bounded Disturbances
Stepanyan, Vahram; Krishnakumar, Kalmanje
2011-01-01
This paper presents design and performance analysis of a modified reference model MRAC (M-MRAC) architecture for a class of multi-input multi-output uncertain nonlinear systems in the presence of bounded disturbances. M-MRAC incorporates an error feedback in the reference model definition, which allows for fast adaptation without generating high frequency oscillations in the control signal, which closely follows the certainty equivalent control signal. The benefits of the method are demonstrated via a simulation example of an aircraft's wing rock motion.
A Finite Continuation Algorithm for Bound Constrained Quadratic Programming
DEFF Research Database (Denmark)
Madsen, Kaj; Nielsen, Hans Bruun; Pinar, Mustafa C.
1999-01-01
The dual of the strictly convex quadratic programming problem with unit bounds is posed as a linear $\\ell_1$ minimization problem with quadratic terms. A smooth approximation to the linear $\\ell_1$ function is used to obtain a parametric family of piecewise-quadratic approximation problems. The u....... The unique path generated by the minimizers of these problems yields the solution to the original problem for finite values of the approximation parameter. Thus, a finite continuation algorithm is designed. Results of extensive computational experiments are reported....
Taming Chaos by Linear Regulation with Bound Estimation
Directory of Open Access Journals (Sweden)
Jiqiang Wang
2015-01-01
Full Text Available Chaos control has become an important area of research and consequently many approaches have been proposed to control chaos. This paper proposes a linear regulation method. Different from the existing approaches is that it can provide region of attraction while estimating the bounding behaviour of the norm of the states. The proposed method also possesses design flexibility and can be easily used to cater for special requirement such that control signal should be generated via single input, single state, static feedback and so forth. The applications to the Tigan system, the Genesio chaotic system, the novel chaotic system, and the Lorenz chaotic system justify the above claims.
Crystal Structure of the Oxazolidinone Antibiotic Linezolid Bound to the 50S Ribosomal Subunit
Energy Technology Data Exchange (ETDEWEB)
Ippolito,J.; Kanyo, Z.; Wang, D.; Franceschi, F.; Moore, P.; Steitz, T.; Duffy, E.
2008-01-01
The oxazolidinone antibacterials target the 50S subunit of prokaryotic ribosomes. To gain insight into their mechanism of action, the crystal structure of the canonical oxazolidinone, linezolid, has been determined bound to the Haloarcula marismortui 50S subunit. Linezolid binds the 50S A-site, near the catalytic center, which suggests that inhibition involves competition with incoming A-site substrates. These results provide a structural basis for the discovery of improved oxazolidinones active against emerging drug-resistant clinical strains.
Photo-production of Bound States with Hidden Charms
Wu, Jia-Jun
2012-01-01
The photo-production of $J/\\Psi$-$^3He$ bound state ($[^3He]_{J/\\Psi}$) on a $^4He$ target has been investigated using the impulse approximation. The calculations have been performed using several $\\gamma+N \\rightarrow J/\\Psi +N$ models based on the Pomeron-exchange and accounting for the pion-exchange mechanism at low energies. The $J/\\Psi$ wavefunctions in $[^3He]_{J/\\Psi}$ are generated from various $J/\\Psi$-nucleus potentials which are constructed by either using a procedure based on the Pomeron-quark coupling mechanism or folding a $J/\\Psi$-N potential ($v_{J/\\Psi,N}$) into the nuclear densities. We consider $v_{J/\\Psi,N}$ derived from the effective field theory approach, Lattice QCD, and Pomeron-quark coupling mechanism. The upper bound of the predicted total cross sections is about $0.1 - 0.3$ pico-barn. We also consider the possibility of photo-production of a six quark-$J/\\Psi$ bound state ($[q^6]_{J/\\Psi})$ on the $^3He$ target. The Compound Bag Model of $NN$ scattering and the quark cluster model o...
Nanopore sensing of individual transcription factors bound to DNA
Squires, Allison; Atas, Evrim; Meller, Amit
2015-06-01
Transcription factor (TF)-DNA interactions are the primary control point in regulation of gene expression. Characterization of these interactions is essential for understanding genetic regulation of biological systems and developing novel therapies to treat cellular malfunctions. Solid-state nanopores are a highly versatile class of single-molecule sensors that can provide rich information about local properties of long charged biopolymers using the current blockage patterns generated during analyte translocation, and provide a novel platform for characterization of TF-DNA interactions. The DNA-binding domain of the TF Early Growth Response Protein 1 (EGR1), a prototypical zinc finger protein known as zif268, is used as a model system for this study. zif268 adopts two distinct bound conformations corresponding to specific and nonspecific binding, according to the local DNA sequence. Here we implement a solid-state nanopore platform for direct, label- and tether-free single-molecule detection of zif268 bound to DNA. We demonstrate detection of single zif268 TFs bound to DNA according to current blockage sublevels and duration of translocation through the nanopore. We further show that the nanopore can detect and discriminate both specific and nonspecific binding conformations of zif268 on DNA via the distinct current blockage patterns corresponding to each of these two known binding modes.
Efficient multisensor resource management using Cramer-Rao lower bounds
Hernandez, Marcel L.; Kirubarajan, Thiagalingam; Bar-Shalom, Yaakov
2002-08-01
This paper describes the development of a general framework for the efficient management of multiple sensors in target tracking. The basis of the technique is to quantify, and subsequently control, the accuracy of target state estimation. The Posterior Cramer-Rao lower bound provides the means of achieving this aim by enabling us to determine a bound on the performance of all unbiased estimators of the unknown target state. The general approach is then to use optimization techniques to control the measurement process in order to achieve accurate target state estimation. We are concerned primarily with the deployment and utilization of a limited sensor resource. We also allow for measurement origin uncertainty, with sensor measurements either target generated or false alarms. We exploit previous work to determine a general expression for the Fisher Information Matrix in this case. We show that by making certain assumptions we can express the measurement uncertainty as a constant information reduction factor. This enables the Fisher Information Matrix to be calculated quickly, allowing Cramer-Rao bounds to be utilized for real-time, online sensor management.
Energy Technology Data Exchange (ETDEWEB)
Collins, A.L., E-mail: adrian.collins@adas.co.uk [ADAS, Pendeford House, Wobaston Road, Wolverhampton WV9 5AP (United Kingdom); Geography and Environment, University of Southampton, Highfield, Southampton SO17 1BJ (United Kingdom); Williams, L.J.; Zhang, Y.S. [ADAS, Pendeford House, Wobaston Road, Wolverhampton WV9 5AP (United Kingdom); Marius, M. [Civil Engineering and Environment, University of Southampton, Highfield, Southampton S017 1BJ (United Kingdom); Dungait, J.A.J. [Department of Sustainable Systems and Grassland Science, Rothamsted Research—North Wyke, Okehampton, Devon EX20 2SB (United Kingdom); Smallman, D.J. [Civil Engineering and Environment, University of Southampton, Highfield, Southampton S017 1BJ (United Kingdom); Dixon, E.R. [Department of Sustainable Systems and Grassland Science, Rothamsted Research—North Wyke, Okehampton, Devon EX20 2SB (United Kingdom); Stringfellow, A. [Civil Engineering and Environment, University of Southampton, Highfield, Southampton S017 1BJ (United Kingdom); Sear, D.A. [Geography and Environment, University of Southampton, Highfield, Southampton SO17 1BJ (United Kingdom); Jones, J.I. [School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London, E1 4NS (United Kingdom); Naden, P.S. [CEH Wallingford, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, Oxfordshire, OX10 8BB (United Kingdom)
2013-07-01
The ingress of particulate material into freshwater spawning substrates is thought to be contributing to the declining success of salmonids reported over recent years for many rivers. Accordingly, the need for reliable information on the key sources of the sediment problem has progressed up the management agenda. Whilst previous work has focussed on apportioning the sources of minerogenic fine sediment degrading spawning habitats, there remains a need to develop procedures for generating corresponding information for the potentially harmful sediment-bound organic matter that represents an overlooked component of interstitial sediment. A source tracing procedure based on composite signatures combining bulk stable {sup 13}C and {sup 15}N isotope values with organic molecular structures detected using near infrared (NIR) reflectance spectroscopy was therefore used to assess the primary sources of sediment-bound organic matter sampled from artificial spawning redds. Composite signatures were selected using a combination of the Kruskal–Wallis H-test, principal component analysis and GA-driven discriminant function analysis. Interstitial sediment samples were collected using time-integrating basket traps which were inserted at the start of the salmonid spawning season and extracted in conjunction with critical phases of fish development (eyeing, hatch, emergence, late spawning). Over the duration of these four basket extractions, the overall relative frequency-weighted average median (± 95% confidence limits) source contributions to the interstitial sediment-bound organic matter were estimated to be in the order: instream decaying vegetation (39 ± < 1%; full range 0–77%); damaged road verges (28 ± < 1%; full range 0–77%); septic tanks (22 ± < 1%; full range 0–50%), and; farm yard manures/slurries (11 ± < 1%; full range 0–61%). The reported procedure provides a promising basis for understanding the key sources of interstitial sediment-bound organic matter
2011-01-01
This thesis develops a new FEM based algorithm for shakedown analysis of structures made of elastic plastic bounded linearly kinematic hardening material. Its concept can be briefly described as: Hardening law is simulated using a two-surface plastic model. One yield surface is the initial surface, defined by yield stress sigma_y, and the other one is the bounding surface, defined by ultimate strength sigma_u. The initial surface can translate inside the bounding surface without changing its ...
Cryptographic applications of analytic number theory complexity lower bounds and pseudorandomness
2003-01-01
The book introduces new ways of using analytic number theory in cryptography and related areas, such as complexity theory and pseudorandom number generation. Key topics and features: - various lower bounds on the complexity of some number theoretic and cryptographic problems, associated with classical schemes such as RSA, Diffie-Hellman, DSA as well as with relatively new schemes like XTR and NTRU - a series of very recent results about certain important characteristics (period, distribution, linear complexity) of several commonly used pseudorandom number generators, such as the RSA generator, Blum-Blum-Shub generator, Naor-Reingold generator, inversive generator, and others - one of the principal tools is bounds of exponential sums, which are combined with other number theoretic methods such as lattice reduction and sieving - a number of open problems of different level of difficulty and proposals for further research - an extensive and up-to-date bibliography Cryptographers and number theorists will find th...
Error bounds from extra precise iterative refinement
Energy Technology Data Exchange (ETDEWEB)
Demmel, James; Hida, Yozo; Kahan, William; Li, Xiaoye S.; Mukherjee, Soni; Riedy, E. Jason
2005-02-07
We present the design and testing of an algorithm for iterative refinement of the solution of linear equations, where the residual is computed with extra precision. This algorithm was originally proposed in the 1960s [6, 22] as a means to compute very accurate solutions to all but the most ill-conditioned linear systems of equations. However two obstacles have until now prevented its adoption in standard subroutine libraries like LAPACK: (1) There was no standard way to access the higher precision arithmetic needed to compute residuals, and (2) it was unclear how to compute a reliable error bound for the computed solution. The completion of the new BLAS Technical Forum Standard [5] has recently removed the first obstacle. To overcome the second obstacle, we show how a single application of iterative refinement can be used to compute an error bound in any norm at small cost, and use this to compute both an error bound in the usual infinity norm, and a componentwise relative error bound. We report extensive test results on over 6.2 million matrices of dimension 5, 10, 100, and 1000. As long as a normwise (resp. componentwise) condition number computed by the algorithm is less than 1/max{l_brace}10,{radical}n{r_brace} {var_epsilon}{sub w}, the computed normwise (resp. componentwise) error bound is at most 2 max{l_brace}10,{radical}n{r_brace} {center_dot} {var_epsilon}{sub w}, and indeed bounds the true error. Here, n is the matrix dimension and w is single precision roundoff error. For worse conditioned problems, we get similarly small correct error bounds in over 89.4% of cases.
Upper bounds on superpartner masses from upper bounds on the Higgs boson mass.
Cabrera, M E; Casas, J A; Delgado, A
2012-01-13
The LHC is putting bounds on the Higgs boson mass. In this Letter we use those bounds to constrain the minimal supersymmetric standard model (MSSM) parameter space using the fact that, in supersymmetry, the Higgs mass is a function of the masses of sparticles, and therefore an upper bound on the Higgs mass translates into an upper bound for the masses for superpartners. We show that, although current bounds do not constrain the MSSM parameter space from above, once the Higgs mass bound improves big regions of this parameter space will be excluded, putting upper bounds on supersymmetry (SUSY) masses. On the other hand, for the case of split-SUSY we show that, for moderate or large tanβ, the present bounds on the Higgs mass imply that the common mass for scalars cannot be greater than 10(11) GeV. We show how these bounds will evolve as LHC continues to improve the limits on the Higgs mass.
Akhoury, Abhinav; Bromberg, Lev; Hatton, T Alan
2013-01-10
Redox polymer electrodes (RPEs) have been prepared both by attachment of random copolymers of hydroxybutyl methacrylate and vinylferrocene (poly(HBMA-co-VF)) to carbon substrates by grafting either "to" or "from" the substrate surfaces, and by impregnation of porous carbon substrates with redox polymer gels of similar composition. An observed linear dependence of peak current on the square root of the applied voltage scan rate in cyclic voltammetry (CV) led to the conclusion that the rate controlling step in the redox process was the diffusive transfer of electrons through the redox polymer layer. The variation in the peak current with increasing concentration of the redox species in the polymer indicated that the electron transport transitioned from bounded diffusion to electron hopping. A modified form of the Blauch-Saveant equation for apparent diffusivity of electrons through a polymer film indicated that bounded diffusion was the dominant mechanism of electron transport in RPEs with un-cross-linked polymer chains at low concentrations of the redox species, but, as the concentration of the redox species increased, electron hopping became more dominant, and was the primary mode of electron diffusion above a certain concentration level of redox species. In the cross-linked polymer gels, bounded diffusion was limited because of the restricted mobility of the polymer chains. Electron hopping was the primary mode of electron diffusion in such systems at all concentrations of the redox species.
Energy Technology Data Exchange (ETDEWEB)
Bechtle, Philip; Weiglein, Georg [Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany); Brein, Oliver [Freiburg Univ. (Germany). Physikalisches Inst.; Heinemeyer, Sven [Instituto de Fisica de Cantabria (CSIC-UC), Santander (Spain); Williams, Karina [Bonn Univ. (Germany). Bethe Center for Theoretical Physics
2011-01-15
We introduce version 2.0.0 of the computer program HiggsBounds. The program tests neutral and charged Higgs sectors of arbitrary models against the current exclusion bounds from LEP and the Tevatron. As input, it requires a selection of model predictions, such as Higgs masses, branching ratios, effective couplings and total decay widths. The program uses the expected and observed topological cross section limits from the Higgs searches to determine whether a given parameter scenario of a model is excluded at the 95% C.L. by those searches. Version 2.0.0 includes 39/53 LEP/Tevatron Higgs search analyses, compared to 13/36 in the previous release (1.2.0). Among the newly included analyses are LEP searches for neutral Higgs bosons (H) decaying invisibly or into hadrons, LEP searches via the production modes {tau}{sup +}{tau}{sup -}H and b anti bH, Tevatron searches via t anti tH, and LEP and Tevatron searches for charged Higgs bosons. Also, all Tevatron results presented at the ICHEP'10 are included in version 2.0.0. In this note, we explain the basic ideas behind the implementation of HiggsBounds and provide a list of search topologies implemented in version 2.0.0. Furthermore, we apply HiggsBounds 2.0.0 to (a) determine the allowed Higgs mass range for a simple 4th generation model, (b) update/reproduce LEP/Tevatron Higgs exclusion plots for the MSSM m{sub h}{sup max} benchmark scenario, and (c) show exclusion results for the scalar sector of the Randall-Sundrum model. (orig.)
Energy Technology Data Exchange (ETDEWEB)
Bechtle, Philip; Weiglein, Georg [Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany); Brein, Oliver [Freiburg Univ. (Germany). Physikalisches Inst.; Heinemeyer, Sven [Instituto de Fisica de Cantabria (CSIC-UC), Santander (Spain); Williams, Karina [Bonn Univ. (Germany). Bethe Center for Theoretical Physics
2011-01-15
We introduce version 2.0.0 of the computer program HiggsBounds. The program tests neutral and charged Higgs sectors of arbitrary models against the current exclusion bounds from LEP and the Tevatron. As input, it requires a selection of model predictions, such as Higgs masses, branching ratios, effective couplings and total decay widths. The program uses the expected and observed topological cross section limits from the Higgs searches to determine whether a given parameter scenario of a model is excluded at the 95% C.L. by those searches. Version 2.0.0 includes 39/53 LEP/Tevatron Higgs search analyses, compared to 13/36 in the previous release (1.2.0). Among the newly included analyses are LEP searches for neutral Higgs bosons (H) decaying invisibly or into hadrons, LEP searches via the production modes {tau}{sup +}{tau}{sup -}H and b anti bH, Tevatron searches via t anti tH, and LEP and Tevatron searches for charged Higgs bosons. Also, all Tevatron results presented at the ICHEP'10 are included in version 2.0.0. In this note, we explain the basic ideas behind the implementation of HiggsBounds and provide a list of search topologies implemented in version 2.0.0. Furthermore, we apply HiggsBounds 2.0.0 to (a) determine the allowed Higgs mass range for a simple 4th generation model, (b) update/reproduce LEP/Tevatron Higgs exclusion plots for the MSSM m{sub h}{sup max} benchmark scenario, and (c) show exclusion results for the scalar sector of the Randall-Sundrum model. (orig.)
K¯ nuclear bound states in a dynamical model
Mareš, J.; Friedman, E.; Gal, A.
2006-05-01
A comprehensive data base of K-atom level shifts and widths is re-analyzed in order to study the density dependence of the K¯-nuclear optical potential. Significant departure from a tρ form is found only for ρ(r)/ρ ≲ 0.2 and extrapolation to nuclear-matter density ρ yields an attractive potential, about 170 MeV deep. Partial restoration of chiral symmetry compatible with pionic atoms and low-energy pion-nuclear data plays no role at the relevant low-density regime, but this effect is not ruled out at densities of order ρ and beyond. K¯-nuclear bound states are generated across the periodic table self consistently, using a relativistic mean-field model Lagrangian which couples the K¯ to the scalar and vector meson fields mediating the nuclear interactions. The reduced phase space available for K¯ absorption from these bound states is taken into account by adding an energy-dependent imaginary term which underlies the corresponding K¯-nuclear level widths, with a strength required by fits to the atomic data. Substantial polarization of the core nucleus is found for light nuclei, and the binding energies and widths calculated in this dynamical model differ appreciably from those calculated for a static nucleus. A wide range of binding energies is spanned by varying the K¯ couplings to the meson fields. Our calculations provide a lower limit of Γ=50±10 MeV on the width of nuclear bound states for K¯-binding energy in the range B˜100-200 MeV. Comments are made on the interpretation of the FINUDA experiment at DAΦNE which claimed evidence for deeply bound Kpp states in light nuclei.
Particle-Bound PAH Emission from the Exhaust of Combustion Chamber
Asgari Lamjiri, M.; Medrano, Y. S.; Guillaume, D. W.; Khachikian, C. S.
2013-12-01
Polycyclic Aromatic Hydrocarbons (PAHs) are harmful, semi-volatile organic compounds which are generated due to the incomplete combustion of organic substances. PAHs are of concern as a pollutant because some of these compounds are carcinogenic and mutagenic even at low levels. Most of the PAHs are recalcitrant and persistent in the environment. The PAHs carcinogenic potential can be increased by the adsorption onto small size particles (jet engine are evaluated. The engine was operated at different swirl numbers (S; the ratio of tangential air flow to axial air flow) to investigate the effect of this parameter on the effluent of combustion chamber. The samples were collected using two instruments simultaneously: a particle analyzer and a Micro-Orifice Uniform Deposited Impactor (MOUDI). Particle analyzer was used to count the number of particles in different sizes and MOUDI was used to collect particles with respect to their size as they were emitted from the exhaust. The MOUDI's aluminum substrates were weighed before and after the experiment in order to measure the mass of particles that were collected during the sampling period. The concentration of PAHs associated with the particles was measured by extracting the particles with dichloromethane followed by analysis via gas chromatography/mass spectrometry (GC/MS). In general, lower molecular weight PAHs emitted from the exhaust of combustion chamber are mostly in gas phase while PAHs of higher molecular weight are adsorbed onto particles. Preliminary results from GC/MS confirm the presence of higher molecular weight PAHs like Benzo[a]pyrene in most of the samples. Better recirculation between air and fuel in higher swirl numbers results in better combustion. In higher swirl numbers, the temperature of the combustion process increases which leads to a more complete combustion. Another result of higher swirl number is a longer residence time which allows the organic substances in the fuel to remain in the
On the Norm Convergence of the Self-Adjoint Trotter–Kato Product Formula with Error Bound
Indian Academy of Sciences (India)
Takashi Ichinose; Hideo Tamura
2002-02-01
The norm convergence of the Trotter–Kato product formula with error bound is shown for the semigroup generated by that operator sum of two nonnegative self-adjoint operators and which is self-adjoint.
A Bound on Equipartition of Energy
Masi, Nicolo'
2011-01-01
In this article I want to demonstrate that the time-scale constraints for a thermodynamic system imply the new concept of equipartition of energy bound (EEB) or, more generally, a thermodynamical bound for the partition of energy. This means that I theorize and discuss the possibility to put an upper limit to the equipartition factor for a gas of particles. This could be interpreted as a sort of transcription of the entropy bounds from quantum-holographic sector. The number 4.93, i.e. the EEB, obtained from a comparison between the Margolus-Levitin quantum theorem and the TTT bound for relaxation times by Hod, seems like a special value for the thermodynamics of particle systems. This bound has been related to the idea of an extremal statistics and independently traced in a statistical mechanics framework. In fact, I identified a type of fluid that is capable of reaching to saturate the limit value I obtained for the equipartition factor. This was done by analyzing the mathematical behavior of the distributio...
Conformational phases of membrane bound cytoskeletal filaments
Quint, David A.; Grason, Gregory; Gopinathan, Ajay
2013-03-01
Membrane bound cytoskeletal filaments found in living cells are employed to carry out many types of activities including cellular division, rigidity and transport. When these biopolymers are bound to a membrane surface they may take on highly non-trivial conformations as compared to when they are not bound. This leads to the natural question; What are the important interactions which drive these polymers to particular conformations when they are bound to a surface? Assuming that there are binding domains along the polymer which follow a periodic helical structure set by the natural monomeric handedness, these bound conformations must arise from the interplay of the intrinsic monomeric helicity and membrane binding. To probe this question, we study a continuous model of an elastic filament with intrinsic helicity and map out the conformational phases of this filament for various mechanical and structural parameters in our model, such as elastic stiffness and intrinsic twist of the filament. Our model allows us to gain insight into the possible mechanisms which drive real biopolymers such as actin and tubulin in eukaryotes and their prokaryotic cousins MreB and FtsZ to take on their functional conformations within living cells.
Introduction to QCD - a bound state perspective
Hoyer, Paul
2011-01-01
These lecture notes focus on the bound state sector of QCD. Motivated by data which suggests that the strong coupling \\alpha_s(Q) freezes at low Q, and by similarities between the spectra of hadrons and atoms, I discuss if and how QCD bound states may be treated perturbatively. I recall the basic principles of perturbative gauge theory bound states at lowest order in the \\hbar expansion. Born level amplitudes are insensitive to the i\\epsilon prescription of propagators, which allows to eliminate the Z-diagrams of relativistic, time-ordered Coulomb interactions. The Dirac wave function thus describes a single electron which propagates forward in time only, even though the bound state has any number of pair constituents when Feynman propagators are used. In the absence of an external potential, states that are bound by the Coulomb attraction of their constituents can be analogously described using only their valence degrees of freedom. The instantaneous A^0 field is determined by Gauss' law for each wave functi...
Johnson Type Bounds on Constant Dimension Codes
Xia, Shu-Tao
2007-01-01
Very recently, an operator channel was defined by Koetter and Kschischang when they studied random network coding. They also introduced constant dimension codes and demonstrated that these codes can be employed to correct errors and/or erasures over the operator channel. Constant dimension codes are equivalent to the so-called linear authentication codes introduced by Wang, Xing and Safavi-Naini when constructing distributed authentication systems in 2003. In this paper, we study constant dimension codes. It is shown that Steiner structures are optimal constant dimension codes achieving the Wang-Xing-Safavi-Naini bound. Furthermore, we show that constant dimension codes achieve the Wang-Xing-Safavi-Naini bound if and only if they are certain Steiner structures. Then, we derive two Johnson type upper bounds, say I and II, on constant dimension codes. The Johnson type bound II slightly improves on the Wang-Xing-Safavi-Naini bound. Finally, we point out that a family of known Steiner structures is actually a fam...
Space Lower Bounds for Online Pattern Matching
Clifford, Raphael; Porat, Ely; Sach, Benjamin
2011-01-01
We present space lower bounds for online pattern matching under a number of different distance measures. Given a pattern of length m and a text that arrives one character at a time, the online pattern matching problem is to report the distance between the pattern and a sliding window of the text as soon as the new character arrives. We require that the correct answer is given at each position with constant probability. We give Omega(m) bit space lower bounds for L_1, L_2, L_\\infty, Hamming, edit and swap distances as well as for any algorithm that computes the cross-correlation/convolution. We then show a dichotomy between distance functions that have wildcard-like properties and those that do not. In the former case which includes, as an example, pattern matching with character classes, we give Omega(m) bit space lower bounds. For other distance functions, we show that there exist space bounds of Omega(log m) and O(log^2 m) bits. Finally we discuss space lower bounds for non-binary inputs and show how in som...
Dewetting on microstructured substrates
Kim, Taehong; Kim, Wonjung
2016-11-01
A thin liquid film has an equilibrium thickness in such a way as to minimize the free energy. When a liquid film thickness is out of its equilibrium, the film seeks its equilibrium state, resulting in dynamics of liquid film, which are referred to as wetting and dewetting, depending on the flow direction. We here present a combined experimental and theoretical investigation of dewetting on a substrate with parallel microstructures. Our experiments show that residue may remain on the substrate after dewetting, and residue morphologies can be classified into three modes. Based on our experimental observations, we elucidate how the modes depend on the pattern morphology and contact angle, and develop a model for the contact line motion. Our results provide a basis for controlling the thickness film, which is important for many practical applications such as oil recovery, detergency, lithography, and cleaning. This work was supported by the National Research Foundation of Korea (NRF) Grant funded by the Korea government (MSIP) (No.2015R1A2A2A04006181).
Energy Technology Data Exchange (ETDEWEB)
Hopwood, Jeffrey A.; Wu, Chen; Hoskinson, Alan R.; Sonkusale, Sameer
2016-10-04
A microplasma generator includes first and second conductive resonators disposed on a first surface of a dielectric substrate. The first and second conductive resonators are arranged in line with one another with a gap defined between a first end of each resonator. A ground plane is disposed on a second surface of the dielectric substrate and a second end of each of the first and second resonators is coupled to the ground plane. A power input connector is coupled to the first resonator at a first predetermined distance from the second end chosen as a function of the impedance of the first conductive resonator. A microplasma generating array includes a number of resonators in a dielectric material substrate with one end of each resonator coupled to ground. A micro-plasma is generated at the non-grounded end of each resonator. The substrate includes a ground electrode and the microplasmas are generated between the non-grounded end of the resonator and the ground electrode. The coupling of each resonator to ground may be made through controlled switches in order to turn each resonator off or on and therefore control where and when a microplasma will be created in the array.
Maintainable substrate carrier for electroplating
Chen, Chen-An [Milpitas, CA; Abas, Emmanuel Chua [Laguna, PH; Divino, Edmundo Anida [Cavite, PH; Ermita, Jake Randal G [Laguna, PH; Capulong, Jose Francisco S [Laguna, PH; Castillo, Arnold Villamor [Batangas, PH; Ma,; Xiaobing, Diana [Saratoga, CA
2012-07-17
One embodiment relates to a substrate carrier for use in electroplating a plurality of substrates. The carrier includes a non-conductive carrier body on which the substrates are placed and conductive lines embedded within the carrier body. A plurality of conductive clip attachment parts are attached in a permanent manner to the conductive lines embedded within the carrier body. A plurality of contact clips are attached in a removable manner to the clip attachment parts. The contact clips hold the substrates in place and conductively connecting the substrates with the conductive lines. Other embodiments, aspects and features are also disclosed.
Maintainable substrate carrier for electroplating
Energy Technology Data Exchange (ETDEWEB)
Chen, Chen-An; Abas, Emmanuel Chua; Divino, Edmundo Anida; Ermita, Jake Randal G.; Capulong, Jose Francisco S.; Castillo, Arnold Villamor; Ma, Diana Xiaobing
2016-08-02
One embodiment relates to a substrate carrier for use in electroplating a plurality of substrates. The carrier includes a non-conductive carrier body on which the substrates are placed and conductive lines embedded within the carrier body. A plurality of conductive clip attachment parts are attached in a permanent manner to the conductive lines embedded within the carrier body. A plurality of contact clips are attached in a removable manner to the clip attachment parts. The contact clips hold the substrates in place and conductively connecting the substrates with the conductive lines. Other embodiments, aspects and features are also disclosed.
Scale Of Fermion Mass Generation
Niczyporuk, J M
2002-01-01
Unitarity of longitudinal weak vector boson scattering implies an upper bound on the scale of electroweak symmetry breaking, Λ EWSB ≡ 8pv ≈ 1 TeV. Appelquist and Chanowitz have derived an analogous upper bound on the scale of fermion mass generation, proportional to v 2/mf, by considering the scattering of same-helicity fermions into pairs of longitudinal weak vector bosons in a theory without a standard Higgs boson. We show that there is no upper bound, beyond that on the scale of electroweak symmetry breaking, in such a theory. This result is obtained by considering the same process, but with a large number of longitudinal weak vector bosons in the final state. We further argue that there is no scale of (Dirac) fermion mass generation in the standard model. In contrast, there is an upper bound on the scale of Majorana-neutrino mass generation, given by ΛMaj ≡ 4πv2/m ν. In general, the upper bound on the scale of fermion mass generation depend...
Deconstructing the DGAT1 enzyme: membrane interactions at substrate binding sites.
Directory of Open Access Journals (Sweden)
Jose L S Lopes
Full Text Available Diacylglycerol acyltransferase 1 (DGAT1 is a key enzyme in the triacylglyceride synthesis pathway. Bovine DGAT1 is an endoplasmic reticulum membrane-bound protein associated with the regulation of fat content in milk and meat. The aim of this study was to evaluate the interaction of DGAT1 peptides corresponding to putative substrate binding sites with different types of model membranes. Whilst these peptides are predicted to be located in an extramembranous loop of the membrane-bound protein, their hydrophobic substrates are membrane-bound molecules. In this study, peptides corresponding to the binding sites of the two substrates involved in the reaction were examined in the presence of model membranes in order to probe potential interactions between them that might influence the subsequent binding of the substrates. Whilst the conformation of one of the peptides changed upon binding several types of micelles regardless of their surface charge, suggesting binding to hydrophobic domains, the other peptide bound strongly to negatively-charged model membranes. This binding was accompanied by a change in conformation, and produced leakage of the liposome-entrapped dye calcein. The different hydrophobic and electrostatic interactions observed suggest the peptides may be involved in the interactions of the enzyme with membrane surfaces, facilitating access of the catalytic histidine to the triacylglycerol substrates.
Bounds on localisable information via semidefinite programming
Synak, B; Horodecki, M; Synak, Barbara; Horodecki, Karol; Horodecki, Michal
2004-01-01
We investigate so-called localisable information of bipartite states and a parallel notion of information deficit. Localisable information is defined as the amount of information that can be concentrated by means of classical communication and local operations where only maximally mixed states can be added for free. The information deficit is defined as difference between total information contents of the state and localisable information. We consider a larger class of operations: the so called PPT operations, which in addition preserve maximally mixed state (PPT-PMM operations). We formulate the related optimization problem as sedmidefnite program with suitable constraints. We then provide bound for fidelity of transition of a given state into product pure state on Hilbert space of dimension d. This allows to obtain general upper bound for localisable information (and also for information deficit). We calculated the bounds exactly for Werner states and isotropic states in any dimension. Surprisingly it turns...
Bound States in Boson Impurity Models
Shi, Tao; Wu, Ying-Hai; González-Tudela, A.; Cirac, J. I.
2016-04-01
The formation of bound states involving multiple particles underlies many interesting quantum physical phenomena, such as Efimov physics or superconductivity. In this work, we show the existence of an infinite number of such states for some boson impurity models. They describe free bosons coupled to an impurity and include some of the most representative models in quantum optics. We also propose a family of wave functions to describe the bound states and verify that it accurately characterizes all parameter regimes by comparing its predictions with exact numerical calculations for a one-dimensional tight-binding Hamiltonian. For that model, we also analyze the nature of the bound states by studying the scaling relations of physical quantities, such as the ground-state energy and localization length, and find a nonanalytical behavior as a function of the coupling strength. Finally, we discuss how to test our theoretical predictions in experimental platforms, such as photonic crystal structures and cold atoms in optical lattices.
Bound States Of Supersymmetric Black Holes
Britto-Pacumio, R A
2002-01-01
The quantum mechanics of N slowly-moving supersymmetric black holes in five dimensions is considered. A divergent continuum of states describing arbitrarily closely bound black holes with arbitrarily small excitation energies is found. A superconformal structure appears at low energies and can be used to define a topological index counting the weighted number of supersymmetric bound states. It is shown that the index is determined from the dimensions of certain cohomology classes on the symmetric product of N copies of R4. This bound state index is computed exactly for two and three black holes. The required regulator for the infrared continuum of near-coincident black holes is chosen in accord with the enhanced superconformal symmetry.
Bounded link prediction in very large networks
Cui, Wei; Pu, Cunlai; Xu, Zhongqi; Cai, Shimin; Yang, Jian; Michaelson, Andrew
2016-09-01
Evaluating link prediction methods is a hard task in very large complex networks due to the prohibitive computational cost. However, if we consider the lower bound of node pairs' similarity scores, this task can be greatly optimized. In this paper, we study CN index in the bounded link prediction framework, which is applicable to enormous heterogeneous networks. Specifically, we propose a fast algorithm based on the parallel computing scheme to obtain all node pairs with CN values larger than the lower bound. Furthermore, we propose a general measurement, called self-predictability, to quantify the performance of similarity indices in link prediction, which can also indicate the link predictability of networks with respect to given similarity indices.
η-nuclear bound states revisited
Friedman, E.; Gal, A.; Mareš, J.
2013-10-01
The strong energy dependence of the s-wave ηN scattering amplitude at and below threshold, as evident in coupled-channels K-matrix fits and chiral models that incorporate the S11N* (1535) resonance, is included self-consistently in η-nuclear bound-state calculations. This approach, applied recently in calculations of kaonic atoms and Kbar-nuclear bound states, is found to impose stronger constraints than ever on the onset of η-nuclear binding, with a minimum value of ReaηN ≈ 0.9 fm required to accommodate an η-4He bound state. Binding energies and widths of η-nuclear states are calculated within several underlying ηN models for nuclei across the periodic table, including Mg25η for which some evidence was proposed in a recent COSY experiment.
Narrow deeply bound K- atomic states
Friedman, E.; Gal, A.
1999-07-01
Using optical potentials fitted to a comprehensive set of strong interaction level shifts and widths in K- atoms, we predict that the K- atomic levels which are inaccessible in the atomic cascade process are generally narrow, spanning a range of widths about 50-1500 keV over the entire periodic table. The mechanism for this narrowing is different from the mechanism for narrowing of pionic atom levels. Examples of such `deeply bound' K- atomic states are given, showing that in many cases these states should be reasonably well resolved. Several reactions which could be used to form these `deeply bound' states are mentioned. Narrow deeply bound states are expected also in overlinep atoms.
Shedding of cell membrane-bound proteoglycans.
Nam, Eon Jeong; Park, Pyong Woo
2012-01-01
Membrane-bound proteoglycans function primarily as coreceptors for many glycosaminoglycan (GAG)-binding ligands at the cell surface. The majority of membrane-bound proteoglycans can also function as soluble autocrine or paracrine effectors as their extracellular domains, replete with all GAG chains, are enzymatically cleaved and released from the cell surface by ectodomain shedding. In particular, the ectodomain shedding of syndecans, a major family of cell surface heparan sulfate proteoglycans, is an important posttranslational mechanism that modulates diverse pathophysiological processes. Syndecan shedding is a tightly controlled process that regulates the onset, progression, and resolution of various infectious and noninfectious inflammatory diseases. This review describes methods to induce and measure the shedding of cell membrane-bound proteoglycans, focusing on syndecan shedding as a prototypic example.
A Proof of the Conformal Collider Bounds
Hofman, Diego M; Meltzer, David; Poland, David; Rejon-Barrera, Fernando
2016-01-01
In this paper, we prove that the "conformal collider bounds" originally proposed by Hofman and Maldacena hold for any unitary parity-preserving conformal field theory (CFT) with a unique stress tensor in spacetime dimensions larger than 2. In particular this implies that the ratio of central charges for a unitary 4d CFT lies in the interval $\\frac{31}{18} \\geq \\frac{a}{c} \\geq \\frac{1}{3}$. For superconformal theories this is further reduced to $\\frac{3}{2} \\geq \\frac{a}{c} \\geq \\frac{1}{2}$. The proof relies only on CFT first principles - in particular, bootstrap methods - and thus constitutes the first complete field theory proof of these bounds. We further elaborate on similar bounds for non-conserved currents and relate them to results obtained recently from deep inelastic scattering.
Creed, Peter A.; Patton, Wendy; Hood, Michelle
2010-01-01
We surveyed 506 Australian high school students on career development (exploration, planning, job-knowledge, decision-making, indecision), personal functioning (well-being, self-esteem, life satisfaction, school satisfaction) and control variables (parent education, school achievement), and tested differences among work-bound, college-bound and…
Direct-Cooled Power Electronics Substrate
Energy Technology Data Exchange (ETDEWEB)
Wiles, R.; Ayers, C.; Wereszczak, A.
2008-12-23
The goal of the Direct-Cooled Power Electronics Substrate project is to reduce the size and weight of the heat sink for power electronics used in hybrid electric vehicles (HEVs) and plug-in hybrid electric vehicles (PHEVs). The concept proposed in this project was to develop an innovative power electronics mounting structure, model it, and perform both thermal and mechanical finite-element analysis (FEA). This concept involved integrating cooling channels within the direct-bonded copper (DBC) substrate and strategically locating these channels underneath the power electronic devices. This arrangement would then be directly cooled by water-ethylene glycol (WEG), essentially eliminating the conventional heat sink and associated heat flow path. The concept was evaluated to determine its manufacturability, its compatibility with WEG, and the potential to reduce size and weight while directly cooling the DBC and associated electronics with a coolant temperature of 105 C. This concept does not provide direct cooling to the electronics, only direct cooling inside the DBC substrate itself. These designs will take into account issues such as containment of the fluid (separation from the electronics) and synergy with the whole power inverter design architecture. In FY 2008, mechanical modeling of substrate and inverter core designs as well as thermal and mechanical stress FEA modeling of the substrate designs was performed, along with research into manufacturing capabilities and methods that will support the substrate designs. In FY 2009, a preferred design(s) will be fabricated and laboratory validation testing will be completed. In FY 2010, based on the previous years laboratory testing, the mechanical design will be modified and the next generation will be built and tested in an operating inverter prototype.
Caplan, David A.; Subbotina, Julia O.; Noskov, Sergei Yu.
2008-01-01
Ion-coupled transport of neurotransmitter molecules by neurotransmitter:sodium symporters (NSS) play an important role in the regulation of neuronal signaling. One of the major events in the transport cycle is ion-substrate coupling and formation of the high-affinity occluded state with bound ions and substrate. Molecular mechanisms of ion-substrate coupling and the corresponding ion-substrate stoichiometry in NSS transporters has yet to be understood. The recent determination of a high-resol...
Stapel, J. G.; Schirrmeister, L.; Overduin, P. P.; Wetterich, S.; Strauss, J.; Horsfield, B.; Mangelsdorf, K.
2016-10-01
A terrestrial permafrost core from Buor Khaya in northern Siberia comprising deposits of Late Pleistocene to Early Holocene age has been investigated to characterize living and past microbial communities with respect to modern and paleoclimate environmental conditions and to evaluate the potential of the organic matter (OM) for greenhouse gas generation. Microbial life markers—intact phospholipids and phospholipid fatty acids—are found throughout the entire core and indicate the presence of living microorganisms also in older permafrost deposits. Biomarkers for past microbial communities (branched and isoprenoid glycerol dialkyl glycerol tetraether as well as archaeol) reveal links between increased past microbial activity and intervals of high OM accumulation accompanied by increased OM quality presumably caused by local periods of moister and warmer environmental conditions. Concentrations of acetate as an excellent substrate for methanogenesis are used to assess the OM quality with respect to microbial degradability for greenhouse gas production. For this purpose two acetate pools are determined: the pore water acetate and OM bound acetate. Both depth profiles reveal similarities to the OM content and quality indicating a link between the amount of the stored OM and the potential to provide substrates for microbial greenhouse gas production. The data suggest that OM stored in the permafrost deposits is not much different in terms of OM quality than the fresh surface organic material. Considering the expected increase of permafrost thaw due to climate warming, this implies a potentially strong impact on greenhouse gas generation from permafrost areas in future with positive feedback on climate variation.
Generalized Bounds on Majoron-neutrino couplings
Tomás, R; Valle, José W F
2001-01-01
We discuss limits on neutrino-Majoron couplings both from laboratory experiments as well as from astrophysics. They apply to the simplest class of Majoron models which covers a variety of possibilities where neutrinos acquire mass either via a seesaw-type scheme or via radiative corrections. By adopting a general framework including CP phases we generalize bounds obtained previously. The combination of complementary bounds enables us to obtain a highly non-trivial exclusion region in the parameter space. We find that the future double beta project GENIUS, together with constraints based on supernova energy release arguments, could restrict neutrino-Majoron couplings down to the 10^{-7} level.
Upper bounds on the photon mass
Accioly, Antonio; Scatena, Eslley; 10.1103/PhysRevD.82.065026
2010-01-01
The effects of a nonzero photon rest mass can be incorporated into electromagnetism in a simple way using the Proca equations. In this vein, two interesting implications regarding the possible existence of a massive photon in nature, i.e., tiny alterations in the known values of both the anomalous magnetic moment of the electron and the gravitational deflection of electromagnetic radiation, are utilized to set upper limits on its mass. The bounds obtained are not as stringent as those recently found; nonetheless, they are comparable to other existing bounds and bring new elements to the issue of restricting the photon mass.
Weakly bound systems, continuum effects, and reactions
Jaganathen, Y; Ploszajczak, M
2012-01-01
Structure of weakly bound/unbound nuclei close to particle drip lines is different from that around the valley of beta stability. A comprehensive description of these systems goes beyond standard Shell Model and demands an open quantum system description of the nuclear many-body system. We approach this problem using the Gamow Shell Model which provides a fully microscopic description of bound and unbound nuclear states, nuclear decays, and reactions. We present in this paper the first application of the GSM for a description of the elastic and inelastic scattering of protons on 6He.
Bounded distortion homeomorphisms on ultrametric spaces
Hughes, Bruce; Morón, Manuel A
2010-01-01
It is well-known that quasi-isometries between R-trees induce power quasi-symmetric homeomorphisms between their ultrametric end spaces. This paper investigates power quasi-symmetric homeomorphisms between bounded, complete, uniformly perfect, ultrametric spaces (i.e., those ultrametric spaces arising up to similarity as the end spaces of bushy trees). A bounded distortion property is found that characterizes power quasi-symmetric homeomorphisms between such ultrametric spaces that are also pseudo-doubling. Moreover, examples are given showing the extent to which the power quasi-symmetry of homeomorphisms is not captured by the quasiconformal and bi-H\\"older conditions for this class of ultrametric spaces.
Learning within bounds and dream sleep
Geszti, T.; Pazmandi, F.
1987-12-01
In a bounded-synapses version of Hopfield's model (1984) for neural networks the quasienergy of a given memory, which is approximately equal to the depth of the corresponding energy well is calculated exactly by treating the change of a synaptic strength on learning as a random walk within bounds. Attractors corresponding to stored memories are found to be considerably flattened before serious retrieval errors arise. This allows dream sleep to be interpreted as random recall and relearning of fresh strong memories, in order to stack them on top of weak incidental memory imprints of a day.
Irreversibility for all bound entangled states
Yang, D; Horodecki, R; Synak-Radtke, B; Yang, Dong; Horodecki, Michal; Horodecki, Ryszard; Synak-Radtke, Barbara
2005-01-01
We derive a new inequality for entanglement for a mixed four-partite state. Employing this inequality, we present a one-shot lower bound for entanglement cost and prove that entanglement cost is strictly larger than zero for any entangled state. We demonstrate that irreversibility occurs in the process of formation for all non-distillable entangled states. In this way we solve a long standing problem, of how "real" is entanglement of bound entangled states. Using the new inequality we also prove impossibility of local-cloning and local-deleting of a known entangled state.
Analysis of upper and lower bounds of the frame noise in linear detector arrays
Jaggi, S.
1991-01-01
This paper estimates the upper and lower bounds of the frame noise of a linear detector array that uses a one-dimensional scan pattern. Using chi-square distribution, it is analytically shown why it is necessary to use the average of the variances and not the average of the standard deviations to estimate these bounds. Also, a criteria for determining whether any excessively noisy lines exist among the detectors is derived from these bounds. Using a Gaussian standard random variable generator, these bounds are demonstrated to be accurate within the specified confidence interval. A silicon detector array is then used for actual dark current measurements. The criterion developed for determination of noisy detectors is checked on the experimentally obtained data.
[Difference of P content in different area substrate of constructed wetland].
Cao, Xue-Ying; Chong, Yun-Xiao; Yu, Guang-Wei; Zhong, Hai-Tao
2012-11-01
Adsorption of substrate is the main removal mechanisms of phosphorus in constructed wetland. It is easily impacted by various environmental factors existing in the wetland bed. The contents of substrate TP and the main inorganic P in different areas of both horizontal sub-surface flow constructed wetland with plant and one without plant were measured after treating wastewater five months. Different areas of the wetland with plant differed greatly in the substrate TP. Rhizosphere substrate in front area had the highest TP content and achieved 0.75 g x kg(-1), and the TP content of non-rhizosphere substrate in back area was only 0.21 g x kg(-1). The TP content of substrate in different areas of the wetland without plant had a little variety and ranged only between 0.21 and 0.27 g x kg(-1). Averagely, the substrate TP content in the wetland with plant was higher than the one in the wetland without plant. The phosphorous with Fe-bound (Fe-P), Al-bound (Al-P), and Ca-bound (Ca-P) were main inorganic phosphorous existing in the substrate in both wetlands, their contents in different areas substrate all increased, compared with the one before experiment. Fe-P and Al-P in different substrates in both wetlands had a similar variety. Their content between rhizosphere and intermediate substrate of front area in the wetland with plant and other area substrate in both wetlands differed greatly because the former increased greatly. Compared with Fe-P and Al-P, the variety of Ca-P in different substrates in both wetlands was low. But the content of Ca-P in rhizosphere substrate in wetland with plant was higher than other two parts respectively in front and back areas. Obviously, the plant root had an impact on the phosphorous content of substrate in constructed wetland. For TP, Fe-P, Al-P, Ca-P and loosely sorbed phosphorous in substrate, it increased with distance of the root.
Instabilities of soft films on compliant substrates
Holland, M. A.; Li, B.; Feng, X. Q.; Kuhl, E.
2017-01-01
Instabilities in bilayered systems can generate a wide variety of patterns ranging from simple folds, wrinkles, and creases to complex checkerboards, hexagons, and herringbones. Physics-based theories traditionally model these systems as a thin film on a thick substrate under confined compression and assume that the film is orders of magnitude stiffer than the substrate. However, instability phenomena in soft films on soft substrates remain insufficiently understood. Here we show that soft bilayered systems are highly sensitive to the stiffness ratio, boundary conditions, and mode of compression. In a systematic analysis over a wide range of stiffness ratios, from 0.1 domain compression, substrate prestretch, and film growth, we observe significantly different instability characteristics in the low-stiffness-contrast regime, for β domain compression are unstable for a wide range of wrinkling modes, under film-only compression, the same systems display distinct wrinkling modes.Strikingly, these discrepancies disappear when using measures of effective strain, effective stiffness, and effective wavelength. Our study suggests that future instability studies should use these effective measures to standardize their findings. Our results have important applications in soft matter and living matter physics, where stiffness contrasts are low and small environmental changes can have large effects on morphogenesis, pattern tabselection, and the evolution of shape.
BOUNDS FOR THE ZEROS OF POLYNOMIALS
Institute of Scientific and Technical Information of China (English)
W. M. Shah; A.Liman
2004-01-01
Let P(z) =n∑j=0 ajzj be a polynomial of degree n. In this paper we prove a more general result which interalia improves upon the bounds of a class of polynomials. We also prove a result which includes some extensions and generalizations of Enestrom-Kakeya theorem.
Bounds on transverse momentum dependent distribution functions
Henneman, A A
2001-01-01
When more than one hadron takes part in a hard process, an extended set of quark distribution and fragmentation functions becomes relevant. In this talk, the derivation of Soffer-like bounds for these functions, in the case of a spin-1/2 target, is sketched and some of their aspects are discussed.
Bounds on transverse momentum dependent distribution functions
Henneman, A.
2000-01-01
When more than one hadron takes part in a hard process, an extended set of quark distribution and fragmentation functions becomes relevant. In this talk, the derivation of Soffer-like bounds for these functions, in the case of a spin-1/2 target, is sketched and some of their aspects are discussed.
Bounds on transverse momentum dependent distribution functions
Henneman, A.
2001-01-01
When more than one hadron takes part in a hard process, an extended set of quark distribution and fragmentation functions becomes relevant. In this talk, the derivation of Soffer-like bounds for these functions, in the case of a spin-1/2 target [1], is sketched and some of their aspects are discussed.
Bounding the bias of contrastive divergence learning
DEFF Research Database (Denmark)
Fischer, Anja; Igel, Christian
2011-01-01
Optimization based on k-step contrastive divergence (CD) has become a common way to train restricted Boltzmann machines (RBMs). The k-step CD is a biased estimator of the log-likelihood gradient relying on Gibbs sampling. We derive a new upper bound for this bias. Its magnitude depends on k...
Bounded Rationality of Generalized Abstract Fuzzy Economies
Directory of Open Access Journals (Sweden)
Lei Wang
2014-01-01
Full Text Available By using a nonlinear scalarization technique, the bounded rationality model M for generalized abstract fuzzy economies in finite continuous spaces is established. Furthermore, by using the model M, some new theorems for structural stability and robustness to (λ,ϵ-equilibria of generalized abstract fuzzy economies are proved.
Collisional properties of weakly bound heteronuclear dimers
Marcelis, B.; Kokkelmans, S.J.J.M.F.; Shlyapnikov, G.V.; Petrov, D.S.
2008-01-01
We consider collisional properties of weakly bound heteronuclear molecules (dimers) formed in a two-species mixture of atoms with a large mass difference. We focus on dimers containing light fermionic atoms as they manifest collisional stability due to an effective dimer-dimer repulsion originating
A Tight Bound for the Lamplighter Problem
Ganapathy, Murali K.; Tetali, Prasad
2006-01-01
We settle an open problem, raised by Y. Peres and D. Revelle, concerning the $L^2$ mixing time of the random walk on the lamplighter graph. We also provide general bounds relating the entropy decay of a Markov chain to the separation distance of the chain, and show that the lamplighter graphs once again provide examples of tightness of our results.
Improved Lower Bound for Online Strip Packing
Harren, Rolf; Kern, Walter
We study the online strip packing problem and derive an improved lower bound of Ͽ ≥ 2.589... for the competitive ratio of this problem. The construction is based on modified “Brown-Baker-Katseff sequences‿ (Brown et al. in Acta Inform. 18:207–225, 1982) using only two types of rectangles. In
Improved lower bound for online strip packing
Harren, Rolf; Kern, Walter
2012-01-01
In the two-dimensional strip packing problem a number of rectangles have to be packed without rotation or overlap into a strip such that the height of the strip used is minimal. The width of the rectangles is bounded by 1 and the strip has width 1 and infinite height. We study the online version of
Monotonicity and bounds on Bessel functions
Directory of Open Access Journals (Sweden)
Larry Landau
2000-07-01
Full Text Available survey my recent results on monotonicity with respect to order of general Bessel functions, which follow from a new identity and lead to best possible uniform bounds. Application may be made to the "spreading of the wave packet" for a free quantum particle on a lattice and to estimates for perturbative expansions.
Dilation volumes of sets of bounded perimeter
DEFF Research Database (Denmark)
Kiderlen, Markus; Rataj, Jan
it to determine the derivative of the contact distribution function of a stationary random closed set at zero. A variant for uncountable Q is given, too. The proofs are based on approximation of the characteristic function of A by smooth functions of bounded variation and showing corresponding formulas for them....
A Characterization of Complete Bounded Domain
Institute of Scientific and Technical Information of China (English)
殷慰萍; 苏简兵; 赵振刚
2002-01-01
@@ 1 IntroductionThis paper is concerned with biholomorphic mappings between two bounded domains D and G both in Cn.Consequently,an important question is whether the domain D is biholomorphic to G? We give an answer for this question under a very weak condition.
A PSL Bounded Model Checking Method
Institute of Scientific and Technical Information of China (English)
YU Lei; ZHAO Zongtao
2012-01-01
SAT-based bounded model checking （BMC） is introduced as an important complementary technique to OBDD-based symbolic model checking, and is an efficient verification method for parallel and reactive systems. However, until now the properties verified by bounded model checking are very finite. Temporal logic PSL is a property specification language （IEEE-1850） describing parallel systems and is divided into two parts, i.e. the linear time logic FL and the branch time logic OBE. In this paper, the specification checked by BMC is extended to PSL and its algorithm is also proposed. Firstly, define the bounded semantics of PSL, and then reduce the bounded semantics into SAT by translating PSL specification formula and the state transition relation of the system to the propositional formula A and B, respectively. Finally, verify the satisfiability of the conjunction propositional formula of A and B. The algorithm results in the translation of the existential model checking of the temporal logic PSL into the satisfiability problem of propositional formula. An example of a queue controlling circuit is used to interpret detailedly the executing procedure of the algorithm.
Bounded relative motion under zonal harmonics perturbations
Baresi, Nicola; Scheeres, Daniel J.
2017-04-01
The problem of finding natural bounded relative trajectories between the different units of a distributed space system is of great interest to the astrodynamics community. This is because most popular initialization methods still fail to establish long-term bounded relative motion when gravitational perturbations are involved. Recent numerical searches based on dynamical systems theory and ergodic maps have demonstrated that bounded relative trajectories not only exist but may extend up to hundreds of kilometers, i.e., well beyond the reach of currently available techniques. To remedy this, we introduce a novel approach that relies on neither linearized equations nor mean-to-osculating orbit element mappings. The proposed algorithm applies to rotationally symmetric bodies and is based on a numerical method for computing quasi-periodic invariant tori via stroboscopic maps, including extra constraints to fix the average of the nodal period and RAAN drift between two consecutive equatorial plane crossings of the quasi-periodic solutions. In this way, bounded relative trajectories of arbitrary size can be found with great accuracy as long as these are allowed by the natural dynamics and the physical constraints of the system (e.g., the surface of the gravitational attractor). This holds under any number of zonal harmonics perturbations and for arbitrary time intervals as demonstrated by numerical simulations about an Earth-like planet and the highly oblate primary of the binary asteroid (66391) 1999 KW4.
Concerns on Monotonic Imbalance Bounding Matching Methods
Yatracos, Yannis G.
2013-01-01
Concerns are expressed for the Monotonic Imbalance Bounding (MIB) property (Iacus et al. 2011) and for MIB matching because i) the definition of the MIB property leads to inconsistencies and the nature of the imbalance measure is not clearly defined, ii) MIB property does not generalize Equal Percent Bias Reducing (EPBR) property, iii) MIB matching does not provide statistical information available with EPBR matching.
Combined perturbation bounds:Ⅱ.Polar decompositions
Institute of Scientific and Technical Information of China (English)
2007-01-01
In this paper,we study the perturbation bounds for the polar decomposition A=QH where Q is unitary and H is Hermitian.The optimal （asymptotic） bounds obtained in previous works for the unitary factor,the Hermitian factor and singular values of A areσr2||ΔQ||F2≤||ΔA||F2, 1/2||ΔH||F2≤||ΔA||F2 and ||Δ∑||F2≤||ΔA||F2,respectively,where∑=diag（σ1,σ2,...,σr,0,...,0） is the singular value matrix of A andσr denotes the smallest nonzero singular value.Here we present some new combined （asymptotic） perturbation boundsσr2||ΔQ||F2+1/2||ΔH||F2≤||ΔA||F2 andσr2||ΔQ||F2+||Δ∑||F2≤||ΔA||F2 which are optimal for each factor.Some corresponding absolute perturbation bounds are also given.
Lower bounds for polynomials using geometric programming
Ghasemi, Mehdi
2011-01-01
We make use of a result of Hurwitz and Reznick, and a consequence of this result due to Fidalgo and Kovacec, to determine a new sufficient condition for a polynomial $f\\in\\mathbb{R}[X_1,...,X_n]$ of even degree to be a sum of squares. This result generalizes a result of Lasserre and a result of Fidalgo and Kovacec, and it also generalizes the improvements of these results given in [6]. We apply this result to obtain a new lower bound $f_{gp}$ for $f$, and we explain how $f_{gp}$ can be computed using geometric programming. The lower bound $f_{gp}$ is generally not as good as the lower bound $f_{sos}$ introduced by Lasserre and Parrilo and Sturmfels, which is computed using semidefinite programming, but a run time comparison shows that, in practice, the computation of $f_{gp}$ is much faster. The computation is simplest when the highest degree term of $f$ has the form $\\sum_{i=1}^n a_iX_i^{2d}$, $a_i>0$, $i=1,...,n$. The lower bounds for $f$ established in [6] are obtained by evaluating the objective function ...
Properties of Excitons Bound to Ionized Donors
DEFF Research Database (Denmark)
Skettrup, Torben; Suffczynski, M.; Gorzkowski, W.
1971-01-01
Binding energies, interparticle distances, oscillator strengths, and exchange corrections are calculated for the three-particle complex corresponding to an exciton bound to an ionized donor. The results are given as functions of the mass ratio of the electron and hole. Binding of the complex is o...
Qp-spaces on bounded symmetric domains
Directory of Open Access Journals (Sweden)
Jonathan Arazy
2008-01-01
Full Text Available We generalize the theory of Qp spaces, introduced on the unit disc in 1995 by Aulaskari, Xiao and Zhao, to bounded symmetric domains in Cd, as well as to analogous Moebius-invariant function spaces and Bloch spaces defined using higher order derivatives; the latter generalization contains new results even in the original context of the unit disc.
Covariant Entropy Bound and Padmanabhan's Emergent Paradigm
Hadi, H; Darabi, F
2016-01-01
The covariant entropy conjecture is invariant under time reversal and consequently its origin must be statistical rather than thermodynamical. This may impose a fundamental constraint on the number of degrees of freedom in nature. Indeed, the covariant entropy bound imposes an upper entropy bound for any physical system. Considering a cosmological system, we show that Padmanabhan's emergent paradigm, which indicates that the emergence of cosmic space is due to the discrepancy between the surface and bulk degrees of freedom, leads to a lower entropy bound. The lower and upper entropy bounds may coincide on the apparent horizon for the radiation field and dark energy with the equations of state $\\omega=\\frac{1}{3}$ and $\\omega=-1$, respectively. Moreover, the maximal entropy inside the apparent horizon occurs when it is filled completely by the radiation field or dark energy. It turns out that for dark energy case (pure de Sitter space)\\ the holographic principle is satisfied in the sense that the number of deg...
A cosmological bound on radiative neutrino lifetime
Mirizzi, A.; Montanino, D.; Serpico, P. D.
2008-07-01
Neutrino oscillation experiments and direct bounds on absolute masses constrain neutrino mass differences to fall into the microwave energy range, for most of the allowed parameter space. As a consequence of these recent phenomenological advances, older constraints on radiative neutrino decays based on diffuse background radiations and assuming strongly hierarchical masses in the eV range are now outdated. We thus derive new bounds on the radiative neutrino lifetime using the high precision cosmic microwave background spectral data collected by the FIRAS instrument on board of COBE. The lower bound on neutrino lifetime is between a few ×1019 s and ~ 5 × 1020 s, depending on the neutrino mass ordering and on the absolute neutrino mass scale. However, due to phase space limitations, the upper bound on the effective magnetic moment mediating the decay is not better than ~10-8 μB. We also comment about possible improvements of these limits, by means of recent diffuse infrared photon background data.
Revisiting cosmological bounds on radiative neutrino lifetime
Mirizzi, A; Serpico, Pasquale Dario
2007-01-01
Neutrino oscillation experiments and direct bounds on absolute masses constrain neutrino mass differences to fall into the microwave energy range, for most of the allowed parameter space. As a consequence of these recent phenomenological advances, older constraints on radiative neutrino decays based on diffuse background radiations and assuming strongly hierarchical masses in the eV range are now outdated. We thus derive new bounds on the radiative neutrino lifetime using the high precision cosmic microwave background spectral data collected by the FIRAS instrument on board of COBE. The lower bound on the lifetime is between a few x 10^19 s and 5 x 10^20 s, depending on the neutrino mass ordering and on the absolute mass scale. However, due to phase space limitations, the upper bound in terms of the effective magnetic moment mediating the decay is not better than ~ 10^-8 Bohr magnetons. We also comment about possible improvements of these limits, by means of recent diffuse infrared photon background data. We ...
New Spectral Features from Bound Dark Matter
DEFF Research Database (Denmark)
Catena, Riccardo; Kouvaris, Chris
2016-01-01
We demonstrate that dark matter particles gravitationally bound to the Earth can induce a characteristic nuclear recoil signal at low energies in direct detection experiments. The new spectral feature we predict can provide the ultimate smoking gun for dark matter discovery for experiments...
Lower Bound for Visual Cryptography Schemes
Cheraghi, Abbas
2007-01-01
For a given visual cryptography scheme, it is possible to present a basis matrices for it and most of constructions are based on basis matrices. In this paper we introduce a lower bound for the pixel expansion of visual cryptography schemes with basis matrices. To make the main theorem more flexible, we will introduce a lower bound based on induced matchings of hypergraph of qualified sets. As an application, we present an algebraic proof for the fact that the pixel expansion of basis matrices of any $k$ out of $k$ scheme is at least $2^{k-1}$. In the sequel, we present a lower bound for the pixel expansion of a given graph access structure in term of maximum number of edges in an induced matching. Finally, we show that the minimum pixel expansion of basis matrices of graph access structure $P_n$ is exactly $\\lceil \\frac{n+1}{2}\\rceil$ and this shows the lower bound mentioned in the main theorem is sharp.
Astegno, Alessandra; Allegrini, Alessandra; Piccoli, Stefano; Giorgetti, Alejandro; Dominici, Paola
2015-01-01
In recent years, there has been increased interest in bacterial methionine biosynthesis enzymes as antimicrobial targets because of their pivotal role in cell metabolism. C-S lyase from Corynebacterium diphtheriae is a pyridoxal 5'-phosphate-dependent enzyme in the transsulfuration pathway that catalyzes the α,β-elimination of sulfur-containing amino acids, such as L-cystathionine, to generate ammonia, pyruvate, and homocysteine, the immediate precursor of L-methionine. In order to gain deeper insight into the functional and dynamic properties of the enzyme, mutants of two highly conserved active-site residues, Y55F and Y114F, were characterized by UV-visible absorbance, fluorescence, and CD spectroscopy in the absence and presence of substrates and substrate analogs, as well as by steady-state kinetic studies. Substitution of Tyr55 with Phe apparently causes a 130-fold decrease in K(d)(PLP) at pH 8.5 providing evidence that Tyr55 plays a role in cofactor binding. Moreover, spectral data show that the mutant accumulates the external aldimine intermediate suggesting that the absence of interaction between the hydroxyl moiety and PLP-binding residue Lys222 causes a decrease in the rate of substrate deprotonation. Mutation of Tyr114 with Phe slightly influences hydrolysis of L-cystathionine, and causes a change in substrate specificity towards L-serine and O-acetyl-L-serine compared to the wild type enzyme. These findings, together with computational data, provide useful insights in the substrate specificity of C-S lyase, which seems to be regulated by active-site architecture and by the specific conformation in which substrates are bound, and will aid in development of inhibitors.
Sharp Bounds for Symmetric and Asymmetric Diophantine Approximation
Institute of Scientific and Technical Information of China (English)
Cornelis KRAAIKAMP; Ionica SMEETS
2011-01-01
In 2004,Tong found bounds for the approximation quality of a regular continued fraction convergent to a rational number,expressed in bounds for both the previous and next approximation.The authors sharpen his results with a geometric method and give both sharp upper and lower bounds.The asymptotic frequencies that these bounds occur are also calculated.
Self-Powered Functional Device Using On-Chip Power Generation
Hussain, Muhammad Mustafa
2012-01-26
An apparatus, system, and method for a self-powered device using on-chip power generation. In some embodiments, the apparatus includes a substrate, a power generation module on the substrate, and a power storage module on the substrate. The power generation module may include a thermoelectric generator made of bismuth telluride.
Ultrasound-Enhanced Biogas Production from Different Substrates
DEFF Research Database (Denmark)
González-Fernández, Cristina; Timmers, Rudolphus Antonius; Ruiz, Begona
2015-01-01
Among the biofuel production processes using different substrates, the biogas generation process is one of the simplest. Compared with bioethanol or biodiesel production processes, anaerobic digestion is a process where all the organic matter (carbohydrates, lipids and proteins) can be biologically...... production. The present chapter is dedicated to providing a review of ultrasound pretreatment applied to different substrates (lignocelullosic materials, manures, sludge and microalgae). The advantages and constraints, that ultrasound pretreatment exhibit towards biogas production, are discussed and compared...... degraded for methane production. Biological degradations of those polymeric substrates are carried out by several enzymes during the first stage of hydrolysis. Nevertheless, due to the substrates physical state, microbial degradation is frequently hampered. Substrate pretreatment enhances the performance...
Afzal, Muhammad Imran; Lee, Yong Tak
2016-01-01
Von Neumann and Wigner theorized bounding of asymmetric eigenstates and anti-crossing of symmetric eigenstates. Experiments have shown that owing to anti-crossing and similar radiation rates, graphene-like resonance of inhomogeneously strained photonic eigenstates can generate pseudomagnetic field, bandgaps and Landau levels, while dissimilar rates induce non-Hermicity. Here, we showed experimentally higher-order supersymmetry and quantum phase transitions by resonance between similar one dimensional lattices. The lattices consisted of inhomgeneously strain-like phases of triangular solitons. The resonance created two dimensional inhomogeneously deformed photonic graphene. All parent eigenstates are annihilated. Where eigenstates of mildly strained solitons are annihilated with similar (power law) rates through one tail only and generated Hermitianally bounded eigenstates. The strongly strained solitons, positive defects are annihilated exponentially through both tails with dissimilar rates. Which bounded eig...
Substrate vibrations during courtship in three Drosophila species.
Directory of Open Access Journals (Sweden)
Valerio Mazzoni
Full Text Available While a plethora of studies have focused on the role of visual, chemical and near-field airborne signals in courtship of Drosophila fruit flies, the existence of substrate-borne vibrational signals has been almost completely overlooked. Here we describe substrate vibrations generated during courtship in three species of the D. melanogaster group, from the allegedly mute species D. suzukii, its sister species D. biarmipes, and from D. melanogaster. In all species, we recorded several types of substrate vibrations which were generated by locomotion, abdominal vibrations and most likely through the activity of thoracic wing muscles. In D. melanogaster and D. suzukii, all substrate vibrations described in intact males were also recorded in males with amputated wings. Evidence suggests that vibrational signalling may be widespread among Drosophila species, and fruit flies may provide an ideal model to study various aspects of this widespread form of animal communication.
Bounded sets in the range of an X∗∗-valued measure with bounded variation
B. Marchena; Piñeiro, C.
2000-01-01
Let X be a Banach space and A⊂X an absolutely convex, closed, and bounded set. We give some sufficient and necessary conditions in order that A lies in the range of a measure valued in the bidual space X∗∗ and having bounded variation. Among other results, we prove that X∗ is a G. T.-space if and only if A lies inside the range of some X∗∗-valued measure with bounded variation whenever XA is isomorphic to a Hilbert space.
Directory of Open Access Journals (Sweden)
Zeljko M Svedružić
Full Text Available BACKGROUND: We describe molecular processes that can facilitate pathogenesis of Alzheimer's disease (AD by analyzing the catalytic cycle of a membrane-imbedded protease γ-secretase, from the initial interaction with its C99 substrate to the final release of toxic Aβ peptides. RESULTS: The C-terminal AICD fragment is cleaved first in a pre-steady-state burst. The lowest Aβ42/Aβ40 ratio is observed in pre-steady-state when Aβ40 is the dominant product. Aβ42 is produced after Aβ40, and therefore Aβ42 is not a precursor for Aβ40. The longer more hydrophobic Aβ products gradually accumulate with multiple catalytic turnovers as a result of interrupted catalytic cycles. Saturation of γ-secretase with its C99 substrate leads to 30% decrease in Aβ40 with concomitant increase in the longer Aβ products and Aβ42/Aβ40 ratio. To different degree the same changes in Aβ products can be observed with two mutations that lead to an early onset of AD, ΔE9 and G384A. Four different lines of evidence show that γ-secretase can bind and cleave multiple substrate molecules in one catalytic turnover. Consequently depending on its concentration, NotchΔE substrate can activate or inhibit γ-secretase activity on C99 substrate. Multiple C99 molecules bound to γ-secretase can affect processive cleavages of the nascent Aβ catalytic intermediates and facilitate their premature release as the toxic membrane-imbedded Aβ-bundles. CONCLUSIONS: Gradual saturation of γ-secretase with its substrate can be the pathogenic process in different alleged causes of AD. Thus, competitive inhibitors of γ-secretase offer the best chance for a successful therapy, while the noncompetitive inhibitors could even facilitate development of the disease by inducing enzyme saturation at otherwise sub-saturating substrate. Membrane-imbedded Aβ-bundles generated by γ-secretase could be neurotoxic and thus crucial for our understanding of the amyloid hypothesis and AD
Ngo, Ho-Phuong-Thuy; Ho, Thien-Hoang; Lee, Inho; Tran, Huyen-Thi; Sur, Bookyo; Kim, Seunghwan; Kim, Jeong-Gu; Ahn, Yeh-Jin; Cha, Sun-Shin; Kang, Lin-Woo
2016-10-05
Xanthomonas oryzae pv. oryzae (Xoo) causes bacterial blight on rice; this species is one of the most destructive pathogenic bacteria in rice cultivation worldwide. Peptide deformylase (PDF) catalyzes the removal of the N-formyl group from the N-terminus of newly synthesized polypeptides in bacterial cells and is an important target to develop antibacterial agents. We determined crystal structures of Xoo PDF (XoPDF) at up to 1.9 Å resolution, which include apo, two substrate-bound (methionine-alanine or methionine-alanine-serine), an inhibitor-bound (actinonin), and six fragment chemical-bound structures. Six fragment chemical compounds were bound in the substrate-binding pocket. The fragment chemical-bound structures were compared to the natural PDF inhibitor actinonin-bound structure. The fragment chemical molecules will be useful to design an inhibitor specific to XoPDF and a potential pesticide against Xoo.
A cellular glass substrate solar concentrator
Bedard, R.; Bell, D.
1980-01-01
The design of a second generation point focusing solar concentration is discussed. The design is based on reflective gores fabricated of thin glass mirror bonded continuously to a contoured substrate of cellular glass. The concentrator aperture and structural stiffness was optimized for minimum concentrator cost given the performance requirement of delivering 56 kWth to a 22 cm diameter receiver aperture with a direct normal insolation of 845 watts sq m and an operating wind of 50 kmph. The reflective panel, support structure, drives, foundation and instrumentation and control subsystem designs, optimized for minimum cost, are summarized. The use of cellular glass as a reflective panel substrate material is shown to offer significant weight and cost advantages compared to existing technology materials.
Sound Waves Levitate Substrates
Lee, M. C.; Wang, T. G.
1982-01-01
System recently tested uses acoustic waves to levitate liquid drops, millimeter-sized glass microballoons, and other objects for coating by vapor deposition or capillary attraction. Cylindrical contactless coating/handling facility employs a cylindrical acoustic focusing radiator and a tapered reflector to generate a specially-shaped standing wave pattern. Article to be processed is captured by the acoustic force field under the reflector and moves as reflector is moved to different work stations.
Kilinc, Devrim; Blasiak, Agata; O'Mahony, James J.; Lee, Gil U.
2014-11-01
Growth cones, dynamic structures at axon tips, integrate chemical and physical stimuli and translate them into coordinated axon behaviour, e.g., elongation or turning. External force application to growth cones directs and enhances axon elongation in vitro; however, direct mechanical stimulation is rarely combined with chemotactic stimulation. We describe a microfluidic device that exposes isolated cortical axons to gradients of diffusing and substrate-bound molecules, and permits the simultaneous application of piconewton (pN) forces to multiple individual growth cones via magnetic tweezers. Axons treated with Y-27632, a RhoA kinase inhibitor, were successfully towed against Semaphorin 3A gradients, which repel untreated axons, with less than 12 pN acting on a small number of neural cell adhesion molecules. Treatment with Y-27632 or monastrol, a kinesin-5 inhibitor, promoted axon towing on substrates coated with chondroitin sulfate proteoglycans, potent axon repellents. Thus, modulating key molecular pathways that regulate contractile stress generation in axons counteracts the effects of repellent molecules and promotes tension-induced growth. The demonstration of parallel towing of axons towards inhibitory environments with minute forces suggests that mechanochemical stimulation may be a promising therapeutic approach for the repair of the damaged central nervous system, where regenerating axons face repellent factors over-expressed in the glial scar.
Mode structure of planar optical antennas on dielectric substrates.
Word, Robert C; Könenkamp, Rolf
2016-08-08
We report a numerical study, supported by photoemission electron microscopy (PEEM), of sub-micron planar optical antennas on transparent substrate. We find these antennas generate intricate near-field spatial field distributions with odd and even numbers of nodes. We show that the field distributions are primarily superpositions of planar surface plasmon polariton modes confined to the metal/substrate interface. The mode structure provides opportunities for coherent switching and optical control in sub-micron volumes.
Ultrasound-Enhanced Biogas Production from Different Substrates
DEFF Research Database (Denmark)
González-Fernández, Cristina; Timmers, Rudolphus Antonius; Ruiz, Begona
2015-01-01
Among the biofuel production processes using different substrates, the biogas generation process is one of the simplest. Compared with bioethanol or biodiesel production processes, anaerobic digestion is a process where all the organic matter (carbohydrates, lipids and proteins) can be biologically...... production. The present chapter is dedicated to providing a review of ultrasound pretreatment applied to different substrates (lignocelullosic materials, manures, sludge and microalgae). The advantages and constraints, that ultrasound pretreatment exhibit towards biogas production, are discussed and compared...
Conductance Anisotropy in Epitaxial Graphene Sheets Generated by Substrate Interactions
2010-01-01
0001) semi-insulating sub- strates with resistivity greater than 105 ohm -cm. After growth, the samples were characterized using Nomarski interference...Trans. 2009, 19, 117–124. (15) Emtsev, K. V.; Bostwick, A.; Horn, K.; Jobst, J.; Kellogg, G. L.; Ley , L.; McChesney, J. L.; Ohta, T.; Reshanov, S. A
Long, Xiangyu; Tang, Ran; Fang, Zhendong; Xie, Chaoxin; Li, Yongqin; Xian, Guang
2017-09-22
Extracellular polymeric substances (EPS) have be founded to participate in the process of enhanced biological phosphorus removal (EBPR), but the exact role of EPS in EBPR process is unclear. In this work, the roles of loosely-bound EPS (LB-EPS), tightly-bound EPS (TB-EPS) and microbial cell in EBPR were explored, taking the activated sludge from 4 lab-scale A/O-SBR reactors with different temperatures and organic substrates as objects. It was founded that the P of EBPR activated sludge was mainly stored in TB-EPS, but the P of non-EBPR activated sludge was primarily located in microbial cell. The P release and uptake of EBPR activated sludge was attributed to the combined action of TB-EPS and microbial cell. Furthermore, TB-EPS played an more important role than microbial cell in EBPR process. With the analysis of (31)P NMR spectroscopy, both polyP and orthoP were the main phosphorus species of TB-EPS in EBPR sludge, but only orthoP was the main phosphorus species of LB-EPS and microbial cell. During the anaerobic-aerobic cycle, the roles of LB-EPS, TB-EPS and microbial cell in transfer and transformation of P in EBPR sludge were obviously different. LB-EPS transported and retained orthoP, and microbial cell directly anaerobically released or aerobically absorbed orthoP. Importantly, TB-EPS not only transported and retained orthoP, but also participated in biological phosphorus accumulation. The EBPR performance of sludge was closely related with the polyp in TB-EPS, which might be synthesized and decomposed by extracellular enzyme. Copyright © 2017 Elsevier Ltd. All rights reserved.
Reinforcement Learning with Bounded Information Loss
Peters, Jan; Mülling, Katharina; Seldin, Yevgeny; Altun, Yasemin
2011-03-01
Policy search is a successful approach to reinforcement learning. However, policy improvements often result in the loss of information. Hence, it has been marred by premature convergence and implausible solutions. As first suggested in the context of covariant or natural policy gradients, many of these problems may be addressed by constraining the information loss. In this paper, we continue this path of reasoning and suggest two reinforcement learning methods, i.e., a model-based and a model free algorithm that bound the loss in relative entropy while maximizing their return. The resulting methods differ significantly from previous policy gradient approaches and yields an exact update step. It works well on typical reinforcement learning benchmark problems as well as novel evaluations in robotics. We also show a Bayesian bound motivation of this new approach [8].
Empirical processes with bounded \\psi_1 diameter
Mendelson, Shahar
2010-01-01
We study the empirical process indexed by F^2=\\{f^2 : f \\in F\\}, where F is a class of mean-zero functions on a probability space. We present a sharp bound on the supremum of that process which depends on the \\psi_1 diameter of the class F (rather than on the \\psi_2 one) and on the complexity parameter \\gamma_2(F,\\psi_2). In addition, we present optimal bounds on the random diameters \\sup_{f \\in F} \\max_{|I|=m} (\\sum_{i \\in I} f^2(X_i))^{1/2} using the same parameters. As applications, we extend several well known results in Asymptotic Geometric Analysis to any isotropic, log-concave ensemble on R^n.
Mutual Information Rate and Bounds for It
Baptista, Murilo S.; Rubinger, Rero M.; Viana, Emilson R.; Sartorelli, José C.; Parlitz, Ulrich; Grebogi, Celso
2012-01-01
The amount of information exchanged per unit of time between two nodes in a dynamical network or between two data sets is a powerful concept for analysing complex systems. This quantity, known as the mutual information rate (MIR), is calculated from the mutual information, which is rigorously defined only for random systems. Moreover, the definition of mutual information is based on probabilities of significant events. This work offers a simple alternative way to calculate the MIR in dynamical (deterministic) networks or between two time series (not fully deterministic), and to calculate its upper and lower bounds without having to calculate probabilities, but rather in terms of well known and well defined quantities in dynamical systems. As possible applications of our bounds, we study the relationship between synchronisation and the exchange of information in a system of two coupled maps and in experimental networks of coupled oscillators. PMID:23112809