Lu, Chao; Li, Xubin; Wu, Dongsheng; Zheng, Lianqing; Yang, Wei
2016-01-12
In aqueous solution, solute conformational transitions are governed by intimate interplays of the fluctuations of solute-solute, solute-water, and water-water interactions. To promote molecular fluctuations to enhance sampling of essential conformational changes, a common strategy is to construct an expanded Hamiltonian through a series of Hamiltonian perturbations and thereby broaden the distribution of certain interactions of focus. Due to a lack of active sampling of configuration response to Hamiltonian transitions, it is challenging for common expanded Hamiltonian methods to robustly explore solvent mediated rare conformational events. The orthogonal space sampling (OSS) scheme, as exemplified by the orthogonal space random walk and orthogonal space tempering methods, provides a general framework for synchronous acceleration of slow configuration responses. To more effectively sample conformational transitions in aqueous solution, in this work, we devised a generalized orthogonal space tempering (gOST) algorithm. Specifically, in the Hamiltonian perturbation part, a solvent-accessible-surface-area-dependent term is introduced to implicitly perturb near-solute water-water fluctuations; more importantly in the orthogonal space response part, the generalized force order parameter is generalized as a two-dimension order parameter set, in which essential solute-solvent and solute-solute components are separately treated. The gOST algorithm is evaluated through a molecular dynamics simulation study on the explicitly solvated deca-alanine (Ala10) peptide. On the basis of a fully automated sampling protocol, the gOST simulation enabled repetitive folding and unfolding of the solvated peptide within a single continuous trajectory and allowed for detailed constructions of Ala10 folding/unfolding free energy surfaces. The gOST result reveals that solvent cooperative fluctuations play a pivotal role in Ala10 folding/unfolding transitions. In addition, our assessment
International Nuclear Information System (INIS)
Kozameh, C.N.; Newman, E.T.; Tod, K.P.
1985-01-01
Conformal transformations in four-dimensional. In particular, a new set of two necessary and sufficient conditions for a space to be conformal to an Einstein space is presented. The first condition defines the class of spaces conformal to C spaces, whereas the last one (the vanishing of the Bach tensor) gives the particular subclass of C spaces which are conformally related to Einstein spaces. (author)
Conformal field theory in conformal space
International Nuclear Information System (INIS)
Preitschopf, C.R.; Vasiliev, M.A.
1999-01-01
We present a new framework for a Lagrangian description of conformal field theories in various dimensions based on a local version of d + 2-dimensional conformal space. The results include a true gauge theory of conformal gravity in d = (1, 3) and any standard matter coupled to it. An important feature is the automatic derivation of the conformal gravity constraints, which are necessary for the analysis of the matter systems
Enhanced conformational sampling using enveloping distribution sampling.
Lin, Zhixiong; van Gunsteren, Wilfred F
2013-10-14
To lessen the problem of insufficient conformational sampling in biomolecular simulations is still a major challenge in computational biochemistry. In this article, an application of the method of enveloping distribution sampling (EDS) is proposed that addresses this challenge and its sampling efficiency is demonstrated in simulations of a hexa-β-peptide whose conformational equilibrium encompasses two different helical folds, i.e., a right-handed 2.7(10∕12)-helix and a left-handed 3(14)-helix, separated by a high energy barrier. Standard MD simulations of this peptide using the GROMOS 53A6 force field did not reach convergence of the free enthalpy difference between the two helices even after 500 ns of simulation time. The use of soft-core non-bonded interactions in the centre of the peptide did enhance the number of transitions between the helices, but at the same time led to neglect of relevant helical configurations. In the simulations of a two-state EDS reference Hamiltonian that envelops both the physical peptide and the soft-core peptide, sampling of the conformational space of the physical peptide ensures that physically relevant conformations can be visited, and sampling of the conformational space of the soft-core peptide helps to enhance the transitions between the two helices. The EDS simulations sampled many more transitions between the two helices and showed much faster convergence of the relative free enthalpy of the two helices compared with the standard MD simulations with only a slightly larger computational effort to determine optimized EDS parameters. Combined with various methods to smoothen the potential energy surface, the proposed EDS application will be a powerful technique to enhance the sampling efficiency in biomolecular simulations.
Focused conformational sampling in proteins
Bacci, Marco; Langini, Cassiano; Vymětal, Jiří; Caflisch, Amedeo; Vitalis, Andreas
2017-11-01
A detailed understanding of the conformational dynamics of biological molecules is difficult to obtain by experimental techniques due to resolution limitations in both time and space. Computer simulations avoid these in theory but are often too short to sample rare events reliably. Here we show that the progress index-guided sampling (PIGS) protocol can be used to enhance the sampling of rare events in selected parts of biomolecules without perturbing the remainder of the system. The method is very easy to use as it only requires as essential input a set of several features representing the parts of interest sufficiently. In this feature space, new states are discovered by spontaneous fluctuations alone and in unsupervised fashion. Because there are no energetic biases acting on phase space variables or projections thereof, the trajectories PIGS generates can be analyzed directly in the framework of transition networks. We demonstrate the possibility and usefulness of such focused explorations of biomolecules with two loops that are part of the binding sites of bromodomains, a family of epigenetic "reader" modules. This real-life application uncovers states that are structurally and kinetically far away from the initial crystallographic structures and are also metastable. Representative conformations are intended to be used in future high-throughput virtual screening campaigns.
Zheng, Lianqing; Chen, Mengen; Yang, Wei
2009-06-21
To overcome the pseudoergodicity problem, conformational sampling can be accelerated via generalized ensemble methods, e.g., through the realization of random walks along prechosen collective variables, such as spatial order parameters, energy scaling parameters, or even system temperatures or pressures, etc. As usually observed, in generalized ensemble simulations, hidden barriers are likely to exist in the space perpendicular to the collective variable direction and these residual free energy barriers could greatly abolish the sampling efficiency. This sampling issue is particularly severe when the collective variable is defined in a low-dimension subset of the target system; then the "Hamiltonian lagging" problem, which reveals the fact that necessary structural relaxation falls behind the move of the collective variable, may be likely to occur. To overcome this problem in equilibrium conformational sampling, we adopted the orthogonal space random walk (OSRW) strategy, which was originally developed in the context of free energy simulation [L. Zheng, M. Chen, and W. Yang, Proc. Natl. Acad. Sci. U.S.A. 105, 20227 (2008)]. Thereby, generalized ensemble simulations can simultaneously escape both the explicit barriers along the collective variable direction and the hidden barriers that are strongly coupled with the collective variable move. As demonstrated in our model studies, the present OSRW based generalized ensemble treatments show improved sampling capability over the corresponding classical generalized ensemble treatments.
Quantifying polypeptide conformational space: sensitivity to conformation and ensemble definition.
Sullivan, David C; Lim, Carmay
2006-08-24
Quantifying the density of conformations over phase space (the conformational distribution) is needed to model important macromolecular processes such as protein folding. In this work, we quantify the conformational distribution for a simple polypeptide (N-mer polyalanine) using the cumulative distribution function (CDF), which gives the probability that two randomly selected conformations are separated by less than a "conformational" distance and whose inverse gives conformation counts as a function of conformational radius. An important finding is that the conformation counts obtained by the CDF inverse depend critically on the assignment of a conformation's distance span and the ensemble (e.g., unfolded state model): varying ensemble and conformation definition (1 --> 2 A) varies the CDF-based conformation counts for Ala(50) from 10(11) to 10(69). In particular, relatively short molecular dynamics (MD) relaxation of Ala(50)'s random-walk ensemble reduces the number of conformers from 10(55) to 10(14) (using a 1 A root-mean-square-deviation radius conformation definition) pointing to potential disconnections in comparing the results from simplified models of unfolded proteins with those from all-atom MD simulations. Explicit waters are found to roughen the landscape considerably. Under some common conformation definitions, the results herein provide (i) an upper limit to the number of accessible conformations that compose unfolded states of proteins, (ii) the optimal clustering radius/conformation radius for counting conformations for a given energy and solvent model, (iii) a means of comparing various studies, and (iv) an assessment of the applicability of random search in protein folding.
A probabilistic model of RNA conformational space
DEFF Research Database (Denmark)
Frellsen, Jes; Moltke, Ida; Thiim, Martin
2009-01-01
efficient sampling of RNA conformations in continuous space, and with associated probabilities. We show that the model captures several key features of RNA structure, such as its rotameric nature and the distribution of the helix lengths. Furthermore, the model readily generates native-like 3-D......, the discrete nature of the fragments necessitates the use of carefully tuned, unphysical energy functions, and their non-probabilistic nature impairs unbiased sampling. We offer a solution to the sampling problem that removes these important limitations: a probabilistic model of RNA structure that allows......The increasing importance of non-coding RNA in biology and medicine has led to a growing interest in the problem of RNA 3-D structure prediction. As is the case for proteins, RNA 3-D structure prediction methods require two key ingredients: an accurate energy function and a conformational sampling...
Twistor space, Minkowski space and the conformal group
International Nuclear Information System (INIS)
Broek, P.M. van den
1983-01-01
It is shown that the conformal group of compactified Minkowski space is isomorphic to a group of rays of semilinear transformations of twistor space. The action of the conformal group on twistor space is given by an explicit realisation of this isomorphism. In this way we determine the transformation of twistor space under space inversion and time inversion. (orig.)
Conformal maps between pseudo-Finsler spaces
Voicu, Nicoleta
The paper aims to initiate a systematic study of conformal mappings between Finsler spacetimes and, more generally, between pseudo-Finsler spaces. This is done by extending several results in pseudo-Riemannian geometry which are necessary for field-theoretical applications and by proposing a technique that reduces some problems involving pseudo-Finslerian conformal vector fields to their pseudo-Riemannian counterparts. Also, we point out, by constructing classes of examples, that conformal groups of flat (locally Minkowskian) pseudo-Finsler spaces can be much richer than both flat Finslerian and pseudo-Euclidean conformal groups.
Twistor space, Minkowski space and the conformal group
van den Broek, P.M.
1983-01-01
It is shown that the conformal group of compactified Minkowski space is isomorphic to a group of rays of semilinear transformations of twistor space. The action of the conformal group on twistor space is given by an explicit realisation of this isomorphism. In this way we determine the
Conformal deformation of Riemann space and torsion
International Nuclear Information System (INIS)
Pyzh, V.M.
1981-01-01
Method for investigating conformal deformations of Riemann spaces using torsion tensor, which permits to reduce the second ' order equations for Killing vectors to the system of the first order equations, is presented. The method is illustrated using conformal deformations of dimer sphere as an example. A possibility of its use when studying more complex deformations is discussed [ru
Conformally compactified homogeneous spaces (Possible Observable Consequences)
International Nuclear Information System (INIS)
Budinich, P.
1995-01-01
Some arguments based on the possible spontaneous violation of the Cosmological Principles (represented by the observed large-scale structures of galaxies), the Cartan-geometry of simple spinors and on the Fock-formulation of hydrogen-atom wave-equation in momentum-space, are presented in favour of the hypothesis that space-time and momentum-space should be both conformally compactified and represented by the two four-dimensional homogeneous spaces of the conformal group, both isomorphic to (S 3 X S 1 )/Z 2 and correlated by conformal inversion. Within this framework, the possible common origin for the S0(4) symmetry underlying the geometrical structure of the Universe, of Kepler orbits and of the H-atom is discussed. On of the consequences of the proposed hypothesis could be that any quantum field theory should be naturally free from both infrared and ultraviolet divergences. But then physical spaces defined as those where physical phenomena may be best described, could be different from those homogeneous spaces. A simple, exactly soluble, toy model, valid for a two-dimensional space-time is presented where the conjecture conformally compactified space-time and momentum-space are both isomorphic to (S 1 X S 1 )/Z 2 , while the physical spaces are two finite lattice which are dual since Fourier transforms, represented by finite, discrete, sums may be well defined on them. Furthermore, a q-deformed SU q (1,1) may be represented on them if q is a root of unity. (author). 22 refs, 3 figs
Moduli spaces of unitary conformal field theories
International Nuclear Information System (INIS)
Wendland, K.
2000-08-01
We investigate various features of moduli spaces of unitary conformal field theories. A geometric characterization of rational toroidal conformal field theories in arbitrary dimensions is presented and discussed in relation to singular tori and those with complex multiplication. We study the moduli space M 2 of unitary two-dimensional conformal field theories with central charge c = 2. All the 26 non-exceptional non-isolated irreducible components of M 2 are constructed that may be obtained by an orbifold procedure from toroidal theories. The parameter spaces and partition functions are calculated explicitly. All multicritical points and lines are determined, such that all but three of these 26 components are directly or indirectly connected to the space of toroidal theories in M 2 . Relating our results to those by Dixon, Ginsparg, Harvey on the classification of c = 3/2 superconformal field theories, we give geometric interpretations to all non-isolated orbifolds discussed by them and correct their statements on multicritical points within the moduli space of c = 3/2 superconformal field theories. In the main part of this work, we investigate the moduli space M of N = (4, 4) superconformal field theories with central charge c = 6. After a slight emendation of its global description we give generic partition functions for models contained in M. We explicitly determine the locations of various known models in the component of M associated to K3 surfaces
Sampling Realistic Protein Conformations Using Local Structural Bias
DEFF Research Database (Denmark)
Hamelryck, Thomas Wim; Kent, John T.; Krogh, A.
2006-01-01
The prediction of protein structure from sequence remains a major unsolved problem in biology. The most successful protein structure prediction methods make use of a divide-and-conquer strategy to attack the problem: a conformational sampling method generates plausible candidate structures, which...... are subsequently accepted or rejected using an energy function. Conceptually, this often corresponds to separating local structural bias from the long-range interactions that stabilize the compact, native state. However, sampling protein conformations that are compatible with the local structural bias encoded...... in a given protein sequence is a long-standing open problem, especially in continuous space. We describe an elegant and mathematically rigorous method to do this, and show that it readily generates native-like protein conformations simply by enforcing compactness. Our results have far-reaching implications...
Application of Conformational Space Search in Drug Action | Adikwu ...
African Journals Online (AJOL)
The role of conformational space in drug action is presented. Two examples of molecules in different therapeutic groups are presented. Conformational space search will lead to isolating the exact conformation with the desired medicinal properties. Many conformations of a plant isolate may exist which are active, weakly ...
A probabilistic model of RNA conformational space
DEFF Research Database (Denmark)
Frellsen, Jes; Moltke, Ida; Thiim, Martin
2009-01-01
, the discrete nature of the fragments necessitates the use of carefully tuned, unphysical energy functions, and their non-probabilistic nature impairs unbiased sampling. We offer a solution to the sampling problem that removes these important limitations: a probabilistic model of RNA structure that allows...... conformations for 9 out of 10 test structures, solely using coarse-grained base-pairing information. In conclusion, the method provides a theoretical and practical solution for a major bottleneck on the way to routine prediction and simulation of RNA structure and dynamics in atomic detail.......The increasing importance of non-coding RNA in biology and medicine has led to a growing interest in the problem of RNA 3-D structure prediction. As is the case for proteins, RNA 3-D structure prediction methods require two key ingredients: an accurate energy function and a conformational sampling...
Implications of conformal invariance in momentum space
Bzowski, Adam; McFadden, Paul; Skenderis, Kostas
2014-03-01
We present a comprehensive analysis of the implications of conformal invariance for 3-point functions of the stress-energy tensor, conserved currents and scalar operators in general dimension and in momentum space. Our starting point is a novel and very effective decomposition of tensor correlators which reduces their computation to that of a number of scalar form factors. For example, the most general 3-point function of a conserved and traceless stress-energy tensor is determined by only five form factors. Dilatations and special conformal Ward identities then impose additional conditions on these form factors. The special conformal Ward identities become a set of first and second order differential equations, whose general solution is given in terms of integrals involving a product of three Bessel functions (`triple- K integrals'). All in all, the correlators are completely determined up to a number of constants, in agreement with well-known position space results. In odd dimensions 3-point functions are finite without renormalisation while in even dimensions non-trivial renormalisation in required. In this paper we restrict ourselves to odd dimensions. A comprehensive analysis of renormalisation will be discussed elsewhere. This paper contains two parts that can be read independently of each other. In the first part, we explain the method that leads to the solution for the correlators in terms of triple- K integrals while the second part contains a self-contained presentation of all results. Readers interested only in results may directly consult the second part of the paper.
Conformal symmetry in two-dimensional space: recursion representation of conformal block
International Nuclear Information System (INIS)
Zamolodchikov, A.B.
1988-01-01
The four-point conformal block plays an important part in the analysis of the conformally invariant operator algebra in two-dimensional space. The behavior of the conformal block is calculated in the present paper in the limit in which the dimension Δ of the intermediate operator tends to infinity. This makes it possible to construct a recursion relation for this function that connects the conformal block at arbitrary Δ to the blocks corresponding to the dimensions of the zero vectors in the degenerate representations of the Virasoro algebra. The relation is convenient for calculating the expansion of the conformal block in powers of the uniformizing parameters q = i π tau
Kniss, Andreas; Schuetz, Denise; Kazemi, Sina; Pluska, Lukas; Spindler, Philipp E; Rogov, Vladimir V; Husnjak, Koraljka; Dikic, Ivan; Güntert, Peter; Sommer, Thomas; Prisner, Thomas F; Dötsch, Volker
2018-02-06
Ubiquitination is the most versatile posttranslational modification. The information is encoded by linkage type as well as chain length, which are translated by ubiquitin binding domains into specific signaling events. Chain topology determines the conformational space of a ubiquitin chain and adds an additional regulatory layer to this ubiquitin code. In particular, processes that modify chain length will be affected by chain conformations as they require access to the elongation or cleavage sites. We investigated conformational distributions in the context of chain elongation and disassembly using pulsed electron-electron double resonance spectroscopy in combination with molecular modeling. Analysis of the conformational space of diubiquitin revealed conformational selection or remodeling as mechanisms for chain recognition during elongation or hydrolysis, respectively. Chain elongation to tetraubiquitin increases the sampled conformational space, suggesting that a high intrinsic flexibility of K48-linked chains may contribute to efficient proteasomal degradation. Copyright © 2017 Elsevier Ltd. All rights reserved.
Truncated conformal space approach to scaling Lee-Yang model
International Nuclear Information System (INIS)
Yurov, V.P.; Zamolodchikov, Al.B.
1989-01-01
A numerical approach to 2D relativstic field theories is suggested. Considering a field theory model as an ultraviolet conformal field theory perturbed by suitable relevant scalar operator one studies it in finite volume (on a circle). The perturbed Hamiltonian acts in the conformal field theory space of states and its matrix elements can be extracted from the conformal field theory. Truncation of the space at reasonable level results in a finite dimensional problem for numerical analyses. The nonunitary field theory with the ultraviolet region controlled by the minimal conformal theory μ(2/5) is studied in detail. 9 refs.; 17 figs
Conformal anomalies in curved space--time
Energy Technology Data Exchange (ETDEWEB)
Duncan, A.
1976-11-01
The general form of the conformal anomaly in a dimensionally regularized theory of massless fermions in a background metric is shown to be determined by the first few terms of weak field perturbation theory.
Conformal higher spin scattering amplitudes from twistor space
Energy Technology Data Exchange (ETDEWEB)
Adamo, Tim [Blackett Laboratory, Imperial College, London, SW7 2AZ (United Kingdom); Hähnel, Philipp; McLoughlin, Tristan [School of Mathematics, Trinity College Dublin, College Green, Dublin 2 (Ireland)
2017-04-04
We use the formulation of conformal higher spin (CHS) theories in twistor space to study their tree-level scattering amplitudes, finding expressions for all three-point (MHV)-bar amplitudes and all MHV amplitudes involving positive helicity conformal gravity particles and two negative helicity higher spins. This provides the on-shell analogue for the covariant coupling of CHS fields to a conformal gravity background. We discuss the restriction of the theory to a ghost-free unitary subsector, analogous to restricting conformal gravity to general relativity with a cosmological constant. We study the flat-space limit and show that the restricted amplitudes vanish, supporting the conjecture that in the unitary sector the S-matrix of CHS theories is trivial. However, by appropriately rescaling the amplitudes we find non-vanishing results which we compare with chiral flat-space higher spin theories.
Conformal higher spin scattering amplitudes from twistor space
International Nuclear Information System (INIS)
Adamo, Tim; Hähnel, Philipp; McLoughlin, Tristan
2017-01-01
We use the formulation of conformal higher spin (CHS) theories in twistor space to study their tree-level scattering amplitudes, finding expressions for all three-point (MHV)-bar amplitudes and all MHV amplitudes involving positive helicity conformal gravity particles and two negative helicity higher spins. This provides the on-shell analogue for the covariant coupling of CHS fields to a conformal gravity background. We discuss the restriction of the theory to a ghost-free unitary subsector, analogous to restricting conformal gravity to general relativity with a cosmological constant. We study the flat-space limit and show that the restricted amplitudes vanish, supporting the conjecture that in the unitary sector the S-matrix of CHS theories is trivial. However, by appropriately rescaling the amplitudes we find non-vanishing results which we compare with chiral flat-space higher spin theories.
Improvements to robotics-inspired conformational sampling in rosetta.
Directory of Open Access Journals (Sweden)
Amelie Stein
Full Text Available To accurately predict protein conformations in atomic detail, a computational method must be capable of sampling models sufficiently close to the native structure. All-atom sampling is difficult because of the vast number of possible conformations and extremely rugged energy landscapes. Here, we test three sampling strategies to address these difficulties: conformational diversification, intensification of torsion and omega-angle sampling and parameter annealing. We evaluate these strategies in the context of the robotics-based kinematic closure (KIC method for local conformational sampling in Rosetta on an established benchmark set of 45 12-residue protein segments without regular secondary structure. We quantify performance as the fraction of sub-Angstrom models generated. While improvements with individual strategies are only modest, the combination of intensification and annealing strategies into a new "next-generation KIC" method yields a four-fold increase over standard KIC in the median percentage of sub-Angstrom models across the dataset. Such improvements enable progress on more difficult problems, as demonstrated on longer segments, several of which could not be accurately remodeled with previous methods. Given its improved sampling capability, next-generation KIC should allow advances in other applications such as local conformational remodeling of multiple segments simultaneously, flexible backbone sequence design, and development of more accurate energy functions.
Projective invariants in a conformal finsler space - I
International Nuclear Information System (INIS)
Mishra, C.K.; Singh, M.P.
1989-12-01
The projective invariants in a conformal Finsler space have been studied in regard to certain tensor and scalar which are invariant under projective transformation in a Finsler space. They have been the subject of further investigation by the present authors. (author). 8 refs
Exploring perturbative conformal field theory in Mellin space
Energy Technology Data Exchange (ETDEWEB)
Nizami, Amin A. [International Centre for Theoretical Sciences, TIFR,Hesaraghatta, Hubli, Bengaluru-560089 (India); Rudra, Arnab [Center for Quantum Mathematics and Physics (QMAP), Department of Physics,University of California, Davis, 1 Shields Ave, Davis, CA 95616 (United States); Sarkar, Sourav [Institut für Mathematik und Institut für Physik, Humboldt-Universität zu Berlin, IRIS-Adlershof,Zum Großen Windkanal 6, 12489 Berlin (Germany); Max-Planck-Institut für Gravitationsphysik, Albert-Einstein-Institut,Am Mühlenberg 1, 14476 Potsdam (Germany); Verma, Mritunjay [International Centre for Theoretical Sciences, TIFR,Hesaraghatta, Hubli, Bengaluru-560089 (India); Harish-Chandra Research Institute,Chhatnag Road, Jhunsi, Allahabad-211019 (India)
2017-01-24
We explore the Mellin representation of correlation functions in conformal field theories in the weak coupling regime. We provide a complete proof for a set of Feynman rules to write the Mellin amplitude for a general tree level Feynman diagram involving only scalar operators. We find a factorised form involving beta functions associated to the propagators, similar to tree level Feynman rules in momentum space for ordinary QFTs. We also briefly consider the case where a generic scalar perturbation of the free CFT breaks conformal invariance. Mellin space still has some utility and one can consider non-conformal Mellin representations. In this context, we find that the beta function corresponding to conformal propagator uplifts to a hypergeometric function.
Entanglement entropy from the truncated conformal space
Directory of Open Access Journals (Sweden)
T. Palmai
2016-08-01
Full Text Available A new numerical approach to entanglement entropies of the Rényi type is proposed for one-dimensional quantum field theories. The method extends the truncated conformal spectrum approach and we will demonstrate that it is especially suited to study the crossover from massless to massive behavior when the subsystem size is comparable to the correlation length. We apply it to different deformations of massless free fermions, corresponding to the scaling limit of the Ising model in transverse and longitudinal fields. For massive free fermions the exactly known crossover function is reproduced already in very small system sizes. The new method treats ground states and excited states on the same footing, and the applicability for excited states is illustrated by reproducing Rényi entropies of low-lying states in the transverse field Ising model.
Protein Loop Structure Prediction Using Conformational Space Annealing.
Heo, Seungryong; Lee, Juyong; Joo, Keehyoung; Shin, Hang-Cheol; Lee, Jooyoung
2017-05-22
We have developed a protein loop structure prediction method by combining a new energy function, which we call E PLM (energy for protein loop modeling), with the conformational space annealing (CSA) global optimization algorithm. The energy function includes stereochemistry, dynamic fragment assembly, distance-scaled finite ideal gas reference (DFIRE), and generalized orientation- and distance-dependent terms. For the conformational search of loop structures, we used the CSA algorithm, which has been quite successful in dealing with various hard global optimization problems. We assessed the performance of E PLM with two widely used loop-decoy sets, Jacobson and RAPPER, and compared the results against the DFIRE potential. The accuracy of model selection from a pool of loop decoys as well as de novo loop modeling starting from randomly generated structures was examined separately. For the selection of a nativelike structure from a decoy set, E PLM was more accurate than DFIRE in the case of the Jacobson set and had similar accuracy in the case of the RAPPER set. In terms of sampling more nativelike loop structures, E PLM outperformed E DFIRE for both decoy sets. This new approach equipped with E PLM and CSA can serve as the state-of-the-art de novo loop modeling method.
Massless fields in curved space-time: The conformal formalism
International Nuclear Information System (INIS)
Castagnino, M.A.; Sztrajman, J.B.
1986-01-01
A conformally invariant theory for massless quantum fields in curved space-time is formulated. We analyze the cases of spin-0, - 1/2 , and -1. The theory is developed in the important case of an ''expanding universe,'' generalizing the particle model of ''conformal transplantation'' known for spin-0 to spins- 1/2 and -1. For the spin-1 case two methods introducing new conformally invariant gauge conditions are stated, and a problem of inconsistency that was stated for spin-1 is overcome
Revisiting the conformal invariance of the scalar field: From Minkowski space to de Sitter space
International Nuclear Information System (INIS)
Huguet, E.; Queva, J.; Renaud, J.
2008-01-01
In this article, we clarify the link between the conformal (i.e. Weyl) correspondence from the Minkowski space to the de Sitter space and the conformal [i.e. SO(2,d)] invariance of the conformal scalar field on both spaces. We exhibit the realization on de Sitter space of the massless scalar representation of SO(2,d). It is obtained from the corresponding representation in Minkowski space through an intertwining operator inherited from the Weyl relation between the two spaces. The de Sitter representation is written in a form which allows one to take the point of view of a Minkowskian observer who sees the effect of curvature through additional terms
Energy Technology Data Exchange (ETDEWEB)
Ahn, Surl-Hee; Grate, Jay W.; Darve, Eric F.
2017-08-21
Molecular dynamics (MD) simulations are useful in obtaining thermodynamic and kinetic properties of bio-molecules but are limited by the timescale barrier, i.e., we may be unable to efficiently obtain properties because we need to run microseconds or longer simulations using femtoseconds time steps. While there are several existing methods to overcome this timescale barrier and efficiently sample thermodynamic and/or kinetic properties, problems remain in regard to being able to sample un- known systems, deal with high-dimensional space of collective variables, and focus the computational effort on slow timescales. Hence, a new sampling method, called the “Concurrent Adaptive Sampling (CAS) algorithm,” has been developed to tackle these three issues and efficiently obtain conformations and pathways. The method is not constrained to use only one or two collective variables, unlike most reaction coordinate-dependent methods. Instead, it can use a large number of collective vari- ables and uses macrostates (a partition of the collective variable space) to enhance the sampling. The exploration is done by running a large number of short simula- tions, and a clustering technique is used to accelerate the sampling. In this paper, we introduce the new methodology and show results from two-dimensional models and bio-molecules, such as penta-alanine and triazine polymer
Hao, Xiaohu; Zhang, Guijun; Zhou, Xiaogen
2018-04-01
Computing conformations which are essential to associate structural and functional information with gene sequences, is challenging due to the high dimensionality and rugged energy surface of the protein conformational space. Consequently, the dimension of the protein conformational space should be reduced to a proper level, and an effective exploring algorithm should be proposed. In this paper, a plug-in method for guiding exploration in conformational feature space with Lipschitz underestimation (LUE) for ab-initio protein structure prediction is proposed. The conformational space is converted into ultrafast shape recognition (USR) feature space firstly. Based on the USR feature space, the conformational space can be further converted into Underestimation space according to Lipschitz estimation theory for guiding exploration. As a consequence of the use of underestimation model, the tight lower bound estimate information can be used for exploration guidance, the invalid sampling areas can be eliminated in advance, and the number of energy function evaluations can be reduced. The proposed method provides a novel technique to solve the exploring problem of protein conformational space. LUE is applied to differential evolution (DE) algorithm, and metropolis Monte Carlo(MMC) algorithm which is available in the Rosetta; When LUE is applied to DE and MMC, it will be screened by the underestimation method prior to energy calculation and selection. Further, LUE is compared with DE and MMC by testing on 15 small-to-medium structurally diverse proteins. Test results show that near-native protein structures with higher accuracy can be obtained more rapidly and efficiently with the use of LUE. Copyright © 2018 Elsevier Ltd. All rights reserved.
Theoretical investigation of the conformational space of baicalin.
Martínez Medina, Juan J; Ferrer, Evelina G; Williams, Patricia A M; Okulik, Nora B
2017-09-01
Flavonoids are a large group of polyphenolic compounds ubiquitously present in plants. They are important components of human diet. They are recognized as potential drug candidates to be used in the treatment and prevention of a lot of pathological disorders, due to their protective effects. Baicalin (7-glucuronic acid 5, 6-dihydroxyflavone) is one of the main single active constituents isolated from the dried roots of Scutellaria baicalensis Georgi. The great interest on this flavonoid is due to its various pharmacological properties, such as antioxidant, antimicrobial, anti-inflammatory, anticancer and so on, and its high accumulation in the roots of S. baicalensis. The aim of our work was to analyze the geometric and electronic properties of baicalin conformers (BCL), thus performing a complete search on the conformational space of this flavonoid in gas phase and in aqueous solution. The results indicate that the conformational space of baicalin is formed by eight conformers in gas phase and five conformers in aqueous solution optimized at B3LYP/6-311++G** theory level. BCLa2 TT and BCLa1 TT conformers have low stability in gas phase and very high stability in aqueous solution. This variation is related to a modification in the τ 1 angle that represents the relative position of the glucuronide unit respect to the central rings of the flavan nucleus (A and C). This modification was successfully explained by examining the changes in the hydrogen bond (HB) interactions that occur in the region around the hydroxyl group located in position 6 of ring A. Besides, the molecular electrostatic potential (MEP) and frontier molecular orbital (FMO) analyses indicate that BCLa2 TT and BCLa1 TT conformers are the most favorable conformers for interacting with positively charged species (such as metal ions) in aqueous media (such as biological fluids). Copyright © 2017 Elsevier Inc. All rights reserved.
Energy Technology Data Exchange (ETDEWEB)
Rauscher, Sarah; Pomes, Regis, E-mail: pomes@sickkids.ca
2010-11-01
Simulated tempering distributed replica sampling (STDR) is a generalized-ensemble method designed specifically for simulations of large molecular systems on shared and heterogeneous computing platforms [Rauscher, Neale and Pomes (2009) J. Chem. Theor. Comput. 5, 2640]. The STDR algorithm consists of an alternation of two steps: (1) a short molecular dynamics (MD) simulation; and (2) a stochastic temperature jump. Repeating these steps thousands of times results in a random walk in temperature, which allows the system to overcome energetic barriers, thereby enhancing conformational sampling. The aim of the present paper is to provide a practical guide to applying STDR to complex biomolecular systems. We discuss the details of our STDR implementation, which is a highly-parallel algorithm designed to maximize computational efficiency while simultaneously minimizing network communication and data storage requirements. Using a 35-residue disordered peptide in explicit water as a test system, we characterize the efficiency of the STDR algorithm with respect to both diffusion in temperature space and statistical convergence of structural properties. Importantly, we show that STDR provides a dramatic enhancement of conformational sampling compared to a canonical MD simulation.
Towse, Clare-Louise; Akke, Mikael; Daggett, Valerie
2017-04-27
Molecular dynamics (MD) simulations contain considerable information with regard to the motions and fluctuations of a protein, the magnitude of which can be used to estimate conformational entropy. Here we survey conformational entropy across protein fold space using the Dynameomics database, which represents the largest existing data set of protein MD simulations for representatives of essentially all known protein folds. We provide an overview of MD-derived entropies accounting for all possible degrees of dihedral freedom on an unprecedented scale. Although different side chains might be expected to impose varying restrictions on the conformational space that the backbone can sample, we found that the backbone entropy and side chain size are not strictly coupled. An outcome of these analyses is the Dynameomics Entropy Dictionary, the contents of which have been compared with entropies derived by other theoretical approaches and experiment. As might be expected, the conformational entropies scale linearly with the number of residues, demonstrating that conformational entropy is an extensive property of proteins. The calculated conformational entropies of folding agree well with previous estimates. Detailed analysis of specific cases identifies deviations in conformational entropy from the average values that highlight how conformational entropy varies with sequence, secondary structure, and tertiary fold. Notably, α-helices have lower entropy on average than do β-sheets, and both are lower than coil regions.
Structural alphabets derived from attractors in conformational space
Directory of Open Access Journals (Sweden)
Kleinjung Jens
2010-02-01
Full Text Available Abstract Background The hierarchical and partially redundant nature of protein structures justifies the definition of frequently occurring conformations of short fragments as 'states'. Collections of selected representatives for these states define Structural Alphabets, describing the most typical local conformations within protein structures. These alphabets form a bridge between the string-oriented methods of sequence analysis and the coordinate-oriented methods of protein structure analysis. Results A Structural Alphabet has been derived by clustering all four-residue fragments of a high-resolution subset of the protein data bank and extracting the high-density states as representative conformational states. Each fragment is uniquely defined by a set of three independent angles corresponding to its degrees of freedom, capturing in simple and intuitive terms the properties of the conformational space. The fragments of the Structural Alphabet are equivalent to the conformational attractors and therefore yield a most informative encoding of proteins. Proteins can be reconstructed within the experimental uncertainty in structure determination and ensembles of structures can be encoded with accuracy and robustness. Conclusions The density-based Structural Alphabet provides a novel tool to describe local conformations and it is specifically suitable for application in studies of protein dynamics.
QCD-instantons and conformal space-time inversion symmetry
International Nuclear Information System (INIS)
Klammer, D.
2008-04-01
In this paper, we explore the appealing possibility that the strong suppression of large-size QCD instantons - as evident from lattice data - is due to a surviving conformal space-time inversion symmetry. This symmetry is both suggested from the striking invariance of highquality lattice data for the instanton size distribution under inversion of the instanton size ρ→(left angle ρ right angle 2 )/(ρ) and from the known validity of space-time inversion symmetry in the classical instanton sector. We project the instanton calculus onto the four-dimensional surface of a five-dimensional sphere via conformal stereographic mapping, before investigating conformal inversion. This projection to a compact, curved geometry is both to avoid the occurence of divergences and to introduce the average instanton size left angle ρ right angle from the lattice data as a new length scale. The average instanton size is identified with the radius b of this 5d-sphere and acts as the conformal inversion radius. For b= left angle ρ right angle, our corresponding results are almost perfectly symmetric under space-time inversion and in good qualitative agreement with the lattice data. For (ρ)/(b)→0 we recover the familiar results of instanton perturbation theory in flat 4d-space. Moreover, we illustrate that a (weakly broken) conformal inversion symmetry would have significant consequences for QCD beyond instantons. As a further successful test for inversion symmetry, we present striking implications for another instanton dominated lattice observable, the chirality-flip ratio in the QCD vacuum. (orig.)
Conformal higher spin theory and twistor space actions
Hähnel, Philipp; McLoughlin, Tristan
2017-12-01
We consider the twistor description of conformal higher spin theories and give twistor space actions for the self-dual sector of theories with spin greater than two that produce the correct flat space-time spectrum. We identify a ghost-free subsector, analogous to the embedding of Einstein gravity with cosmological constant in Weyl gravity, which generates the unique spin-s three-point anti-MHV amplitude consistent with Poincaré invariance and helicity constraints. By including interactions between the infinite tower of higher-spin fields we give a geometric interpretation to the twistor equations of motion as the integrability condition for a holomorphic structure on an infinite jet bundle. Finally, we conjecture anti-self-dual interaction terms which give an implicit definition of a twistor action for the full conformal higher spin theory.
Conformally flat spaces and solutions to Yang-Mills equations
International Nuclear Information System (INIS)
Chaohao, G.
1980-01-01
Using the conformal invariance of Yang-Mills equations in four-dimensional manifolds, it is proved that in a simply connected space of negative constant curvature Yang-Mills equations admit solutions with any real number as their Pontryagin number. It is also shown that the space S 3 x S 1 which is the regular counterpart of the meron solution is one example of a class of solutions to Yang-Mills equations on compact manifolds that are neither self-dual nor anti-self-dual
Null geodesic deviation II. Conformally flat space--times
International Nuclear Information System (INIS)
Peters, P.C.
1975-01-01
The equation of geodesic deviation is solved in conformally flat space--time in a covariant manner. The solution is given as an integral equation for general geodesics. The solution is then used to evaluate second derivatives of the world function and derivatives of the parallel propagator, which need to be known in order to find the Green's function for wave equations in curved space--time. A method of null geodesic limits of two-point functions is discussed, and used to find the scalar Green's function as an iterative series
Conformity Assessment in Nuclear Material and Environmental Sample Analysis
International Nuclear Information System (INIS)
Aregbe, Y.; Jakopic, R.; Richter, S.; Venchiarutti, C.
2015-01-01
Safeguards conclusions are based to a large extent on comparison of measurement results between operator and safeguards laboratories. Measurement results must state traceability and uncertainties to be comparable. Recent workshops held at the IAEA and in the frame of the European Safeguards Research and Development Association (ESARDA), reviewed different approaches for Nuclear Material Balance Evaluation (MBE). Among those, the ''bottom-up'' approach requires assessment of operators and safeguards laboratories measurement systems and capabilities. Therefore, inter-laboratory comparisons (ILCs) with independent reference values provided for decades by JRC-IRMM, CEA/CETAMA and US DOE are instrumental to shed light on the current state of practice in measurements of nuclear material and environmental swipe samples. Participating laboratories are requested to report the measurement results with associated uncertainties, and have the possibility to benchmark those results against independent and traceable reference values. The measurement capability of both the IAEA Network of Analytical Laboratories (NWAL) and the nuclear operator's analytical services participating in ILCs can be assessed against the independent reference values as well as against internationally agreed quality goals, in compliance with ISO 13528:2005. The quality goals for nuclear material analysis are the relative combined standard uncertainties listed in the ITV2010. Concerning environmental swipe sample analysis, the IAEA defined measurement quality goals applied in conformity assessment. The paper reports examples from relevant inter-laboratory comparisons, looking at laboratory performance according to the purpose of the measurement and the possible use of the result in line with the IUPAC International Harmonized Protocol. Tendencies of laboratories to either overestimate and/or underestimate uncertainties are discussed using straightforward graphical tools to evaluate
Conformational sampling in template-free protein loop structure modeling: an overview.
Li, Yaohang
2013-01-01
Accurately modeling protein loops is an important step to predict three-dimensional structures as well as to understand functions of many proteins. Because of their high flexibility, modeling the three-dimensional structures of loops is difficult and is usually treated as a "mini protein folding problem" under geometric constraints. In the past decade, there has been remarkable progress in template-free loop structure modeling due to advances of computational methods as well as stably increasing number of known structures available in PDB. This mini review provides an overview on the recent computational approaches for loop structure modeling. In particular, we focus on the approaches of sampling loop conformation space, which is a critical step to obtain high resolution models in template-free methods. We review the potential energy functions for loop modeling, loop buildup mechanisms to satisfy geometric constraints, and loop conformation sampling algorithms. The recent loop modeling results are also summarized.
CONFORMATIONAL SAMPLING IN TEMPLATE-FREE PROTEIN LOOP STRUCTURE MODELING: AN OVERVIEW
Directory of Open Access Journals (Sweden)
Yaohang Li
2013-02-01
Full Text Available Accurately modeling protein loops is an important step to predict three-dimensional structures as well as to understand functions of many proteins. Because of their high flexibility, modeling the three-dimensional structures of loops is difficult and is usually treated as a “mini protein folding problem” under geometric constraints. In the past decade, there has been remarkable progress in template-free loop structure modeling due to advances of computational methods as well as stably increasing number of known structures available in PDB. This mini review provides an overview on the recent computational approaches for loop structure modeling. In particular, we focus on the approaches of sampling loop conformation space, which is a critical step to obtain high resolution models in template-free methods. We review the potential energy functions for loop modeling, loop buildup mechanisms to satisfy geometric constraints, and loop conformation sampling algorithms. The recent loop modeling results are also summarized.
Thach, Trung Thanh; Shin, Donghyuk; Han, Seungsu; Lee, Sangho
2016-04-01
The conformational flexibility of linkage-specific polyubiquitin chains enables ubiquitylated proteins and their receptors to be involved in a variety of cellular processes. Linear or Met1-linked polyubiquitin chains, associated with nondegradational cellular signalling pathways, have been known to adopt multiple conformations from compact to extended conformations. However, the extent of such conformational flexibility remains open. Here, the crystal structure of linear Ub2 was determined in a more compact conformation than that of the previously known structure (PDB entry 3axc). The two structures differ significantly from each other, as shown by an r.m.s.d. between C(α) atoms of 3.1 Å. The compactness of the linear Ub2 structure in comparison with PDB entry 3axc is supported by smaller values of the radius of gyration (Rg; 18 versus 18.9 Å) and the maximum interatomic distance (Dmax; 55.5 versus 57.8 Å). Extra intramolecular hydrogen bonds formed among polar residues between the distal and proximal ubiquitin moieties seem to contribute to stabilization of the compact conformation of linear Ub2. An ensemble of three semi-extended and extended conformations of linear Ub2 was also observed by small-angle X-ray scattering (SAXS) analysis in solution. In addition, the conformational heterogeneity in linear polyubiquitin chains is clearly manifested by SAXS analyses of linear Ub3 and Ub4: at least three distinct solution conformations are observed in each chain, with the linear Ub3 conformations being compact. The results expand the extent of conformational space of linear polyubiquitin chains and suggest that changes in the conformational ensemble may be pivotal in mediating multiple signalling pathways.
Lee, Juyong; Lee, Jinhyuk; Sasaki, Takeshi N; Sasai, Masaki; Seok, Chaok; Lee, Jooyoung
2011-08-01
Ab initio protein structure prediction is a challenging problem that requires both an accurate energetic representation of a protein structure and an efficient conformational sampling method for successful protein modeling. In this article, we present an ab initio structure prediction method which combines a recently suggested novel way of fragment assembly, dynamic fragment assembly (DFA) and conformational space annealing (CSA) algorithm. In DFA, model structures are scored by continuous functions constructed based on short- and long-range structural restraint information from a fragment library. Here, DFA is represented by the full-atom model by CHARMM with the addition of the empirical potential of DFIRE. The relative contributions between various energy terms are optimized using linear programming. The conformational sampling was carried out with CSA algorithm, which can find low energy conformations more efficiently than simulated annealing used in the existing DFA study. The newly introduced DFA energy function and CSA sampling algorithm are implemented into CHARMM. Test results on 30 small single-domain proteins and 13 template-free modeling targets of the 8th Critical Assessment of protein Structure Prediction show that the current method provides comparable and complementary prediction results to existing top methods. Copyright © 2011 Wiley-Liss, Inc.
Field theories on conformally related space-times: Some global considerations
International Nuclear Information System (INIS)
Candelas, P.; Dowker, J.S.
1979-01-01
The nature of the vacua appearing in the relation between the vacuum expectation value of stress tensors in conformally flat spaces is clarified. The simple but essential point is that the relevant spaces should have conformally related global Cauchy surfaces. Some commonly occurring conformally flat space-times are divided into two families according to whether they are conformally equivalent to Minkowski space or to the Rindler wedge. Expressions, some new, are obtained for the vacuum expectation value of the stress tensor for a number of illustrative cases. It is noted that thermalization relates the Green's functions of these two families
Connections on the state-space over conformal field theories
International Nuclear Information System (INIS)
Ranganathan, K.; Sonoda, H.; Zwiebach, B.
1994-01-01
Motivated by the problem of background independence of closed string field theory we study geometry on the infinite vector bundle of local fields over the space of conformal field theories (CFTs). With any connection we can associate an excluded domain D for the integral of marginal operators, and an operator one-form ω μ . The pair (D, ω μ ) determines the covariant derivative of any correlator of local fields. We obtain interesting classes of connections in which ω μ 's can be written in terms of CFT data. For these connections we compute their curvatures in terms of four-point correlators, D, and ω μ . Among these connections three are of particular interest. A flat, metric compatible connection Γ, and connections c and c with non-vanishing curvature, with the latter metric compatible. The flat connection cannot be used to do parallel transport over a finite distance. Parallel transport with either c or c, however, allows us to construct a CFT in the state-space of another CFT a finite distance away. The construction is given in the form of perturbation theory manifestly free of divergences. (orig.)
A Mellin space approach to the conformal bootstrap
Energy Technology Data Exchange (ETDEWEB)
Gopakumar, Rajesh [International Centre for Theoretical Sciences (ICTS-TIFR),Survey No. 151, Shivakote, Hesaraghatta Hobli, Bangalore North 560 089 (India); Kaviraj, Apratim [Centre for High Energy Physics, Indian Institute of Science,C.V. Raman Avenue, Bangalore 560012 (India); Sen, Kallol [Centre for High Energy Physics, Indian Institute of Science,C.V. Raman Avenue, Bangalore 560012 (India); Kavli Institute for the Physics and Mathematics of the Universe (WPI),The University of Tokyo Institutes for Advanced Study, Kashiwa, Chiba 277-8583 (Japan); Sinha, Aninda [Centre for High Energy Physics, Indian Institute of Science,C.V. Raman Avenue, Bangalore 560012 (India)
2017-05-05
We describe in more detail our approach to the conformal bootstrap which uses the Mellin representation of CFT{sub d} four point functions and expands them in terms of crossing symmetric combinations of AdS{sub d+1} Witten exchange functions. We consider arbitrary external scalar operators and set up the conditions for consistency with the operator product expansion. Namely, we demand cancellation of spurious powers (of the cross ratios, in position space) which translate into spurious poles in Mellin space. We discuss two contexts in which we can immediately apply this method by imposing the simplest set of constraint equations. The first is the epsilon expansion. We mostly focus on the Wilson-Fisher fixed point as studied in an epsilon expansion about d=4. We reproduce Feynman diagram results for operator dimensions to O(ϵ{sup 3}) rather straightforwardly. This approach also yields new analytic predictions for OPE coefficients to the same order which fit nicely with recent numerical estimates for the Ising model (at ϵ=1). We will also mention some leading order results for scalar theories near three and six dimensions. The second context is a large spin expansion, in any dimension, where we are able to reproduce and go a bit beyond some of the results recently obtained using the (double) light cone expansion. We also have a preliminary discussion about numerical implementation of the above bootstrap scheme in the absence of a small parameter.
Hao, Xiao-Hu; Zhang, Gui-Jun; Zhou, Xiao-Gen; Yu, Xu-Feng
2016-01-01
To address the searching problem of protein conformational space in ab-initio protein structure prediction, a novel method using abstract convex underestimation (ACUE) based on the framework of evolutionary algorithm was proposed. Computing such conformations, essential to associate structural and functional information with gene sequences, is challenging due to the high-dimensionality and rugged energy surface of the protein conformational space. As a consequence, the dimension of protein conformational space should be reduced to a proper level. In this paper, the high-dimensionality original conformational space was converted into feature space whose dimension is considerably reduced by feature extraction technique. And, the underestimate space could be constructed according to abstract convex theory. Thus, the entropy effect caused by searching in the high-dimensionality conformational space could be avoided through such conversion. The tight lower bound estimate information was obtained to guide the searching direction, and the invalid searching area in which the global optimal solution is not located could be eliminated in advance. Moreover, instead of expensively calculating the energy of conformations in the original conformational space, the estimate value is employed to judge if the conformation is worth exploring to reduce the evaluation time, thereby making computational cost lower and the searching process more efficient. Additionally, fragment assembly and the Monte Carlo method are combined to generate a series of metastable conformations by sampling in the conformational space. The proposed method provides a novel technique to solve the searching problem of protein conformational space. Twenty small-to-medium structurally diverse proteins were tested, and the proposed ACUE method was compared with It Fix, HEA, Rosetta and the developed method LEDE without underestimate information. Test results show that the ACUE method can more rapidly and more
Infinitesimal conformal closed transformations of de Sitter and Robertson-Walker cosmological spaces
International Nuclear Information System (INIS)
Sakoto, Moussa
1976-01-01
The infinitesimal conformal closed transfromations of de Sitter and Robertson-Walker cosmological spaces are determined and an interesting property of the current lines for Robertson-Walker spaces is given [fr
Conformal quantum mechanics and holography in noncommutative space-time
Gupta, Kumar S.; Harikumar, E.; Zuhair, N. S.
2017-09-01
We analyze the effects of noncommutativity in conformal quantum mechanics (CQM) using the κ-deformed space-time as a prototype. Up to the first order in the deformation parameter, the symmetry structure of the CQM algebra is preserved but the coupling in a canonical model of the CQM gets deformed. We show that the boundary conditions that ensure a unitary time evolution in the noncommutative CQM can break the scale invariance, leading to a quantum mechanical scaling anomaly. We calculate the scaling dimensions of the two and three point functions in the noncommutative CQM which are shown to be deformed. The AdS2 / CFT1 duality for the CQM suggests that the corresponding correlation functions in the holographic duals are modified. In addition, the Breitenlohner-Freedman bound also picks up a noncommutative correction. The strongly attractive regime of a canonical model of the CQM exhibit quantum instability. We show that the noncommutativity softens this singular behaviour and its implications for the corresponding holographic duals are discussed.
Micropolar Fluids Using B-spline Divergence Conforming Spaces
Sarmiento, Adel
2014-06-06
We discretized the two-dimensional linear momentum, microrotation, energy and mass conservation equations from micropolar fluids theory, with the finite element method, creating divergence conforming spaces based on B-spline basis functions to obtain pointwise divergence free solutions [8]. Weak boundary conditions were imposed using Nitsche\\'s method for tangential conditions, while normal conditions were imposed strongly. Once the exact mass conservation was provided by the divergence free formulation, we focused on evaluating the differences between micropolar fluids and conventional fluids, to show the advantages of using the micropolar fluid model to capture the features of complex fluids. A square and an arc heat driven cavities were solved as test cases. A variation of the parameters of the model, along with the variation of Rayleigh number were performed for a better understanding of the system. The divergence free formulation was used to guarantee an accurate solution of the flow. This formulation was implemented using the framework PetIGA as a basis, using its parallel stuctures to achieve high scalability. The results of the square heat driven cavity test case are in good agreement with those reported earlier.
Annaix, Véronique; Rogowski, Julien; Joyau, Mireille; Jaouën, Edtih
2011-01-01
The non-conformity management is required for the ISO 15189 standard. The laboratory of medical biology has to carry out suitable acts and procedures to exploit different indicators through the framework of continuous improvement. We particularly study the indicator of biological samples nonconformities and we report 2009 results to the nurses' team managers to find solutions for quality of care to the patient.
Enhanced conformational sampling to visualize a free-energy landscape of protein complex formation.
Iida, Shinji; Nakamura, Haruki; Higo, Junichi
2016-06-15
We introduce various, recently developed, generalized ensemble methods, which are useful to sample various molecular configurations emerging in the process of protein-protein or protein-ligand binding. The methods introduced here are those that have been or will be applied to biomolecular binding, where the biomolecules are treated as flexible molecules expressed by an all-atom model in an explicit solvent. Sampling produces an ensemble of conformations (snapshots) that are thermodynamically probable at room temperature. Then, projection of those conformations to an abstract low-dimensional space generates a free-energy landscape. As an example, we show a landscape of homo-dimer formation of an endothelin-1-like molecule computed using a generalized ensemble method. The lowest free-energy cluster at room temperature coincided precisely with the experimentally determined complex structure. Two minor clusters were also found in the landscape, which were largely different from the native complex form. Although those clusters were isolated at room temperature, with rising temperature a pathway emerged linking the lowest and second-lowest free-energy clusters, and a further temperature increment connected all the clusters. This exemplifies that the generalized ensemble method is a powerful tool for computing the free-energy landscape, by which one can discuss the thermodynamic stability of clusters and the temperature dependence of the cluster networks. © 2016 The Author(s).
q-conformally covariant q-Minkowski space-time and invariant equations
International Nuclear Information System (INIS)
Dobrev, V.K.
1997-09-01
We present explicitly the covariant action of the q-conformal algebra on the q-Minkowski space we proposed earlier. We also present some q-conformally invariant equations, namely a hierarchy of q-Maxwell equations, and also a q-d'Alembert equation, proposed earlier by us, in a form different from the original . (author). 19 refs
Solution of the stationary vacuum equations of relativity for conformally flat 3-spaces
International Nuclear Information System (INIS)
Perjes, Z.; Lukacs, B.; Sebestyen, A.; Valentini, A.; Sparling, G.A.J.
1983-08-01
The solution of Einstein's vacuum gravitational equations for stationary space-times with a conformally flat 3-space is presented. There is no other solution of this problem than the Ehlers-rotation generalizations of the three conformastat space-times including the Schwarzschild metric. (author)
Local differential geometry of null curves in conformally flat space-time
International Nuclear Information System (INIS)
Urbantke, H.
1989-01-01
The conformally invariant differential geometry of null curves in conformally flat space-times is given, using the six-vector formalism which has generalizations to higher dimensions. This is then paralleled by a twistor description, with a twofold merit: firstly, sometimes the description is easier in twistor terms, sometimes in six-vector terms, which leads to a mutual enlightenment of both; and secondly, the case of null curves in timelike pseudospheres or 2+1 Minkowski space we were only able to treat twistorially, making use of an invariant differential found by Fubini and Cech. The result is the expected one: apart from stated exceptional cases there is a conformally invariant parameter and two conformally invariant curvatures which, when specified in terms of this parameter, serve to characterize the curve up to conformal transformations. 12 refs. (Author)
The Chevreton tensor and Einstein-Maxwell spacetimes conformal to Einstein spaces
International Nuclear Information System (INIS)
Bergqvist, Goeran; Eriksson, Ingemar
2007-01-01
In this paper, we characterize the source-free Einstein-Maxwell spacetimes which have a trace-free Chevreton tensor. We show that this is equivalent to the Chevreton tensor being of pure radiation type and that it restricts the spacetimes to Petrov type N or O. We prove that the trace of the Chevreton tensor is related to the Bach tensor and use this to find all Einstein-Maxwell spacetimes with a zero cosmological constant that have a vanishing Bach tensor. Among these spacetimes we then look for those which are conformal to Einstein spaces. We find that the electromagnetic field and the Weyl tensor must be aligned, and in the case that the electromagnetic field is null, the spacetime must be conformally Ricci-flat and all such solutions are known. In the non-null case, since the general solution is not known on a closed form, we settle by giving the integrability conditions in the general case, but we do give new explicit examples of Einstein-Maxwell spacetimes that are conformal to Einstein spaces, and we also find examples where the vanishing of the Bach tensor does not imply that the spacetime is conformal to a C-space. The non-aligned Einstein-Maxwell spacetimes with vanishing Bach tensor are conformally C-spaces, but none of them are conformal to Einstein spaces
Directory of Open Access Journals (Sweden)
Chao-Yie Yang
Full Text Available The interleukin-1 receptor (IL-1R is the founding member of the interleukin 1 receptor family which activates innate immune response by its binding to cytokines. Reports showed dysregulation of cytokine production leads to aberrant immune cells activation which contributes to auto-inflammatory disorders and diseases. Current therapeutic strategies focus on utilizing antibodies or chimeric cytokine biologics. The large protein-protein interaction interface between cytokine receptor and cytokine poses a challenge in identifying binding sites for small molecule inhibitor development. Based on the significant conformational change of IL-1R type 1 (IL-1R1 ectodomain upon binding to different ligands observed in crystal structures, we hypothesized that transient small molecule binding sites may exist when IL-1R1 undergoes conformational transition and thus suitable for inhibitor development. Here, we employed accelerated molecular dynamics (MD simulation to efficiently sample conformational space of IL-1R1 ectodomain. Representative IL-1R1 ectodomain conformations determined from the hierarchy cluster analysis were analyzed by the SiteMap program which leads to identify small molecule binding sites at the protein-protein interaction interface and allosteric modulator locations. The cosolvent mapping analysis using phenol as the probe molecule further confirms the allosteric modulator site as a binding hotspot. Eight highest ranked fragment molecules identified from in silico screening at the modulator site were evaluated by MD simulations. Four of them restricted the IL-1R1 dynamical motion to inactive conformational space. The strategy from this study, subject to in vitro experimental validation, can be useful to identify small molecule compounds targeting the allosteric modulator sites of IL-1R and prevent IL-1R from binding to cytokine by trapping IL-1R in inactive conformations.
International Nuclear Information System (INIS)
Vree, C; Mayr, S G
2010-01-01
The impact of free surfaces on the mobility and conformational fluctuations of model polymer chains is investigated with the help of classical molecular dynamics simulations over a broad temperature range. Below a critical temperature, T*, similar to the critical temperature of the mode coupling theory, the center-of-mass displacements and temporal fluctuations of the radius of gyration of individual chains-as a fingerprint of structural reconfigurations-reveal a strong enhancement close to surfaces, while this effect diminishes with increasing temperature and observation time. Interpreting conformational fluctuations as a random walk in conformational space, identical activation enthalpies for structural reconfigurations and diffusion are obtained within the error bars in the bulk and at the surfaces, thus indicating a coupling of diffusive and conformational dynamics.
Conformal use of retarded Green's functions for the Maxwell field in de Sitter space
International Nuclear Information System (INIS)
Faci, S.; Huguet, E.; Renaud, J.
2011-01-01
We propose a new propagation formula for the Maxwell field in de Sitter space which exploits the conformal invariance of this field together with a conformal gauge condition. This formula allows to determine the classical electromagnetic field in the de Sitter space from given currents and initial data. It only uses the Green's function of the massless Minkowskian scalar field. This leads to drastic simplifications in practical calculations. We apply this formula to the classical problem of the two charges of opposite signs at rest at the North and South Poles of the de Sitter space.
Metamaterial-Backed Conformal Antennas for Space Exploration
National Aeronautics and Space Administration — The purpose of this experiment is to demonstrate a successful X-band antenna array fabricated on a high-permittivity substrate together with bandgap metamaterials...
Quantum effects and elimination of the conformal anomaly in anisotropic space-time
International Nuclear Information System (INIS)
Grib, A.A.; Nesteruk, A.V.
1988-01-01
In homogeneous anisotropic space-time the connection between the problem of the elimination of infrared divergences and the conformal anomaly of the regularized energy-momentum tensor is studied. It is shown that removal of the infrared divergence by means of a cutoff leads to the absence of a conformal anomaly. A physical interpretation of the infrared cutoff as a shift in the particle-energy spectrum by an amount equal to the effective temperature of the gravitational field is proposed
International Nuclear Information System (INIS)
Hawking, S.W.; King, A.R.; McCarthy, P.J.
1976-01-01
A new topology is proposed for strongly causal space--times. Unlike the standard manifold topology (which merely characterizes continuity properties), the new topology determines the causal, differential, and conformal structures of space--time. The topology is more appealing, physical, and manageable than the topology previously proposed by Zeeman for Minkowski space. It thus seems that many calculations involving the above structures may be made purely topological
Rauscher, Sarah; Neale, Chris; Pomès, Régis
2009-10-13
Generalized-ensemble algorithms in temperature space have become popular tools to enhance conformational sampling in biomolecular simulations. A random walk in temperature leads to a corresponding random walk in potential energy, which can be used to cross over energetic barriers and overcome the problem of quasi-nonergodicity. In this paper, we introduce two novel methods: simulated tempering distributed replica sampling (STDR) and virtual replica exchange (VREX). These methods are designed to address the practical issues inherent in the replica exchange (RE), simulated tempering (ST), and serial replica exchange (SREM) algorithms. RE requires a large, dedicated, and homogeneous cluster of CPUs to function efficiently when applied to complex systems. ST and SREM both have the drawback of requiring extensive initial simulations, possibly adaptive, for the calculation of weight factors or potential energy distribution functions. STDR and VREX alleviate the need for lengthy initial simulations, and for synchronization and extensive communication between replicas. Both methods are therefore suitable for distributed or heterogeneous computing platforms. We perform an objective comparison of all five algorithms in terms of both implementation issues and sampling efficiency. We use disordered peptides in explicit water as test systems, for a total simulation time of over 42 μs. Efficiency is defined in terms of both structural convergence and temperature diffusion, and we show that these definitions of efficiency are in fact correlated. Importantly, we find that ST-based methods exhibit faster temperature diffusion and correspondingly faster convergence of structural properties compared to RE-based methods. Within the RE-based methods, VREX is superior to both SREM and RE. On the basis of our observations, we conclude that ST is ideal for simple systems, while STDR is well-suited for complex systems.
Conformally invariant amplitudes and field theory in a space-time of constant curvature
International Nuclear Information System (INIS)
Drummond, I.T.
1977-02-01
The problem of calculating the ultra violet divergences of a field theory in a spherical space-time is reduced to analysing the pole structure of conformally invariant integrals which are analogous to amplitudes which occur in the theory of dual models. The calculations are illustrated with phi 3 -theory in six-dimensions. (author)
Stationary vacuum fields with a conformally flat three-space Pt. 1
International Nuclear Information System (INIS)
Lukacs, B.; Perjes, Z.; Sebestyen, A.; Sparling, G.A.J.
1982-01-01
A generalized notion of conformastat space-times is introduced in relativity theory. In this sense, the conformastat space-time is stationary with the three-space of time-like Killing trajectories being conformally flat. A 3+1 decomposition of the field equations is given, and two classes of nonstatic conformastat vacuum fields are exhaustively investigated. The resulting three metrics form a NUT-type extension of the solution of the static conformastat vacuum problem. The authors conjecture that all conformastat vacuum space-times are axially symmetric. (author)
Rosa, Marta; Micciarelli, Marco; Laio, Alessandro; Baroni, Stefano
2016-09-13
We introduce a method to evaluate the relative populations of different conformers of molecular species in solution, aiming at quantum mechanical accuracy, while keeping the computational cost at a nearly molecular-mechanics level. This goal is achieved by combining long classical molecular-dynamics simulations to sample the free-energy landscape of the system, advanced clustering techniques to identify the most relevant conformers, and thermodynamic perturbation theory to correct the resulting populations, using quantum-mechanical energies from density functional theory. A quantitative criterion for assessing the accuracy thus achieved is proposed. The resulting methodology is demonstrated in the specific case of cyanin (cyanidin-3-glucoside) in water solution.
Maadooliat, Mehdi; Gao, Xin; Huang, Jianhua Z.
2012-01-01
Despite considerable progress in the past decades, protein structure prediction remains one of the major unsolved problems in computational biology. Angular-sampling-based methods have been extensively studied recently due to their ability to capture the continuous conformational space of protein structures. The literature has focused on using a variety of parametric models of the sequential dependencies between angle pairs along the protein chains. In this article, we present a thorough review of angular-sampling-based methods by assessing three main questions: What is the best distribution type to model the protein angles? What is a reasonable number of components in a mixture model that should be considered to accurately parameterize the joint distribution of the angles? and What is the order of the local sequence-structure dependency that should be considered by a prediction method? We assess the model fits for different methods using bivariate lag-distributions of the dihedral/planar angles. Moreover, the main information across the lags can be extracted using a technique called Lag singular value decomposition (LagSVD), which considers the joint distribution of the dihedral/planar angles over different lags using a nonparametric approach and monitors the behavior of the lag-distribution of the angles using singular value decomposition. As a result, we developed graphical tools and numerical measurements to compare and evaluate the performance of different model fits. Furthermore, we developed a web-tool (http://www.stat.tamu. edu/~madoliat/LagSVD) that can be used to produce informative animations. © The Author 2012. Published by Oxford University Press.
Maadooliat, Mehdi
2012-08-27
Despite considerable progress in the past decades, protein structure prediction remains one of the major unsolved problems in computational biology. Angular-sampling-based methods have been extensively studied recently due to their ability to capture the continuous conformational space of protein structures. The literature has focused on using a variety of parametric models of the sequential dependencies between angle pairs along the protein chains. In this article, we present a thorough review of angular-sampling-based methods by assessing three main questions: What is the best distribution type to model the protein angles? What is a reasonable number of components in a mixture model that should be considered to accurately parameterize the joint distribution of the angles? and What is the order of the local sequence-structure dependency that should be considered by a prediction method? We assess the model fits for different methods using bivariate lag-distributions of the dihedral/planar angles. Moreover, the main information across the lags can be extracted using a technique called Lag singular value decomposition (LagSVD), which considers the joint distribution of the dihedral/planar angles over different lags using a nonparametric approach and monitors the behavior of the lag-distribution of the angles using singular value decomposition. As a result, we developed graphical tools and numerical measurements to compare and evaluate the performance of different model fits. Furthermore, we developed a web-tool (http://www.stat.tamu. edu/~madoliat/LagSVD) that can be used to produce informative animations. © The Author 2012. Published by Oxford University Press.
Infinite-parametric extension of the conformal algebra in D>2 space-time dimension
International Nuclear Information System (INIS)
Fradkin, E.S.; Linetsky, V.Ya.
1990-09-01
On the basis of the analytic continuations of semisimple Lie algebras discovered recently by us we construct manifestly quasiconformal infinite-dimensional algebras AC(so(4,1)) and PAC(so(3,2)) extending the conformal algebras in three-dimensional Euclidean and Minkowski space-time like the Virasoro algebra extends so(2,1). Their higher spin generalizations are also constructed. A counterpart of the central extension for D>2 and possible applications in exactly solvable conformal quantum field models in D>2 are discussed. (author). 31 refs, 2 figs
On the existence of conformal Killing vectors for ST-homogeneous Godel type space-times
Energy Technology Data Exchange (ETDEWEB)
Parra, Y.; Patino, A.; Percoco, U. [Laboratorio de Fisica Teorica, Facultad de Ciencias Universidad de los Andes, Merida 5101 (Venezuela); Tsamparlis, M. [seccion de Astronomia-Astrofisica-Mecanica, Universidad de Atenas, Atenas 157 83 (Greece)
2006-07-01
Tsamparlis with another authors have developed a systematic method for computing of the conformal algebra of 1+3 space-times. The proper CKV's are found in terms of gradient CKVs of the 3-space. In this paper we apply Tsamparlis' results to the study CKVs of the Godel ST-Homogeneous type spacetimes. We find that the only space-time admitting proper CKV's is the ST-Homogeneous Godel type with m{sup 2} = 4{omega}{sup 2} (RT). (Author)
Refinement of protein termini in template-based modeling using conformational space annealing.
Park, Hahnbeom; Ko, Junsu; Joo, Keehyoung; Lee, Julian; Seok, Chaok; Lee, Jooyoung
2011-09-01
The rapid increase in the number of experimentally determined protein structures in recent years enables us to obtain more reliable protein tertiary structure models than ever by template-based modeling. However, refinement of template-based models beyond the limit available from the best templates is still needed for understanding protein function in atomic detail. In this work, we develop a new method for protein terminus modeling that can be applied to refinement of models with unreliable terminus structures. The energy function for terminus modeling consists of both physics-based and knowledge-based potential terms with carefully optimized relative weights. Effective sampling of both the framework and terminus is performed using the conformational space annealing technique. This method has been tested on a set of termini derived from a nonredundant structure database and two sets of termini from the CASP8 targets. The performance of the terminus modeling method is significantly improved over our previous method that does not employ terminus refinement. It is also comparable or superior to the best server methods tested in CASP8. The success of the current approach suggests that similar strategy may be applied to other types of refinement problems such as loop modeling or secondary structure rearrangement. Copyright © 2011 Wiley-Liss, Inc.
Conformal Nets II: Conformal Blocks
Bartels, Arthur; Douglas, Christopher L.; Henriques, André
2017-08-01
Conformal nets provide a mathematical formalism for conformal field theory. Associated to a conformal net with finite index, we give a construction of the `bundle of conformal blocks', a representation of the mapping class groupoid of closed topological surfaces into the category of finite-dimensional projective Hilbert spaces. We also construct infinite-dimensional spaces of conformal blocks for topological surfaces with smooth boundary. We prove that the conformal blocks satisfy a factorization formula for gluing surfaces along circles, and an analogous formula for gluing surfaces along intervals. We use this interval factorization property to give a new proof of the modularity of the category of representations of a conformal net.
Deformed conformal and super-Poincare symmetries in the non- (anti-) commutative spaces
International Nuclear Information System (INIS)
Banerjee, R.; Lee, C.; Siwach, S.
2006-01-01
Generators of the super-Poincare algebra in the non- (anti-) commutative superspace are represented using appropriate higher derivative operators defined in this quantum superspace. Also discussed are the analogous representations of the conformal and superconformal symmetry generators in the deformed spaces. This construction is obtained by generalizing the recent work of Wess et al. on the Poincare generators in the θ-deformed Minkowski space, or by using the substitution rules we derived on the basis of the phase-space structures of non- (anti-) commutative-space variables. Even with the non-zero deformation parameters the algebras remain unchanged although the comultiplication rules are deformed. The transformation of the fields under deformed symmetry is also discussed. Our construction can be used for systematic development of field theories in the deformed spaces. (orig.)
The incidence of the criminal policy in the conformation of the public space
Monroy, Carla
2016-01-01
Mexican Criminal Policy is distinguished by its historical repression, the strategies implemented by the current government affected directly the violence and crime index. These facts beat and modified the conformation of the public space. Recreational places, parks, streets, squares, etc., stopped having the dynamism that used to have. On the other hand, the global postmodern speech changes the conception of the city, nowadays is privileged the consumption, so the city has transform in order...
On integral formulation of the Mach principle in a conformally flat space
International Nuclear Information System (INIS)
Mal'tsev, V.K.
1976-01-01
The integral formulation of the Mach principle represents a rather complicated mathematical formalism in which many aspects of the physical content of theory are not clear. Below an attempt is made to consider the integral representation for the most simple case of conformally flat spaces. The fact that this formalism there is only one scalar function makes it possible to analyse in more detail many physical peculiarities of this representation of the Mach principle: the absence of asymptotically flat spaces, problems of inertia and gravity, constraints on state equations, etc
Conformal gravity, the Einstein equations and spaces of complex null geodesics
Energy Technology Data Exchange (ETDEWEB)
Baston, R.J.; Mason, L.J.
1987-07-01
The aim of the paper is to give a twistorial characterisation of the field equations of conformal gravity and of Einstein spacetimes. Strong evidence is provided for a particularly concise characterisation of these equations in terms of 'formal neighbourhoods'of the space of complex null geodesics. Second-order perturbations of the metric of complexified Minkowski space are considered. These correspond to certain infinitesimal deformations of its space of complex null geodesics, PN. PN has a natural codimension one embedding into a larger space. It is shown that deformations extend automatically to the fourth-order embedding (that is, the fourth formal neighbourhood). They extend to the fifth formal neighbourhood if and only if the corresponding perturbation in the metric has vanishing Bach tensor. Finally, deformations which extend to the sixth formal neighbourhood correspond to perturbations in the metric that are conformally related to ones satisfying the Einstein equations. The authors present arguments which suggest that the results will also hold when spacetime is fully curved.
Conformal gravity, the Einstein equations and spaces of complex null geodesics
International Nuclear Information System (INIS)
Baston, R.J.; Mason, L.J.
1987-01-01
The aim of the paper is to give a twistorial characterisation of the field equations of conformal gravity and of Einstein spacetimes. Strong evidence is provided for a particularly concise characterisation of these equations in terms of 'formal neighbourhoods'of the space of complex null geodesics. Second-order perturbations of the metric of complexified Minkowski space are considered. These correspond to certain infinitesimal deformations of its space of complex null geodesics, PN. PN has a natural codimension one embedding into a larger space. It is shown that deformations extend automatically to the fourth-order embedding (that is, the fourth formal neighbourhood). They extend to the fifth formal neighbourhood if and only if the corresponding perturbation in the metric has vanishing Bach tensor. Finally, deformations which extend to the sixth formal neighbourhood correspond to perturbations in the metric that are conformally related to ones satisfying the Einstein equations. The authors present arguments which suggest that the results will also hold when spacetime is fully curved. (author)
Luchko, Tyler; Blinov, Nikolay; Limon, Garrett C; Joyce, Kevin P; Kovalenko, Andriy
2016-11-01
Implicit solvent methods for classical molecular modeling are frequently used to provide fast, physics-based hydration free energies of macromolecules. Less commonly considered is the transferability of these methods to other solvents. The Statistical Assessment of Modeling of Proteins and Ligands 5 (SAMPL5) distribution coefficient dataset and the accompanying explicit solvent partition coefficient reference calculations provide a direct test of solvent model transferability. Here we use the 3D reference interaction site model (3D-RISM) statistical-mechanical solvation theory, with a well tested water model and a new united atom cyclohexane model, to calculate partition coefficients for the SAMPL5 dataset. The cyclohexane model performed well in training and testing ([Formula: see text] for amino acid neutral side chain analogues) but only if a parameterized solvation free energy correction was used. In contrast, the same protocol, using single solute conformations, performed poorly on the SAMPL5 dataset, obtaining [Formula: see text] compared to the reference partition coefficients, likely due to the much larger solute sizes. Including solute conformational sampling through molecular dynamics coupled with 3D-RISM (MD/3D-RISM) improved agreement with the reference calculation to [Formula: see text]. Since our initial calculations only considered partition coefficients and not distribution coefficients, solute sampling provided little benefit comparing against experiment, where ionized and tautomer states are more important. Applying a simple [Formula: see text] correction improved agreement with experiment from [Formula: see text] to [Formula: see text], despite a small number of outliers. Better agreement is possible by accounting for tautomers and improving the ionization correction.
Luchko, Tyler; Blinov, Nikolay; Limon, Garrett C.; Joyce, Kevin P.; Kovalenko, Andriy
2016-11-01
Implicit solvent methods for classical molecular modeling are frequently used to provide fast, physics-based hydration free energies of macromolecules. Less commonly considered is the transferability of these methods to other solvents. The Statistical Assessment of Modeling of Proteins and Ligands 5 (SAMPL5) distribution coefficient dataset and the accompanying explicit solvent partition coefficient reference calculations provide a direct test of solvent model transferability. Here we use the 3D reference interaction site model (3D-RISM) statistical-mechanical solvation theory, with a well tested water model and a new united atom cyclohexane model, to calculate partition coefficients for the SAMPL5 dataset. The cyclohexane model performed well in training and testing (R=0.98 for amino acid neutral side chain analogues) but only if a parameterized solvation free energy correction was used. In contrast, the same protocol, using single solute conformations, performed poorly on the SAMPL5 dataset, obtaining R=0.73 compared to the reference partition coefficients, likely due to the much larger solute sizes. Including solute conformational sampling through molecular dynamics coupled with 3D-RISM (MD/3D-RISM) improved agreement with the reference calculation to R=0.93. Since our initial calculations only considered partition coefficients and not distribution coefficients, solute sampling provided little benefit comparing against experiment, where ionized and tautomer states are more important. Applying a simple pK_{ {a}} correction improved agreement with experiment from R=0.54 to R=0.66, despite a small number of outliers. Better agreement is possible by accounting for tautomers and improving the ionization correction.
Study of spontaneously broken conformal symmetry in curved space-times
International Nuclear Information System (INIS)
Janson, M.M.
1977-05-01
Spontaneous breakdown of Weyl invariance (local scale invariance) in a conformally-invariant extension of a gauge model for weak and electromagnetic interactions is considered. The existence of an asymmetric vacuum for the Higgs field, phi, is seen to depend on the space-time structure via the Gursey-Penrose term, approximately phi + phi R, in the action. (R denotes the scalar curvature.) The effects of a prescribed space-time structure on spontaneously broken Weyl invariance is investigated. In a cosmological space-time, it is found that initially, in the primordial fireball, the symmetry must hold exactly. Spontaneous symmetry breaking (SSB) develops as the universe expands and cools. Consequences of this model include a dependence of G/sub F/, the effective weak interaction coupling strength, on ''cosmic time.'' It is seen to decrease monotonically; in the present epoch (G/sub F//G/sub F/)/sub TODAY/ approximately less than 10 -10 (year) -1 . The effects of the Schwarzschild geometry on SSB are explored. In the interior of a neutron star the Higgs vacuum expectation value, and consequently G/sub F/, is found to have a radial dependence. The magnitude of this variation does not warrant revision of present models of neutron star structures. Another perspective on the problem considered a theory of gravitation (conformal relativity) to be incorporated in the conformally invariant gauge model of weak and electromagnetic interactions. If SSB develops, the vacuum gravitational field equations are the Einstein field equations with a cosmological constant. The stability of the asymmetric vacuum solution is investigated to ascertain whether SSB can occur
Method of solving conformal models in D-dimensional space I
International Nuclear Information System (INIS)
Fradkin, E.S.; Palchik, M.Y.
1996-01-01
We study the Hilbert space of conformal field theory in D-dimensional space. The latter is shown to have model-independent structure. The states of matter fields and gauge fields form orthogonal subspaces. The dynamical principle fixing the choice of model may be formulated either in each of these subspaces or in their direct sum. In the latter case, gauge interactions are necessarily present in the model. We formulate the conditions specifying the class of models where gauge interactions are being neglected. The anomalous Ward identities are derived. Different values of anomalous parameters (D-dimensional analogs of a central charge, including operator ones) correspond to different models. The structure of these models is analogous to that of 2-dimensional conformal theories. Each model is specified by D-dimensional analog of null vector. The exact solutions of the simplest models of this type are examined. It is shown that these models are equivalent to Lagrangian models of scalar fields with a triple interaction. The values of dimensions of such fields are calculated, and the closed sets of differential equations for higher Green functions are derived. Copyright copyright 1996 Academic Press, Inc
Molecular dynamics coupled with a virtual system for effective conformational sampling.
Hayami, Tomonori; Kasahara, Kota; Nakamura, Haruki; Higo, Junichi
2018-07-15
An enhanced conformational sampling method is proposed: virtual-system coupled canonical molecular dynamics (VcMD). Although VcMD enhances sampling along a reaction coordinate, this method is free from estimation of a canonical distribution function along the reaction coordinate. This method introduces a virtual system that does not necessarily obey a physical law. To enhance sampling the virtual system couples with a molecular system to be studied. Resultant snapshots produce a canonical ensemble. This method was applied to a system consisting of two short peptides in an explicit solvent. Conventional molecular dynamics simulation, which is ten times longer than VcMD, was performed along with adaptive umbrella sampling. Free-energy landscapes computed from the three simulations mutually converged well. The VcMD provided quicker association/dissociation motions of peptides than the conventional molecular dynamics did. The VcMD method is applicable to various complicated systems because of its methodological simplicity. © 2018 Wiley Periodicals, Inc. © 2018 Wiley Periodicals, Inc.
2011-01-01
Background The performance of 3D-based virtual screening similarity functions is affected by the applied conformations of compounds. Therefore, the results of 3D approaches are often less robust than 2D approaches. The application of 3D methods on multiple conformer data sets normally reduces this weakness, but entails a significant computational overhead. Therefore, we developed a special conformational space encoding by means of Gaussian mixture models and a similarity function that operates on these models. The application of a model-based encoding allows an efficient comparison of the conformational space of compounds. Results Comparisons of our 4D flexible atom-pair approach with over 15 state-of-the-art 2D- and 3D-based virtual screening similarity functions on the 40 data sets of the Directory of Useful Decoys show a robust performance of our approach. Even 3D-based approaches that operate on multiple conformers yield inferior results. The 4D flexible atom-pair method achieves an averaged AUC value of 0.78 on the filtered Directory of Useful Decoys data sets. The best 2D- and 3D-based approaches of this study yield an AUC value of 0.74 and 0.72, respectively. As a result, the 4D flexible atom-pair approach achieves an average rank of 1.25 with respect to 15 other state-of-the-art similarity functions and four different evaluation metrics. Conclusions Our 4D method yields a robust performance on 40 pharmaceutically relevant targets. The conformational space encoding enables an efficient comparison of the conformational space. Therefore, the weakness of the 3D-based approaches on single conformations is circumvented. With over 100,000 similarity calculations on a single desktop CPU, the utilization of the 4D flexible atom-pair in real-world applications is feasible. PMID:21733172
Schenk, Emily R; Nau, Frederic; Fernandez-Lima, Francisco
2015-06-01
The ability to correlate experimental ion mobility data with candidate structures from theoretical modeling provides a powerful analytical and structural tool for the characterization of biomolecules. In the present paper, a theoretical workflow is described to generate and assign candidate structures for experimental trapped ion mobility and H/D exchange (HDX-TIMS-MS) data following molecular dynamics simulations and statistical filtering. The applicability of the theoretical predictor is illustrated for a peptide and protein example with multiple conformations and kinetic intermediates. The described methodology yields a low computational cost and a simple workflow by incorporating statistical filtering and molecular dynamics simulations. The workflow can be adapted to different IMS scenarios and CCS calculators for a more accurate description of the IMS experimental conditions. For the case of the HDX-TIMS-MS experiments, molecular dynamics in the "TIMS box" accounts for a better sampling of the molecular intermediates and local energy minima.
Directory of Open Access Journals (Sweden)
Rudy Clausen
2015-09-01
Full Text Available An important goal in molecular biology is to understand functional changes upon single-point mutations in proteins. Doing so through a detailed characterization of structure spaces and underlying energy landscapes is desirable but continues to challenge methods based on Molecular Dynamics. In this paper we propose a novel algorithm, SIfTER, which is based instead on stochastic optimization to circumvent the computational challenge of exploring the breadth of a protein's structure space. SIfTER is a data-driven evolutionary algorithm, leveraging experimentally-available structures of wildtype and variant sequences of a protein to define a reduced search space from where to efficiently draw samples corresponding to novel structures not directly observed in the wet laboratory. The main advantage of SIfTER is its ability to rapidly generate conformational ensembles, thus allowing mapping and juxtaposing landscapes of variant sequences and relating observed differences to functional changes. We apply SIfTER to variant sequences of the H-Ras catalytic domain, due to the prominent role of the Ras protein in signaling pathways that control cell proliferation, its well-studied conformational switching, and abundance of documented mutations in several human tumors. Many Ras mutations are oncogenic, but detailed energy landscapes have not been reported until now. Analysis of SIfTER-computed energy landscapes for the wildtype and two oncogenic variants, G12V and Q61L, suggests that these mutations cause constitutive activation through two different mechanisms. G12V directly affects binding specificity while leaving the energy landscape largely unchanged, whereas Q61L has pronounced, starker effects on the landscape. An implementation of SIfTER is made available at http://www.cs.gmu.edu/~ashehu/?q=OurTools. We believe SIfTER is useful to the community to answer the question of how sequence mutations affect the function of a protein, when there is an
Bianchi like classification of cosmologies in conformally flat space-times
International Nuclear Information System (INIS)
Tauber, G.E.
1989-01-01
Solutions of Killing's equations for a conformally flat line element have been found, which are seen to correspond to the conformal group of transformations consisting of the pure conformal group, the Lorentz group, translation and dilation. A classification of the line element has been carried out, singly and combining several of them. Upon comparison with expanding universes it has been found that the Friedmann universes are a subclass with other cosmologies resulting in wider subclasses. (orig.)
International Nuclear Information System (INIS)
Oono, Y.; Ohta, T.; Freed, K.F.
1981-01-01
A dimensional regularization approach to the renormalization group treatment of polymer excluded volume is formulated in chain conformation space where monomers are specified by their spatial positions and their positions along the chain and the polymers may be taken to be monodisperse. The method utilizes basic scale invariance considerations. First, it is recognized that long wavelength macroscopic descriptions must be well defined in the limit that the minimum atomic or molecular scale L is set to zero. Secondly, the microscopic theory is independent of the conveniently chosen macroscopic scale of length k. The freedom of choice of k is exploited along with the assumed renormalizability of the theory to provide the renormalization group equations which directly imply the universal scaling laws for macroscopic properties. The renormalizability of the model implies the existence of the general relations between the basic macroparameters, such as chain length, excluded volume, etc., and their microscopic counterparts in the microscopic model for the system. These macro--micro relations are defined through the condition that macroscopic quantities be well defined for polymer chains for any spatial dimensionality. The method is illustrated by calculating the end vector distribution function for all values of end vectors R. The evaluation of this distribution function currently requires the use of expansions in e = 4-d. In this case our distribution reduces to known limits for R→0 or infinity. Subsequent papers will present calculations of the polymer coherent scattering function, the monomer spatial distribution function, and concentration dependent properties
Joung, InSuk; Kim, Jong Yun; Gross, Steven P.; Joo, Keehyoung; Lee, Jooyoung
2018-02-01
Many problems in science and engineering can be formulated as optimization problems. One way to solve these problems is to develop tailored problem-specific approaches. As such development is challenging, an alternative is to develop good generally-applicable algorithms. Such algorithms are easy to apply, typically function robustly, and reduce development time. Here we provide a description for one such algorithm called Conformational Space Annealing (CSA) along with its python version, PyCSA. We previously applied it to many optimization problems including protein structure prediction and graph community detection. To demonstrate its utility, we have applied PyCSA to two continuous test functions, namely Ackley and Eggholder functions. In addition, in order to provide complete generality of PyCSA to any types of an objective function, we demonstrate the way PyCSA can be applied to a discrete objective function, namely a parameter optimization problem. Based on the benchmarking results of the three problems, the performance of CSA is shown to be better than or similar to the most popular optimization method, simulated annealing. For continuous objective functions, we found that, L-BFGS-B was the best performing local optimization method, while for a discrete objective function Nelder-Mead was the best. The current version of PyCSA can be run in parallel at the coarse grained level by calculating multiple independent local optimizations separately. The source code of PyCSA is available from http://lee.kias.re.kr.
Makam, Pandeeswar; Gazit, Ehud
2018-05-21
Molecular self-assembly is a ubiquitous process in nature and central to bottom-up nanotechnology. In particular, the organization of peptide building blocks into ordered supramolecular structures has gained much interest due to the unique properties of the products, including biocompatibility, chemical and structural diversity, robustness and ease of large-scale synthesis. In addition, peptides, as short as dipeptides, contain all the molecular information needed to spontaneously form well-ordered structures at both the nano- and the micro-scale. Therefore, peptide supramolecular assembly has been effectively utilized to produce novel materials with tailored properties for various applications in the fields of material science, engineering, medicine, and biology. To further expand the conformational space of peptide assemblies in terms of structural and functional complexity, multicomponent (two or more) peptide supramolecular co-assembly has recently evolved as a promising extended approach, similar to the structural diversity of natural sequence-defined biopolymers (proteins) as well as of synthetic covalent co-polymers. The use of this methodology was recently demonstrated in various applications, such as nanostructure physical dimension control, the creation of non-canonical complex topologies, mechanical strength modulation, the design of light harvesting soft materials, fabrication of electrically conducting devices, induced fluorescence, enzymatic catalysis and tissue engineering. In light of these significant advancements in the field of peptide supramolecular co-assembly in the last few years, in this tutorial review, we provide an updated overview and future prospects of this emerging subject.
Jo, Sunhwan; Lee, Hui Sun; Skolnick, Jeffrey; Im, Wonpil
2013-01-01
Understanding glycan structure and dynamics is central to understanding protein-carbohydrate recognition and its role in protein-protein interactions. Given the difficulties in obtaining the glycan's crystal structure in glycoconjugates due to its flexibility and heterogeneity, computational modeling could play an important role in providing glycosylated protein structure models. To address if glycan structures available in the PDB can be used as templates or fragments for glycan modeling, we present a survey of the N-glycan structures of 35 different sequences in the PDB. Our statistical analysis shows that the N-glycan structures found on homologous glycoproteins are significantly conserved compared to the random background, suggesting that N-glycan chains can be confidently modeled with template glycan structures whose parent glycoproteins share sequence similarity. On the other hand, N-glycan structures found on non-homologous glycoproteins do not show significant global structural similarity. Nonetheless, the internal substructures of these N-glycans, particularly, the substructures that are closer to the protein, show significantly similar structures, suggesting that such substructures can be used as fragments in glycan modeling. Increased interactions with protein might be responsible for the restricted conformational space of N-glycan chains. Our results suggest that structure prediction/modeling of N-glycans of glycoconjugates using structure database could be effective and different modeling approaches would be needed depending on the availability of template structures.
Directory of Open Access Journals (Sweden)
Sunhwan Jo
Full Text Available Understanding glycan structure and dynamics is central to understanding protein-carbohydrate recognition and its role in protein-protein interactions. Given the difficulties in obtaining the glycan's crystal structure in glycoconjugates due to its flexibility and heterogeneity, computational modeling could play an important role in providing glycosylated protein structure models. To address if glycan structures available in the PDB can be used as templates or fragments for glycan modeling, we present a survey of the N-glycan structures of 35 different sequences in the PDB. Our statistical analysis shows that the N-glycan structures found on homologous glycoproteins are significantly conserved compared to the random background, suggesting that N-glycan chains can be confidently modeled with template glycan structures whose parent glycoproteins share sequence similarity. On the other hand, N-glycan structures found on non-homologous glycoproteins do not show significant global structural similarity. Nonetheless, the internal substructures of these N-glycans, particularly, the substructures that are closer to the protein, show significantly similar structures, suggesting that such substructures can be used as fragments in glycan modeling. Increased interactions with protein might be responsible for the restricted conformational space of N-glycan chains. Our results suggest that structure prediction/modeling of N-glycans of glycoconjugates using structure database could be effective and different modeling approaches would be needed depending on the availability of template structures.
Adaptive importance sampling of random walks on continuous state spaces
International Nuclear Information System (INIS)
Baggerly, K.; Cox, D.; Picard, R.
1998-01-01
The authors consider adaptive importance sampling for a random walk with scoring in a general state space. Conditions under which exponential convergence occurs to the zero-variance solution are reviewed. These results generalize previous work for finite, discrete state spaces in Kollman (1993) and in Kollman, Baggerly, Cox, and Picard (1996). This paper is intended for nonstatisticians and includes considerable explanatory material
Stochastic sampling of the RNA structural alignment space.
Harmanci, Arif Ozgun; Sharma, Gaurav; Mathews, David H
2009-07-01
A novel method is presented for predicting the common secondary structures and alignment of two homologous RNA sequences by sampling the 'structural alignment' space, i.e. the joint space of their alignments and common secondary structures. The structural alignment space is sampled according to a pseudo-Boltzmann distribution based on a pseudo-free energy change that combines base pairing probabilities from a thermodynamic model and alignment probabilities from a hidden Markov model. By virtue of the implicit comparative analysis between the two sequences, the method offers an improvement over single sequence sampling of the Boltzmann ensemble. A cluster analysis shows that the samples obtained from joint sampling of the structural alignment space cluster more closely than samples generated by the single sequence method. On average, the representative (centroid) structure and alignment of the most populated cluster in the sample of structures and alignments generated by joint sampling are more accurate than single sequence sampling and alignment based on sequence alone, respectively. The 'best' centroid structure that is closest to the known structure among all the centroids is, on average, more accurate than structure predictions of other methods. Additionally, cluster analysis identifies, on average, a few clusters, whose centroids can be presented as alternative candidates. The source code for the proposed method can be downloaded at http://rna.urmc.rochester.edu.
Directory of Open Access Journals (Sweden)
Qing Wang
2016-05-01
Full Text Available Free energy calculations of the potential of mean force (PMF based on the combination of targeted molecular dynamics (TMD simulations and umbrella samplings as a function of physical coordinates have been applied to explore the detailed pathways and the corresponding free energy profiles for the conformational transition processes of the butane molecule and the 35-residue villin headpiece subdomain (HP35. The accurate PMF profiles for describing the dihedral rotation of butane under both coordinates of dihedral rotation and root mean square deviation (RMSD variation were obtained based on the different umbrella samplings from the same TMD simulations. The initial structures for the umbrella samplings can be conveniently selected from the TMD trajectories. For the application of this computational method in the unfolding process of the HP35 protein, the PMF calculation along with the coordinate of the radius of gyration (Rg presents the gradual increase of free energies by about 1 kcal/mol with the energy fluctuations. The feature of conformational transition for the unfolding process of the HP35 protein shows that the spherical structure extends and the middle α-helix unfolds firstly, followed by the unfolding of other α-helices. The computational method for the PMF calculations based on the combination of TMD simulations and umbrella samplings provided a valuable strategy in investigating detailed conformational transition pathways for other allosteric processes.
Conformational Analysis of Contrast Media for X-Ray Diagnostic Radiology
International Nuclear Information System (INIS)
Solieman, A.H.M.
2010-01-01
The conformational analysis of iodinated non-ionic contrast agent, Iobitridol, was carried out using theoretical calculations to explore its conformational space, and to study different aspects connected with application of different search techniques. Monte Carlo (MC), random search (RS) and molecular dynamics (MD) based conformational search techniques were used to extract a reasonable-size sample that adequately represents and has an average behavior of the entire conformational ensemble.While MC is good for quick search for lowest energy conformer, RS is better in obtaining conformational sample that cover the whole conformational space and MD is the best for investigation of isomeric preferences inside the conformational ensemble at thermal equilibrium. Conformational analysis of the produced gas phase samples reveals that RS and MD methods could sufficiently present the 18 distinct isomeric classes that constitute the total conformational space of the Iobitridol. S samples of conformational space of Iobitridol are extensively studied, as it hypothetically cover the total conformational space. They are used to test the suitability of different methods (charge distribution methods, energy calculation methods) for Iobitridol molecular computations and internal structure forces (steric hindrance, resonance interaction), as well as dependences among the internal coordinates (dihedral angles correlations and coincidences). The atomic partial charge distribution is found to greatly affect the energy calculation for the molecular mechanics based conformational energy distributions. Further energy minimization of conformational sample by the quantum molecular orbital methods is crucial to obtain charge independent as well as energy balanced conformational sample.
Directory of Open Access Journals (Sweden)
Salma Jamal
2017-12-01
Full Text Available Intrinsically disordered proteins (IDP are a class of proteins that do not have a stable three-dimensional structure and can adopt a range of conformations playing various vital functional role. Alpha-synuclein is one such IDP which can aggregate into toxic protofibrils and has been associated largely with Parkinson's disease (PD along with other neurodegenerative diseases. Osmolytes are small organic compounds that can alter the environment around the proteins by acting as denaturants or protectants for the proteins. In the present study, we have conducted a series of replica exchange molecular dynamics simulations to explore the role of osmolytes, urea which is a denaturant and TMAO (trimethylamine N-oxide, a protecting osmolyte, in aggregation and conformations of the synuclein peptide. We observed that both the osmolytes have significantly distinct impacts on the peptide and led to transitions of the conformations of the peptide from one state to other. Our findings highlighted that urea attenuated peptide aggregation and resulted in the formation of extended peptide structures whereas TMAO led to compact and folded forms of the peptide.
Probing the conformational dynamics of photosystem I in unconfined and confined spaces.
Das, Gaurav; Chattoraj, Shyamtanu; Nandi, Somen; Mondal, Prasenjit; Saha, Abhijit; Bhattacharyya, Kankan; Ghosh, Surajit
2017-12-20
The fluorescence dynamics of Photosystem I (PSI) in bulk water and inside a confined environment like a liposome have been investigated using time resolved confocal microscopy. In bulk water, PSI exhibits a major emission peak at ∼680 nm, while in the liposome it exhibits a markedly blue shifted emission maximum at ∼485 nm. This is indicative of conformational changes due to entrapment and emergence of a stressed conformation of PSI inside the liposome. The observed time constants for the fluorescence lifetime of PSI inside the liposome are significantly high as opposed to PSI in bulk water. More interestingly, the fluorescence intensity of PSI in bulk water exhibits strong fluctuations with many high intensity jumps and these are anti-correlated with the fluorescence lifetime of PSI. In contrast, inside the liposome, no such anti-correlated behaviour is observed. We further demonstrated that PSI exhibits at least two conformational states in bulk water, whereas a single conformation is observed inside the liposome, indicating the conformational rigidity and locking of the PSI complex inside a liposome.
Space- and time-like superselection rules in conformal quantum field theory
International Nuclear Information System (INIS)
Schroer, Bert
2000-11-01
In conformally invariant quantum field theories one encounters besides the standard DHR superselection theory based on spacelike (Einstein-causal) commutation relations and their Haag duality another timelike (Huygens) based superselection structure. Whereas the DHR theory based on spacelike causality of observables confirmed the Lagrangian internal symmetry picture on the level of the physical principles of local quantum physics, the attempts to understand the timelike based superselection charges associated with the center of the conformal covering group in terms of timelike localized charges lead to a more dynamical role of charges outside the DR theorem and even outside the Coleman-Mandula setting. The ensuing plektonic timelike structure of conformal theories explains the spectrum of the anomalous scale dimensions in terms of admissible braid group representations, similar to the explanation of the possible anomalous spin spectrum expected from the extension of the DHR theory to stringlike d=1+2 plektonic fields. (author)
Energy Technology Data Exchange (ETDEWEB)
Yu, Yuqi; Wang, Jinan; Shao, Qiang, E-mail: qshao@mail.shcnc.ac.cn, E-mail: Jiye.Shi@ucb.com, E-mail: wlzhu@mail.shcnc.ac.cn; Zhu, Weiliang, E-mail: qshao@mail.shcnc.ac.cn, E-mail: Jiye.Shi@ucb.com, E-mail: wlzhu@mail.shcnc.ac.cn [ACS Key Laboratory of Receptor Research, Drug Discovery and Design Center, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, 555 Zuchongzhi Road, Shanghai 201203 (China); Shi, Jiye, E-mail: qshao@mail.shcnc.ac.cn, E-mail: Jiye.Shi@ucb.com, E-mail: wlzhu@mail.shcnc.ac.cn [UCB Pharma, 216 Bath Road, Slough SL1 4EN (United Kingdom)
2015-03-28
The application of temperature replica exchange molecular dynamics (REMD) simulation on protein motion is limited by its huge requirement of computational resource, particularly when explicit solvent model is implemented. In the previous study, we developed a velocity-scaling optimized hybrid explicit/implicit solvent REMD method with the hope to reduce the temperature (replica) number on the premise of maintaining high sampling efficiency. In this study, we utilized this method to characterize and energetically identify the conformational transition pathway of a protein model, the N-terminal domain of calmodulin. In comparison to the standard explicit solvent REMD simulation, the hybrid REMD is much less computationally expensive but, meanwhile, gives accurate evaluation of the structural and thermodynamic properties of the conformational transition which are in well agreement with the standard REMD simulation. Therefore, the hybrid REMD could highly increase the computational efficiency and thus expand the application of REMD simulation to larger-size protein systems.
Akhtar, S. S.; Hussain, T.; Bokhari, A. H.; Khan, F.
2018-04-01
We provide a complete classification of static plane symmetric space-times according to conformal Ricci collineations (CRCs) and conformal matter collineations (CMCs) in both the degenerate and nondegenerate cases. In the case of a nondegenerate Ricci tensor, we find a general form of the vector field generating CRCs in terms of unknown functions of t and x subject to some integrability conditions. We then solve the integrability conditions in different cases depending upon the nature of the Ricci tensor and conclude that the static plane symmetric space-times have a 7-, 10- or 15-dimensional Lie algebra of CRCs. Moreover, we find that these space-times admit an infinite number of CRCs if the Ricci tensor is degenerate. We use a similar procedure to study CMCs in the case of a degenerate or nondegenerate matter tensor. We obtain the exact form of some static plane symmetric space-time metrics that admit nontrivial CRCs and CMCs. Finally, we present some physical applications of our obtained results by considering a perfect fluid as a source of the energy-momentum tensor.
Ververs, Patricia May
experimental findings. Attention was found to be more widely distributed in X-Y space when the pilots were flying with the conformal, tunnel-in-the-sky as compared to the partially conformal ILS (instrument landing system) symbology set. There was little evidence that the air-based navigation displays were supporting divided attention in three-dimensional space. The ground-based scene-linked (truly conformal) display indicated promising effects of dividing attention in depth without negative consequences to processing the near domain symbology. Event expectancy was found to modulate pilot performance in the detection of events both on the symbology and in the environment. The phenomenon known as cognitive tunneling is discussed as a possible cause of the inadequate response times in resolving the anomalous events.
Interpolation and sampling in spaces of analytic functions
Seip, Kristian
2004-01-01
The book is about understanding the geometry of interpolating and sampling sequences in classical spaces of analytic functions. The subject can be viewed as arising from three classical topics: Nevanlinna-Pick interpolation, Carleson's interpolation theorem for H^\\infty, and the sampling theorem, also known as the Whittaker-Kotelnikov-Shannon theorem. The book aims at clarifying how certain basic properties of the space at hand are reflected in the geometry of interpolating and sampling sequences. Key words for the geometric descriptions are Carleson measures, Beurling densities, the Nyquist rate, and the Helson-Szegő condition. The book is based on six lectures given by the author at the University of Michigan. This is reflected in the exposition, which is a blend of informal explanations with technical details. The book is essentially self-contained. There is an underlying assumption that the reader has a basic knowledge of complex and functional analysis. Beyond that, the reader should have some familiari...
Directory of Open Access Journals (Sweden)
Glantz-Gashai Y
2017-06-01
Full Text Available Yitav Glantz-Gashai,* Tomer Meirson,* Eli Reuveni, Abraham O Samson Faculty of Medicine in the Galilee, Bar Ilan University, Safed, Israel *These authors contributed equally to this work Abstract: Myeloid cell leukemia-1 (Mcl-1 is often overexpressed in human cancer and is an important target for developing antineoplastic drugs. In this study, a data set containing 2.3 million lead-like molecules and a data set of all the US Food and Drug Administration (FDA-approved drugs are virtually screened for potential Mcl-1 ligands using Protein Data Bank (PDB ID 2MHS. The potential Mcl-1 ligands are evaluated and computationally docked on to three conformation ensembles generated by normal mode analysis (NMA, molecular dynamics (MD, and nuclear magnetic resonance (NMR, respectively. The evaluated potential Mcl-1 ligands are then compared with their clinical use. Remarkably, half of the top 30 potential drugs are used clinically to treat cancer, thus partially validating our virtual screen. The partial validation also favors the idea that the other half of the top 30 potential drugs could be used in the treatment of cancer. The normal mode-, MD-, and NMR-based conformation greatly expand the conformational sampling used herein for in silico identification of potential Mcl-1 inhibitors. Keywords: virtual screening, Mcl-1, molecular dynamics, NMR, normal modes
Directory of Open Access Journals (Sweden)
Yanwei Li
2016-08-01
Full Text Available The quantum mechanics/molecular mechanics (QM/MM method (e.g., density functional theory (DFT/MM is important in elucidating enzymatic mechanisms. It is indispensable to study “multiple” conformations of enzymes to get unbiased energetic and structural results. One challenging problem, however, is to determine the minimum number of conformations for DFT/MM calculations. Here, we propose two convergence criteria, namely the Boltzmann-weighted average barrier and the disproportionate effect, to tentatively address this issue. The criteria were tested by defluorination reaction catalyzed by fluoroacetate dehalogenase. The results suggest that at least 20 conformations of enzymatic residues are required for convergence using DFT/MM calculations. We also tested the correlation of energy barriers between small QM regions and big QM regions. A roughly positive correlation was found. This kind of correlation has not been reported in the literature. The correlation inspires us to propose a protocol for more efficient sampling. This saves 50% of the computational cost in our current case.
Gender stereotypes and superior conformity of the self in a sample of cyclists.
Félonneau, Marie-Line; Causse, Elsa; Constant, Aymery; Contrand, Benjamin; Messiah, Antoine; Lagarde, Emmanuel
2013-01-01
In the field of driving, people tend to think they are more competent and more cautious than others. This is the superior conformity of the self (SCS). Our main hypothesis was that, among cyclists, women would show a higher SCS on cautiousness, though men would show a higher SCS concerning competence. 1799 cyclists provided a self-assessment of their own cautiousness and of other people's cautiousness. The same procedure was used for competence. Consistent with the hypothesis, the SCS was gender-specific: it was more prominent for women concerning cautiousness and more prominent for men concerning competence. These results could explain why people tend to ignore the safety campaigns. They also indicate the importance of adapting messages concerning safety measures to gender. Copyright © 2012 Elsevier Ltd. All rights reserved.
International Nuclear Information System (INIS)
Fradkin, E.S.; Palchik, M.Ya.
1996-02-01
We study a family of exactly solvable models of conformally-invariant quantum field theory in D-dimensional space. We demonstrate the existence of D-dimensional analogs of primary and secondary fields. Under the action of energy-momentum tensor and conserved currents, the primary fields creates an infinite set of (tensor) secondary fields of different generations. The commutators of secondary fields with zero components of current and energy-momentum tensor include anomalous operator terms. We show that the Hilbert space of conformal theory has a special sector which structure is solely defined by the Ward identities independently on the choice of dynamical model. The states of this sector are constructed from secondary fields. Definite self-consistent conditions on the states of the latter sector fix the choice of the field model uniquely. In particular, Lagrangian models do belong to this class of models. The above self-consistent conditions are formulated as follows. Special superpositions Q s , s = 1,2,... of secondary fields are constructed. Each superposition is determined by the requirement that the form of its commutators with energy-momentum tensor and current (i.e. transformation properties) should be identical to that of a primary field. Each equation Q s (x) = 0 is consistent, and defines an exactly solvable model for D ≥ 3. The structure of these models are analogous to that of well-known two dimensional conformal models. The states Q s (x) modul 0> are analogous to the null-vectors of two dimensional theory. In each of these models one can obtain a closed set of differential equations for all the higher Green functions, as well as algebraic equations relating the scale dimension of fundamental field to the D-dimensional analog of a central charge. As an example, we present a detailed discussion of a pair of exactly solvable models in even-dimensional space D ≥ 4. (author). 28 refs
Radiatively induced symmetry breaking and the conformally coupled magnetic monopole in AdS space
Edery, Ariel; Graham, Noah
2013-11-01
We implement quantum corrections for a magnetic monopole in a classically conformally invariant theory containing gravity. This yields the trace (conformal) anomaly and introduces a length scale in a natural fashion via the process of renormalization. We evaluate the one-loop effective potential and extract the vacuum expectation value (VEV) from it; spontaneous symmetry breaking is radiatively induced. The VEV is set at the renormalization scale M and we exchange the dimensionless scalar coupling constant for the dimensionful VEV via dimensional transmutation. The asymptotic (background) spacetime is anti-de Sitter (AdS) and its Ricci scalar is determined entirely by the VEV. We obtain analytical asymptotic solutions to the coupled set of equations governing gravitational, gauge and scalar fields that yield the magnetic monopole in an AdS spacetime.
Yaşar, Elif; Yıldırım, Yakup; Yaşar, Emrullah
2018-06-01
This paper devotes to conformable fractional space-time perturbed Gerdjikov-Ivanov (GI) equation which appears in nonlinear fiber optics and photonic crystal fibers (PCF). We consider the model with full nonlinearity in order to give a generalized flavor. The sine-Gordon equation approach is carried out to model equation for retrieving the dark, bright, dark-bright, singular and combined singular optical solitons. The constraint conditions are also reported for guaranteeing the existence of these solitons. We also present some graphical simulations of the solutions for better understanding the physical phenomena of the behind the considered model.
A global conformal extension theorem for perfect fluid Bianchi space-times
International Nuclear Information System (INIS)
Luebbe, Christian; Tod, Paul
2008-01-01
A global extension theorem is established for isotropic singularities in polytropic perfect fluid Bianchi space-times. When an extension is possible, the limiting behaviour of the physical space-time near the singularity is analysed
Extended phase-space methods for enhanced sampling in molecular simulations: a review
Directory of Open Access Journals (Sweden)
Hiroshi eFujisaki
2015-09-01
Full Text Available Molecular Dynamics simulations are a powerful approach to study biomolecular conformational changes or protein-ligand, protein-protein and protein-DNA/RNA interactions. Straightforward applications however are often hampered by incomplete sampling, since in a typical simulated trajectory the system will spend most of its time trapped by high energy barriers in restricted regions of the configuration space. Over the years, several techniques have been designed to overcome this problem and enhance space sampling. Here, we review a class of methods that rely on the idea of extending the set of dynamical variables of the system by adding extra ones associated to functions describing the process under study. In particular, we illustrate the Temperature Accelerated Molecular Dynamics (TAMD, Logarithmic Mean Force Dynamics (LogMFD, andMultiscale Enhanced Sampling (MSES algorithms. We also discuss combinations with techniques for searching reaction paths. We show the advantages presented by this approach and how it allows to quickly sample important regions of the free energy landscape via automatic exploration.
Conformation Generation: The State of the Art.
Hawkins, Paul C D
2017-08-28
The generation of conformations for small molecules is a problem of continuing interest in cheminformatics and computational drug discovery. This review will present an overview of methods used to sample conformational space, focusing on those methods designed for organic molecules commonly of interest in drug discovery. Different approaches to both the sampling of conformational space and the scoring of conformational stability will be compared and contrasted, with an emphasis on those methods suitable for conformer sampling of large numbers of drug-like molecules. Particular attention will be devoted to the appropriate utilization of information from experimental solid-state structures in validating and evaluating the performance of these tools. The review will conclude with some areas worthy of further investigation.
Random sampling of evolution time space and Fourier transform processing
International Nuclear Information System (INIS)
Kazimierczuk, Krzysztof; Zawadzka, Anna; Kozminski, Wiktor; Zhukov, Igor
2006-01-01
Application of Fourier Transform for processing 3D NMR spectra with random sampling of evolution time space is presented. The 2D FT is calculated for pairs of frequencies, instead of conventional sequence of one-dimensional transforms. Signal to noise ratios and linewidths for different random distributions were investigated by simulations and experiments. The experimental examples include 3D HNCA, HNCACB and 15 N-edited NOESY-HSQC spectra of 13 C 15 N labeled ubiquitin sample. Obtained results revealed general applicability of proposed method and the significant improvement of resolution in comparison with conventional spectra recorded in the same time
Cryogenic Liquid Sample Acquisition System for Remote Space Applications
Mahaffy, Paul; Trainer, Melissa; Wegel, Don; Hawk, Douglas; Melek, Tony; Johnson, Christopher; Amato, Michael; Galloway, John
2013-01-01
There is a need to acquire autonomously cryogenic hydrocarbon liquid sample from remote planetary locations such as the lakes of Titan for instruments such as mass spectrometers. There are several problems that had to be solved relative to collecting the right amount of cryogenic liquid sample into a warmer spacecraft, such as not allowing the sample to boil off or fractionate too early; controlling the intermediate and final pressures within carefully designed volumes; designing for various particulates and viscosities; designing to thermal, mass, and power-limited spacecraft interfaces; and reducing risk. Prior art inlets for similar instruments in spaceflight were designed primarily for atmospheric gas sampling and are not useful for this front-end application. These cryogenic liquid sample acquisition system designs for remote space applications allow for remote, autonomous, controlled sample collections of a range of challenging cryogenic sample types. The design can control the size of the sample, prevent fractionation, control pressures at various stages, and allow for various liquid sample levels. It is capable of collecting repeated samples autonomously in difficult lowtemperature conditions often found in planetary missions. It is capable of collecting samples for use by instruments from difficult sample types such as cryogenic hydrocarbon (methane, ethane, and propane) mixtures with solid particulates such as found on Titan. The design with a warm actuated valve is compatible with various spacecraft thermal and structural interfaces. The design uses controlled volumes, heaters, inlet and vent tubes, a cryogenic valve seat, inlet screens, temperature and cryogenic liquid sensors, seals, and vents to accomplish its task.
Hosseini, Kamyar; Mayeli, Peyman; Bekir, Ahmet; Guner, Ozkan
2018-01-01
In this article, a special type of fractional differential equations (FDEs) named the density-dependent conformable fractional diffusion-reaction (DDCFDR) equation is studied. Aforementioned equation has a significant role in the modelling of some phenomena arising in the applied science. The well-organized methods, including the \\exp (-φ (\\varepsilon )) -expansion and modified Kudryashov methods are exerted to generate the exact solutions of this equation such that some of the solutions are new and have been reported for the first time. Results illustrate that both methods have a great performance in handling the DDCFDR equation.
Biasetti, Jacopo; Sampath, Kaushik; Cortez, Angel; Azhir, Alaleh; Gilad, Assaf A; Kickler, Thomas S; Obser, Tobias; Ruggeri, Zaverio M; Katz, Joseph
2017-01-01
Tracking cells and proteins' phenotypic changes in deep suspensions is critical for the direct imaging of blood-related phenomena in in vitro replica of cardiovascular systems and blood-handling devices. This paper introduces fluorescence imaging techniques for space and time resolved detection of platelet activation, von Willebrand factor (VWF) conformational changes, and VWF-platelet interaction in deep suspensions. Labeled VWF, platelets, and VWF-platelet strands are suspended in deep cuvettes, illuminated, and imaged with a high-sensitivity EM-CCD camera, allowing detection using an exposure time of 1 ms. In-house postprocessing algorithms identify and track the moving signals. Recombinant VWF-eGFP (rVWF-eGFP) and VWF labeled with an FITC-conjugated polyclonal antibody are employed. Anti-P-Selectin FITC-conjugated antibodies and the calcium-sensitive probe Indo-1 are used to detect activated platelets. A positive correlation between the mean number of platelets detected per image and the percentage of activated platelets determined through flow cytometry is obtained, validating the technique. An increase in the number of rVWF-eGFP signals upon exposure to shear stress demonstrates the technique's ability to detect breakup of self-aggregates. VWF globular and unfolded conformations and self-aggregation are also observed. The ability to track the size and shape of VWF-platelet strands in space and time provides means to detect pro- and antithrombotic processes.
Radiation from a moving mirror in two dimensional space-time: conformal anomaly
International Nuclear Information System (INIS)
Fulling, S.A.; Davies, P.C.W.
1976-01-01
The energy-momentum tensor is calculated in the two dimensional quantum theory of a massless scalar field influenced by the motion of a perfectly reflecting boundary (mirror). The simple model system evidently can provide insight into more sophisticated processes, such as particle production in cosmological models and exploding black holes. In spite of the conformally static nature of the problem, the vacuum expectation value of the tensor for an arbitrary mirror trajectory exhibits a non-vanishing radiation flux (which may be readily computed). The expectation value of the instantaneous energy flux is negative when the proper acceleration of the mirror is increasing, but the total energy radiated during a bounded mirror motion is positive. A uniformly accelerating mirror does not radiate; however, the quantization does not coincide with the treatment of that system as a 'static universe'. The calculation of the expectation value requires a regularization procedure of covariant separation of points (in products of field operators) along time-like geodesics; more naive methods do not yield the same answers. A striking example involving two mirrors clarifies the significance of the conformal anomaly. (author)
Sampling Indoor Aerosols on the International Space Station
Meyer, Marit E.
2016-01-01
In a spacecraft cabin environment, the size range of indoor aerosols is much larger and they persist longer than on Earth because they are not removed by gravitational settling. A previous aerosol experiment in 1991 documented that over 90 of the mass concentration of particles in the NASA Space Shuttle air were between 10 m and 100 m based on measurements with a multi-stage virtual impactor and a nephelometer (Liu et al. 1991). While the now-retired Space Shuttle had short duration missions (less than two weeks), the International Space Station (ISS) has been continually inhabited by astronauts for over a decade. High concentrations of inhalable particles on ISS are potentially responsible for crew complaints of respiratory and eye irritation and comments about 'dusty' air. Air filtration is the current control strategy for airborne particles on the ISS, and filtration modeling, performed for engineering and design validation of the air revitalization system in ISS, predicted that PM requirements would be met. However, aerosol monitoring has never been performed on the ISS to verify PM levels. A flight experiment is in preparation which will provide data on particulate matter in ISS ambient air. Particles will be collected with a thermophoretic sampler as well as with passive samplers which will extend the particle size range of sampling. Samples will be returned to Earth for chemical and microscopic analyses, providing the first aerosol data for ISS ambient air.
Monte Carlo Methods Development and Applications in Conformational Sampling of Proteins
DEFF Research Database (Denmark)
Tian, Pengfei
quantitative insights into their thermodynamic and mechanistic properties that are difficult to probe in laboratory experiments. However, despite the rapid progress in the development of molecular simulation, there are still two limiting factors, (1), the current molecular mechanics force fields alone...... sampling methods to address these two problems. First of all, a novel technique has been developed for reliably estimating diffusion coefficients for use in the enhanced sampling of molecular simulations. A broad applicability of this method is illustrated by studying various simulation problems...
Recent advancements in conformal gravity
International Nuclear Information System (INIS)
O’Brien, James G.; Chaykov, Spasen S.; Moss, Robert J.; Dentico, Jeremy; Stulge, Modestas; Stefanski, Brian
2017-01-01
In recent years, due to the lack of direct observed evidence of cold dark matter, coupled with the shrinking parameter space to search for new dark matter particles, there has been increased interest in Alternative Gravitational theories. This paper, addresses three recent advances in conformal gravity, a fourth order renormalizable metric theory of gravitation originally formulated by Weyl, and later advanced by Mannheim and Kazanas. The first section of the paper applies conformal gravity to the rotation curves of the LITTLE THINGS survey, extending the total number of rotation curves successfully fit by conformal gravity to well over 200 individual data sets without the need for additional dark matter. Further, in this rotation curve study, we show how MOND and conformal gravity compare for each galaxy in the sample. Second, we look at the original Zwicky problem of applying the virial theorem to the Coma cluster in order to get an estimate for the cluster mass. However, instead of using the standard Newtonian potential, here we use the weak field approximation of conformal gravity. We show that in the conformal case we can get a much smaller mass estimate and thus there is no apparent need to include dark matter. We then show that this calculation is in agreement with the observational data from other well studied clusters. Last, we explore the calculation of the deflection of starlight through conformal gravity, as a first step towards applying conformal gravity to gravitaitonal lensing. (paper)
Directory of Open Access Journals (Sweden)
Marcos César Lima de Mendonça
2011-06-01
Full Text Available Heteroduplex mobility assay, single-stranded conformation polymorphism and nucleotide sequencing were utilised to genotype human parvovirus B19 samples from Brazil and Paraguay. Ninety-seven serum samples were collected from individuals presenting with abortion or erythema infectiosum, arthropathies, severe anaemia and transient aplastic crisis; two additional skin samples were collected by biopsy. After the procedure, all clinical samples were classified as genotype 1.
Less is more: Sampling chemical space with active learning
Smith, Justin S.; Nebgen, Ben; Lubbers, Nicholas; Isayev, Olexandr; Roitberg, Adrian E.
2018-06-01
The development of accurate and transferable machine learning (ML) potentials for predicting molecular energetics is a challenging task. The process of data generation to train such ML potentials is a task neither well understood nor researched in detail. In this work, we present a fully automated approach for the generation of datasets with the intent of training universal ML potentials. It is based on the concept of active learning (AL) via Query by Committee (QBC), which uses the disagreement between an ensemble of ML potentials to infer the reliability of the ensemble's prediction. QBC allows the presented AL algorithm to automatically sample regions of chemical space where the ML potential fails to accurately predict the potential energy. AL improves the overall fitness of ANAKIN-ME (ANI) deep learning potentials in rigorous test cases by mitigating human biases in deciding what new training data to use. AL also reduces the training set size to a fraction of the data required when using naive random sampling techniques. To provide validation of our AL approach, we develop the COmprehensive Machine-learning Potential (COMP6) benchmark (publicly available on GitHub) which contains a diverse set of organic molecules. Active learning-based ANI potentials outperform the original random sampled ANI-1 potential with only 10% of the data, while the final active learning-based model vastly outperforms ANI-1 on the COMP6 benchmark after training to only 25% of the data. Finally, we show that our proposed AL technique develops a universal ANI potential (ANI-1x) that provides accurate energy and force predictions on the entire COMP6 benchmark. This universal ML potential achieves a level of accuracy on par with the best ML potentials for single molecules or materials, while remaining applicable to the general class of organic molecules composed of the elements CHNO.
International Nuclear Information System (INIS)
Marek-Crnjac, L.
2006-01-01
In the present work we show the connections between the topology of four-manifolds, conformal field theory, the mathematical probability theory and Cantorian space-time. In all these different mathematical fields, we find as the main connection the appearance of the golden mean
Liu, Z.; Ensing, B.; Moore, P.B.
2011-01-01
The free energy surfaces (FESs) of alanine dipeptide are studied to illustrate a new strategy to assess the performance of classical molecular mechanics force field on the full range of the (phi-psi) conformational space. The FES is obtained from metadynamics simulations with five commonly used
Strauss, Mike; Schotte, Lise; Karunatilaka, Krishanthi S; Filman, David J; Hogle, James M
2017-02-01
By using cryo-electron microscopy, expanded 80S-like poliovirus virions (poliovirions) were visualized in complexes with four 80S-specific camelid VHHs (Nanobodies). In all four complexes, the VHHs bind to a site on the top surface of the capsid protein VP3, which is hidden in the native virus. Interestingly, although the four VHHs bind to the same site, the structures of the expanded virus differ in detail in each complex, suggesting that each of the Nanobodies has sampled a range of low-energy structures available to the expanded virion. By stabilizing unique structures of expanded virions, VHH binding permitted a more detailed view of the virus structure than was previously possible, leading to a better understanding of the expansion process that is a critical step in infection. It is now clear which polypeptide chains become disordered and which become rearranged. The higher resolution of these structures also revealed well-ordered conformations for the EF loop of VP2, the GH loop of VP3, and the N-terminal extensions of VP1 and VP2, which, in retrospect, were present in lower-resolution structures but not recognized. These structural observations help to explain preexisting mutational data and provide insights into several other stages of the poliovirus life cycle, including the mechanism of receptor-triggered virus expansion. When poliovirus infects a cell, it undergoes a change in its structure in order to pass RNA through its protein coat, but this altered state is short-lived and thus poorly understood. The structures of poliovirus bound to single-domain antibodies presented here capture the altered virus in what appear to be intermediate states. A careful analysis of these structures lets us better understand the molecular mechanism of infection and how these changes in the virus lead to productive-infection events. Copyright © 2017 American Society for Microbiology.
Killing tensors and conformal Killing tensors from conformal Killing vectors
International Nuclear Information System (INIS)
Rani, Raffaele; Edgar, S Brian; Barnes, Alan
2003-01-01
Koutras has proposed some methods to construct reducible proper conformal Killing tensors and Killing tensors (which are, in general, irreducible) when a pair of orthogonal conformal Killing vectors exist in a given space. We give the completely general result demonstrating that this severe restriction of orthogonality is unnecessary. In addition, we correct and extend some results concerning Killing tensors constructed from a single conformal Killing vector. A number of examples demonstrate that it is possible to construct a much larger class of reducible proper conformal Killing tensors and Killing tensors than permitted by the Koutras algorithms. In particular, by showing that all conformal Killing tensors are reducible in conformally flat spaces, we have a method of constructing all conformal Killing tensors, and hence all the Killing tensors (which will in general be irreducible) of conformally flat spaces using their conformal Killing vectors
Theunissen, Raf; Kadosh, Jesse S.; Allen, Christian B.
2015-06-01
Spatially varying signals are typically sampled by collecting uniformly spaced samples irrespective of the signal content. For signals with inhomogeneous information content, this leads to unnecessarily dense sampling in regions of low interest or insufficient sample density at important features, or both. A new adaptive sampling technique is presented directing sample collection in proportion to local information content, capturing adequately the short-period features while sparsely sampling less dynamic regions. The proposed method incorporates a data-adapted sampling strategy on the basis of signal curvature, sample space-filling, variable experimental uncertainty and iterative improvement. Numerical assessment has indicated a reduction in the number of samples required to achieve a predefined uncertainty level overall while improving local accuracy for important features. The potential of the proposed method has been further demonstrated on the basis of Laser Doppler Anemometry experiments examining the wake behind a NACA0012 airfoil and the boundary layer characterisation of a flat plate.
Schwaiger, K; Wimmer, M; Huber-Schlenstedt, R; Fehlings, K; Hölzel, C S; Bauer, J
2012-01-01
A large proportion of mastitis milk samples yield negative or nonspecific results (i.e., no mastitis pathogen can be identified) in bacterial culturing. Therefore, the culture-independent PCR-single strand conformation polymorphism method was applied to the investigation of bovine mastitis milk samples. In addition to the known mastitis pathogens, the method was suitable for the detection of fastidious bacteria such as Mycoplasma spp., which are often missed by conventional culturing methods. The detection of Helcococcus ovis in 4 samples might indicate an involvement of this species in pathogenesis of bovine mastitis. In conclusion, PCR-single-strand conformation polymorphism is a promising tool for gaining new insights into the bacteriological etiology of mastitis. Copyright © 2012 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.
Directory of Open Access Journals (Sweden)
Yanning Wang
2016-01-01
Full Text Available Using conformable fractional calculus on time scales, we first introduce fractional Sobolev spaces on time scales, characterize them, and define weak conformable fractional derivatives. Second, we prove the equivalence of some norms in the introduced spaces and derive their completeness, reflexivity, uniform convexity, and compactness of some imbeddings, which can be regarded as a novelty item. Then, as an application, we present a recent approach via variational methods and critical point theory to obtain the existence of solutions for a p-Laplacian conformable fractional differential equation boundary value problem on time scale T: Tα(Tαup-2Tα(u(t=∇F(σ(t,u(σ(t, Δ-a.e. t∈a,bTκ2, u(a-u(b=0, Tα(u(a-Tα(u(b=0, where Tα(u(t denotes the conformable fractional derivative of u of order α at t, σ is the forward jump operator, a,b∈T, 01, and F:[0,T]T×RN→R. By establishing a proper variational setting, we obtain three existence results. Finally, we present two examples to illustrate the feasibility and effectiveness of the existence results.
International Nuclear Information System (INIS)
Coleman, R.A.; Korte, H.
1984-01-01
According to the principle of the universality of free fall, the motions of all neutral monopole particles are governed by one common path structure. This principle does not, however, require the path structure to be geodesic; that is, the path structure need not be a projective structure. It is shown that any equation of motion structure (either a curve or a path structure) that has sufficient microisotropy to be compatible with the conformal causal structure of space-time must be geodesic and must be unique. Hence, the empirically well-supported principles of conformal causality and of the universality of free fall together require the existence of a unique Weyl structure on space-time
Reachable Distance Space: Efficient Sampling-Based Planning for Spatially Constrained Systems
Xinyu Tang,; Thomas, S.; Coleman, P.; Amato, N. M.
2010-01-01
reachable distance space (RD-space), in which all configurations lie in the set of constraint-satisfying subspaces. This enables us to directly sample the constrained subspaces with complexity linear in the number of the robot's degrees of freedom
National Aeronautics and Space Administration — The purpose of this study is to determine materials and fabrication techniques for efficient space-rated electroadhesion (EA) samples. Liquid metals, including...
Conformal description of spinning particles
International Nuclear Information System (INIS)
Todorov, I.T.
1986-01-01
This book is an introduction to the application of the conformal group to quantum field theory of particles with spin. After an introduction to the twistor representations of the conformal group of a conformally flat space-time and twistor flag manifolds with Su(2,2) orbits the classical phase space of conformal spinning particles is described. Thereafter the twistor description of classical zero mass fields is considered together with the quantization. (HSI)
Conformal boundaries of warped products
DEFF Research Database (Denmark)
Kokkendorff, Simon Lyngby
2006-01-01
In this note we prove a result on how to determine the conformal boundary of a type of warped product of two length spaces in terms of the individual conformal boundaries. In the situation, that we treat, the warping and conformal distortion functions are functions of distance to a base point....... The result is applied to produce examples of CAT(0)-spaces, where the conformal and ideal boundaries differ in interesting ways....
Thickenings and conformal gravity
Lebrun, Claude
1991-07-01
A twistor correspondence is given for complex conformal space-times with vanishing Bach and Eastwood-Dighton tensors; when the Weyl curvature is algebraically general, these equations are precisely the conformal version of Einstein's vacuum equations with cosmological constant. This gives a fully curved version of the linearized correspondence of Baston and Mason [B-M].
Thickenings and conformal gravity
Energy Technology Data Exchange (ETDEWEB)
LeBrun, C. (State Univ. of New York, Stony Brook, NY (USA). Dept. of Mathematics)
1991-07-01
A twistor correspondence is given for complex conformal space-times with vanishing Bach and Eastwood-Dighton tensors; when the Weyl curvature is algebraically general, these equations are precisely the conformal version of Einstein's vacuum equations with cosmological constant. This gives a fully curved version of the linearized correspondence of Baston and Mason (B-M). (orig.).
Thickenings and conformal gravity
International Nuclear Information System (INIS)
LeBrun, C.
1991-01-01
A twistor correspondence is given for complex conformal space-times with vanishing Bach and Eastwood-Dighton tensors; when the Weyl curvature is algebraically general, these equations are precisely the conformal version of Einstein's vacuum equations with cosmological constant. This gives a fully curved version of the linearized correspondence of Baston and Mason [B-M]. (orig.)
Communications Relay and Human-Assisted Sample Return from the Deep Space Gateway
Cichan, T.; Hopkins, J. B.; Bierhaus, B.; Murrow, D. W.
2018-02-01
The Deep Space Gateway can enable or enhance exploration of the lunar surface through two capabilities: 1. communications relay, opening up access to the lunar farside, and 2. sample return, enhancing the ability to return large sample masses.
Universal Sample Preparation Module for Molecular Analysis in Space, Phase I
National Aeronautics and Space Administration — Lynntech proposes to develop and demonstrate the ability of a compact, light-weight, and automated universal sample preparation module (USPM) to process samples from...
Sampling large random knots in a confined space
International Nuclear Information System (INIS)
Arsuaga, J; Blackstone, T; Diao, Y; Hinson, K; Karadayi, E; Saito, M
2007-01-01
DNA knots formed under extreme conditions of condensation, as in bacteriophage P4, are difficult to analyze experimentally and theoretically. In this paper, we propose to use the uniform random polygon model as a supplementary method to the existing methods for generating random knots in confinement. The uniform random polygon model allows us to sample knots with large crossing numbers and also to generate large diagrammatically prime knot diagrams. We show numerically that uniform random polygons sample knots with large minimum crossing numbers and certain complicated knot invariants (as those observed experimentally). We do this in terms of the knot determinants or colorings. Our numerical results suggest that the average determinant of a uniform random polygon of n vertices grows faster than O(e n 2 )). We also investigate the complexity of prime knot diagrams. We show rigorously that the probability that a randomly selected 2D uniform random polygon of n vertices is almost diagrammatically prime goes to 1 as n goes to infinity. Furthermore, the average number of crossings in such a diagram is at the order of O(n 2 ). Therefore, the two-dimensional uniform random polygons offer an effective way in sampling large (prime) knots, which can be useful in various applications
Sampling large random knots in a confined space
Arsuaga, J.; Blackstone, T.; Diao, Y.; Hinson, K.; Karadayi, E.; Saito, M.
2007-09-01
DNA knots formed under extreme conditions of condensation, as in bacteriophage P4, are difficult to analyze experimentally and theoretically. In this paper, we propose to use the uniform random polygon model as a supplementary method to the existing methods for generating random knots in confinement. The uniform random polygon model allows us to sample knots with large crossing numbers and also to generate large diagrammatically prime knot diagrams. We show numerically that uniform random polygons sample knots with large minimum crossing numbers and certain complicated knot invariants (as those observed experimentally). We do this in terms of the knot determinants or colorings. Our numerical results suggest that the average determinant of a uniform random polygon of n vertices grows faster than O(e^{n^2}) . We also investigate the complexity of prime knot diagrams. We show rigorously that the probability that a randomly selected 2D uniform random polygon of n vertices is almost diagrammatically prime goes to 1 as n goes to infinity. Furthermore, the average number of crossings in such a diagram is at the order of O(n2). Therefore, the two-dimensional uniform random polygons offer an effective way in sampling large (prime) knots, which can be useful in various applications.
Sampling large random knots in a confined space
Energy Technology Data Exchange (ETDEWEB)
Arsuaga, J [Department of Mathematics, San Francisco State University, 1600 Holloway Ave, San Francisco, CA 94132 (United States); Blackstone, T [Department of Computer Science, San Francisco State University, 1600 Holloway Ave., San Francisco, CA 94132 (United States); Diao, Y [Department of Mathematics and Statistics, University of North Carolina at Charlotte, Charlotte, NC 28223 (United States); Hinson, K [Department of Mathematics and Statistics, University of North Carolina at Charlotte, Charlotte, NC 28223 (United States); Karadayi, E [Department of Mathematics, University of South Florida, 4202 E Fowler Avenue, Tampa, FL 33620 (United States); Saito, M [Department of Mathematics, University of South Florida, 4202 E Fowler Avenue, Tampa, FL 33620 (United States)
2007-09-28
DNA knots formed under extreme conditions of condensation, as in bacteriophage P4, are difficult to analyze experimentally and theoretically. In this paper, we propose to use the uniform random polygon model as a supplementary method to the existing methods for generating random knots in confinement. The uniform random polygon model allows us to sample knots with large crossing numbers and also to generate large diagrammatically prime knot diagrams. We show numerically that uniform random polygons sample knots with large minimum crossing numbers and certain complicated knot invariants (as those observed experimentally). We do this in terms of the knot determinants or colorings. Our numerical results suggest that the average determinant of a uniform random polygon of n vertices grows faster than O(e{sup n{sup 2}}). We also investigate the complexity of prime knot diagrams. We show rigorously that the probability that a randomly selected 2D uniform random polygon of n vertices is almost diagrammatically prime goes to 1 as n goes to infinity. Furthermore, the average number of crossings in such a diagram is at the order of O(n{sup 2}). Therefore, the two-dimensional uniform random polygons offer an effective way in sampling large (prime) knots, which can be useful in various applications.
Deshmukh, Lalit; Schwieters, Charles D; Grishaev, Alexander; Clore, G Marius
2016-06-03
Nucleic-acid-related events in the HIV-1 replication cycle are mediated by nucleocapsid, a small protein comprising two zinc knuckles connected by a short flexible linker and flanked by disordered termini. Combining experimental NMR residual dipolar couplings, solution X-ray scattering and protein engineering with ensemble simulated annealing, we obtain a quantitative description of the configurational space sampled by the two zinc knuckles, the linker and disordered termini in the absence of nucleic acids. We first compute the conformational ensemble (with an optimal size of three members) of an engineered nucleocapsid construct lacking the N- and C-termini that satisfies the experimental restraints, and then validate this ensemble, as well as characterize the disordered termini, using the experimental data from the full-length nucleocapsid construct. The experimental and computational strategy is generally applicable to multidomain proteins. Differential flexibility within the linker results in asymmetric motion of the zinc knuckles which may explain their functionally distinct roles despite high sequence identity. One of the configurations (populated at a level of ≈40 %) closely resembles that observed in various ligand-bound forms, providing evidence for conformational selection and a mechanistic link between protein dynamics and function. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
Dielectric sample with two-layer charge distribution for space charge calibration purposes
DEFF Research Database (Denmark)
Holbøll, Joachim; Henriksen, Mogens; Rasmussen, C.
2002-01-01
In the present paper is described a dielectric test sample with two very narrow concentrations of bulk charges, achieved by two internal electrodes not affecting the acoustical properties of the sample, a fact important for optimal application of most space charge measuring systems. Space charge...
Human-Robot Site Survey and Sampling for Space Exploration
Fong, Terrence; Bualat, Maria; Edwards, Laurence; Flueckiger, Lorenzo; Kunz, Clayton; Lee, Susan Y.; Park, Eric; To, Vinh; Utz, Hans; Ackner, Nir
2006-01-01
NASA is planning to send humans and robots back to the Moon before 2020. In order for extended missions to be productive, high quality maps of lunar terrain and resources are required. Although orbital images can provide much information, many features (local topography, resources, etc) will have to be characterized directly on the surface. To address this need, we are developing a system to perform site survey and sampling. The system includes multiple robots and humans operating in a variety of team configurations, coordinated via peer-to-peer human-robot interaction. In this paper, we present our system design and describe planned field tests.
Liu, Xiaofeng; Bai, Fang; Ouyang, Sisheng; Wang, Xicheng; Li, Honglin; Jiang, Hualiang
2009-03-31
Conformation generation is a ubiquitous problem in molecule modelling. Many applications require sampling the broad molecular conformational space or perceiving the bioactive conformers to ensure success. Numerous in silico methods have been proposed in an attempt to resolve the problem, ranging from deterministic to non-deterministic and systemic to stochastic ones. In this work, we described an efficient conformation sampling method named Cyndi, which is based on multi-objective evolution algorithm. The conformational perturbation is subjected to evolutionary operation on the genome encoded with dihedral torsions. Various objectives are designated to render the generated Pareto optimal conformers to be energy-favoured as well as evenly scattered across the conformational space. An optional objective concerning the degree of molecular extension is added to achieve geometrically extended or compact conformations which have been observed to impact the molecular bioactivity (J Comput -Aided Mol Des 2002, 16: 105-112). Testing the performance of Cyndi against a test set consisting of 329 small molecules reveals an average minimum RMSD of 0.864 A to corresponding bioactive conformations, indicating Cyndi is highly competitive against other conformation generation methods. Meanwhile, the high-speed performance (0.49 +/- 0.18 seconds per molecule) renders Cyndi to be a practical toolkit for conformational database preparation and facilitates subsequent pharmacophore mapping or rigid docking. The copy of precompiled executable of Cyndi and the test set molecules in mol2 format are accessible in Additional file 1. On the basis of MOEA algorithm, we present a new, highly efficient conformation generation method, Cyndi, and report the results of validation and performance studies comparing with other four methods. The results reveal that Cyndi is capable of generating geometrically diverse conformers and outperforms other four multiple conformer generators in the case of
Directory of Open Access Journals (Sweden)
Li Honglin
2009-03-01
Full Text Available Abstract Background Conformation generation is a ubiquitous problem in molecule modelling. Many applications require sampling the broad molecular conformational space or perceiving the bioactive conformers to ensure success. Numerous in silico methods have been proposed in an attempt to resolve the problem, ranging from deterministic to non-deterministic and systemic to stochastic ones. In this work, we described an efficient conformation sampling method named Cyndi, which is based on multi-objective evolution algorithm. Results The conformational perturbation is subjected to evolutionary operation on the genome encoded with dihedral torsions. Various objectives are designated to render the generated Pareto optimal conformers to be energy-favoured as well as evenly scattered across the conformational space. An optional objective concerning the degree of molecular extension is added to achieve geometrically extended or compact conformations which have been observed to impact the molecular bioactivity (J Comput -Aided Mol Des 2002, 16: 105–112. Testing the performance of Cyndi against a test set consisting of 329 small molecules reveals an average minimum RMSD of 0.864 Å to corresponding bioactive conformations, indicating Cyndi is highly competitive against other conformation generation methods. Meanwhile, the high-speed performance (0.49 ± 0.18 seconds per molecule renders Cyndi to be a practical toolkit for conformational database preparation and facilitates subsequent pharmacophore mapping or rigid docking. The copy of precompiled executable of Cyndi and the test set molecules in mol2 format are accessible in Additional file 1. Conclusion On the basis of MOEA algorithm, we present a new, highly efficient conformation generation method, Cyndi, and report the results of validation and performance studies comparing with other four methods. The results reveal that Cyndi is capable of generating geometrically diverse conformers and outperforms
Conformational analysis by intersection: CONAN.
Smellie, Andrew; Stanton, Robert; Henne, Randy; Teig, Steve
2003-01-15
As high throughput techniques in chemical synthesis and screening improve, more demands are placed on computer assisted design and virtual screening. Many of these computational methods require one or more three-dimensional conformations for molecules, creating a demand for a conformational analysis tool that can rapidly and robustly cover the low-energy conformational spaces of small molecules. A new algorithm of intersection is presented here, which quickly generates (on average heuristics are applied after intersection to generate a small representative collection of conformations that span the conformational space. In a study of approximately 97,000 randomly selected molecules from the MDDR, results are presented that explore these conformations and their ability to cover low-energy conformational space. Copyright 2002 Wiley Periodicals, Inc. J Comput Chem 24: 10-20, 2003
DEFF Research Database (Denmark)
Ryttov, Thomas Aaby; Sannino, Francesco
2010-01-01
fixed point. As a consistency check we recover the previously investigated bounds of the conformal windows when restricting to a single matter representation. The earlier conformal windows can be imagined to be part now of the new conformal house. We predict the nonperturbative anomalous dimensions...... at the infrared fixed points. We further investigate the effects of adding mass terms to the condensates on the conformal house chiral dynamics and construct the simplest instanton induced effective Lagrangian terms...
International Nuclear Information System (INIS)
Rahman, M.S.
1991-10-01
A birecurrent space is defined with its classification and studied with involvement of Einstein, conformally flat, conformally symmetric and conformally recurrent spaces. A necessary and sufficient condition that a birecurrent space be recurrent is found. (author). 6 refs
Enabling Global Lunar Sample Return and Life-Detection Studies Using a Deep-Space Gateway
Cohen, B. A.; Eigenbrode, J. A.; Young, K. E.; Bleacher, J. E.; Trainer, M. E.
2018-02-01
The Deep Space Gateway could uniquely enable a lunar robotic sampling campaign that would provide incredible science return as well as feed forward to Mars and Europa by testing instrument sterility and ability to distinguish biogenic signals.
Vrublevskis, J.; Berthoud, L.; Guest, M.; Smith, C.; Bennett, A.; Gaubert, F.; Schroeven-Deceuninck, H.; Duvet, L.; van Winnendael, M.
2018-04-01
This presentation gives an overview of the several studies conducted for the European Space Agency (ESA) since 2007, which progressively developed layouts for a potential implementation of a Mars Sample Receiving Facility (MSRF).
Directory of Open Access Journals (Sweden)
Jonathan W Stone
Full Text Available We present new modifications to the Wuchty algorithm in order to better define and explore possible conformations for an RNA sequence. The new features, including parallelization, energy-independent lonely pair constraints, context-dependent chemical probing constraints, helix filters, and optional multibranch loops, provide useful tools for exploring the landscape of RNA folding. Chemical probing alone may not necessarily define a single unique structure. The helix filters and optional multibranch loops are global constraints on RNA structure that are an especially useful tool for generating models of encapsidated viral RNA for which cryoelectron microscopy or crystallography data may be available. The computations generate a combinatorially complete set of structures near a free energy minimum and thus provide data on the density and diversity of structures near the bottom of a folding funnel for an RNA sequence. The conformational landscapes for some RNA sequences may resemble a low, wide basin rather than a steep funnel that converges to a single structure.
Conformal superalgebras via tractor calculus
Lischewski, Andree
2015-01-01
We use the manifestly conformally invariant description of a Lorentzian conformal structure in terms of a parabolic Cartan geometry in order to introduce a superalgebra structure on the space of twistor spinors and normal conformal vector fields formulated in purely algebraic terms on parallel sections in tractor bundles. Via a fixed metric in the conformal class, one reproduces a conformal superalgebra structure that has been considered in the literature before. The tractor approach, however, makes clear that the failure of this object to be a Lie superalgebra in certain cases is due to purely algebraic identities on the spinor module and to special properties of the conformal holonomy representation. Moreover, it naturally generalizes to higher signatures. This yields new formulas for constructing new twistor spinors and higher order normal conformal Killing forms out of existing ones, generalizing the well-known spinorial Lie derivative. Moreover, we derive restrictions on the possible dimension of the space of twistor spinors in any metric signature.
This section provides information on: current laws, regulations and guidance, policy and technical guidance, project-level conformity, general information, contacts and training, adequacy review of SIP submissions
DEFF Research Database (Denmark)
Wang, Fei; Petersen, Dirch Hjorth; Østerberg, Frederik Westergaard
2009-01-01
In this paper, we discuss a probe spacing dependence study in order to estimate the accuracy of micro four-point probe measurements on inhomogeneous samples. Based on sensitivity calculations, both sheet resistance and Hall effect measurements are studied for samples (e.g. laser annealed samples...... the probe spacing is smaller than 1/40 of the variation wavelength, micro four-point probes can provide an accurate record of local properties with less than 1% measurement error. All the calculations agree well with previous experimental results.......) with periodic variations of sheet resistance, sheet carrier density, and carrier mobility. With a variation wavelength of Â¿, probe spacings from 0.0012 to 1002 have been applied to characterize the local variations. The calculations show that the measurement error is highly dependent on the probe spacing. When...
Angart, S.; Lauer, M.; Tewari, S. N.; Grugel, R. N.; Poirier, D. R.
2014-01-01
This article reports research that has been carried out under the aegis of NASA as part of a collaboration between ESA and NASA for solidification experiments on the International Space Station (ISS). The focus has been on the effect of convection on the microstructural evolution and macrosegregation in hypoeutectic Al-Si alloys during directional solidification (DS). Terrestrial DS-experiments have been carried out at Cleveland State University (CSU) and under microgravity on the International Space Station (ISS). The thermal processing-history of the experiments is well defined for both the terrestrially processed samples and the ISS-processed samples. As of this writing, two dendritic metrics was measured: primary dendrite arm spacings and primary dendrite trunk diameters. We have observed that these dendrite-metrics of two samples grown in the microgravity environment show good agreements with models based on diffusion controlled growth and diffusion controlled ripening, respectively. The gravity-driven convection (i.e., thermosolutal convection) in terrestrially grown samples has the effect of decreasing the primary dendrite arm spacings and causes macrosegregation. Dendrite trunk diameters also show differences between the earth- and space-grown samples. In order to process DS-samples aboard the ISS, the dendritic seed crystals were partially remelted in a stationary thermal gradient before the DS was carried out. Microstructural changes and macrosegregation effects during this period are described and have modeled.
Tewari, Surendra; Rajamure, Ravi; Grugel, Richard; Erdmann, Robert; Poirier, David
2012-01-01
Influence of natural convection on primary dendrite array morphology during directional solidification is being investigated under a collaborative European Space Agency-NASA joint research program, "Microstructure Formation in Castings of Technical Alloys under Diffusive and Magnetically Controlled Convective Conditions (MICAST)". Two Aluminum-7 wt pct Silicon alloy samples, MICAST6 and MICAST7, were directionally solidified in microgravity on the International Space Station. Terrestrially grown dendritic monocrystal cylindrical samples were remelted and directionally solidified at 18 K/cm (MICAST6) and 28 K/cm (MICAST7). Directional solidification involved a growth speed step increase (MICAST6-from 5 to 50 micron/s) and a speed decrease (MICAST7-from 20 to 10 micron/s). Distribution and morphology of primary dendrites is currently being characterized in these samples, and also in samples solidified on earth under nominally similar thermal gradients and growth speeds. Primary dendrite spacing and trunk diameter measurements from this investigation will be presented.
Reduced aliasing artifacts using shaking projection k-space sampling trajectory
Zhu, Yan-Chun; Du, Jiang; Yang, Wen-Chao; Duan, Chai-Jie; Wang, Hao-Yu; Gao, Song; Bao, Shang-Lian
2014-03-01
Radial imaging techniques, such as projection-reconstruction (PR), are used in magnetic resonance imaging (MRI) for dynamic imaging, angiography, and short-T2 imaging. They are less sensitive to flow and motion artifacts, and support fast imaging with short echo times. However, aliasing and streaking artifacts are two main sources which degrade radial imaging quality. For a given fixed number of k-space projections, data distributions along radial and angular directions will influence the level of aliasing and streaking artifacts. Conventional radial k-space sampling trajectory introduces an aliasing artifact at the first principal ring of point spread function (PSF). In this paper, a shaking projection (SP) k-space sampling trajectory was proposed to reduce aliasing artifacts in MR images. SP sampling trajectory shifts the projection alternately along the k-space center, which separates k-space data in the azimuthal direction. Simulations based on conventional and SP sampling trajectories were compared with the same number projections. A significant reduction of aliasing artifacts was observed using the SP sampling trajectory. These two trajectories were also compared with different sampling frequencies. A SP trajectory has the same aliasing character when using half sampling frequency (or half data) for reconstruction. SNR comparisons with different white noise levels show that these two trajectories have the same SNR character. In conclusion, the SP trajectory can reduce the aliasing artifact without decreasing SNR and also provide a way for undersampling reconstruction. Furthermore, this method can be applied to three-dimensional (3D) hybrid or spherical radial k-space sampling for a more efficient reduction of aliasing artifacts.
Reduced aliasing artifacts using shaking projection k-space sampling trajectory
International Nuclear Information System (INIS)
Zhu Yan-Chun; Yang Wen-Chao; Wang Hao-Yu; Gao Song; Bao Shang-Lian; Du Jiang; Duan Chai-Jie
2014-01-01
Radial imaging techniques, such as projection-reconstruction (PR), are used in magnetic resonance imaging (MRI) for dynamic imaging, angiography, and short-T2 imaging. They are less sensitive to flow and motion artifacts, and support fast imaging with short echo times. However, aliasing and streaking artifacts are two main sources which degrade radial imaging quality. For a given fixed number of k-space projections, data distributions along radial and angular directions will influence the level of aliasing and streaking artifacts. Conventional radial k-space sampling trajectory introduces an aliasing artifact at the first principal ring of point spread function (PSF). In this paper, a shaking projection (SP) k-space sampling trajectory was proposed to reduce aliasing artifacts in MR images. SP sampling trajectory shifts the projection alternately along the k-space center, which separates k-space data in the azimuthal direction. Simulations based on conventional and SP sampling trajectories were compared with the same number projections. A significant reduction of aliasing artifacts was observed using the SP sampling trajectory. These two trajectories were also compared with different sampling frequencies. A SP trajectory has the same aliasing character when using half sampling frequency (or half data) for reconstruction. SNR comparisons with different white noise levels show that these two trajectories have the same SNR character. In conclusion, the SP trajectory can reduce the aliasing artifact without decreasing SNR and also provide a way for undersampling reconstruction. Furthermore, this method can be applied to three-dimensional (3D) hybrid or spherical radial k-space sampling for a more efficient reduction of aliasing artifacts
Directory of Open Access Journals (Sweden)
Nikolay Ivantchev
2013-10-01
Full Text Available Conformism was studied among 46 workers with different kinds of occupations by means of two modified scales measuring conformity by Santor, Messervey, and Kusumakar (2000 – scale for perceived peer pressure and scale for conformism in antisocial situations. The hypothesis of the study that workers’ conformism is expressed in a medium degree was confirmed partly. More than a half of the workers conform in a medium degree for taking risk, and for the use of alcohol and drugs, and for sexual relationships. More than a half of the respondents conform in a small degree for anti-social activities (like a theft. The workers were more inclined to conform for risk taking (10.9%, then – for the use of alcohol, drugs and for sexual relationships (8.7%, and in the lowest degree – for anti-social activities (6.5%. The workers who were inclined for the use of alcohol and drugs tended also to conform for anti-social activities.
Directory of Open Access Journals (Sweden)
Yasuhiko Murata
Full Text Available To understand how humans adapt to the space environment, many experiments can be conducted on astronauts as they work aboard the Space Shuttle or the International Space Station (ISS. We also need animal experiments that can apply to human models and help prevent or solve the health issues we face in space travel. The Japanese medaka (Oryzias latipes is a suitable model fish for studying space adaptation as evidenced by adults of the species having mated successfully in space during 15 days of flight during the second International Microgravity Laboratory mission in 1994. The eggs laid by the fish developed normally and hatched as juveniles in space. In 2012, another space experiment ("Medaka Osteoclast" was conducted. Six-week-old male and female Japanese medaka (Cab strain osteoblast transgenic fish were maintained in the Aquatic Habitat system for two months in the ISS. Fish of the same strain and age were used as the ground controls. Six fish were fixed with paraformaldehyde or kept in RNA stabilization reagent (n = 4 and dissected for tissue sampling after being returned to the ground, so that several principal investigators working on the project could share samples. Histology indicated no significant changes except in the ovary. However, the RNA-seq analysis of 5345 genes from six tissues revealed highly tissue-specific space responsiveness after a two-month stay in the ISS. Similar responsiveness was observed among the brain and eye, ovary and testis, and the liver and intestine. Among these six tissues, the intestine showed the highest space response with 10 genes categorized as oxidation-reduction processes (gene ontogeny term GO:0055114, and the expression levels of choriogenin precursor genes were suppressed in the ovary. Eleven genes including klf9, klf13, odc1, hsp70 and hif3a were upregulated in more than four of the tissues examined, thus suggesting common immunoregulatory and stress responses during space adaptation.
Banner, David W; Gsell, Bernard; Benz, Jörg; Bertschinger, Julian; Burger, Dominique; Brack, Simon; Cuppuleri, Simon; Debulpaep, Maja; Gast, Alain; Grabulovski, Dragan; Hennig, Michael; Hilpert, Hans; Huber, Walter; Kuglstatter, Andreas; Kusznir, Eric; Laeremans, Toon; Matile, Hugues; Miscenic, Christian; Rufer, Arne C; Schlatter, Daniel; Steyaert, Jan; Stihle, Martine; Thoma, Ralf; Weber, Martin; Ruf, Armin
2013-06-01
The aspartic protease BACE2 is responsible for the shedding of the transmembrane protein Tmem27 from the surface of pancreatic β-cells, which leads to inactivation of the β-cell proliferating activity of Tmem27. This role of BACE2 in the control of β-cell maintenance suggests BACE2 as a drug target for diabetes. Inhibition of BACE2 has recently been shown to lead to improved control of glucose homeostasis and to increased insulin levels in insulin-resistant mice. BACE2 has 52% sequence identity to the well studied Alzheimer's disease target enzyme β-secretase (BACE1). High-resolution BACE2 structures would contribute significantly to the investigation of this enzyme as either a drug target or anti-target. Surface mutagenesis, BACE2-binding antibody Fab fragments, single-domain camelid antibody VHH fragments (Xaperones) and Fyn-kinase-derived SH3 domains (Fynomers) were used as crystallization helpers to obtain the first high-resolution structures of BACE2. Eight crystal structures in six different packing environments define an ensemble of low-energy conformations available to the enzyme. Here, the different strategies used for raising and selecting BACE2 binders for cocrystallization are described and the crystallization success, crystal quality and the time and resources needed to obtain suitable crystals are compared.
Noronha, Jorge; Gyulassy, Miklos; Torrieri, Giorgio
2009-03-13
We show that far zone Mach and diffusion wake "holograms" produced by supersonic strings in anti-de Sitter space/conformal field theory (AdS/CFT) correspondence do not lead to observable conical angular correlations in the strict N_{c}-->infinity supergravity limit if Cooper-Frye hadronization is assumed. However, a special nonequilibrium "neck" zone near the jet is shown to produce an apparent sonic boom azimuthal angle distribution that is roughly independent of the heavy quark's velocity. Our results indicate that a measurement of the dependence of the away-side correlations on the velocity of associated identified heavy quark jets at the BNL Relativistic Heavy Ion Collider and CERN LHC will provide a direct test of the nonperturbative dynamics involved in the coupling between jets and the strongly coupled quark-gluon plasma implied by AdS/CFT correspondence.
International Nuclear Information System (INIS)
Noronha, Jorge; Gyulassy, Miklos; Torrieri, Giorgio
2009-01-01
We show that far zone Mach and diffusion wake 'holograms' produced by supersonic strings in anti-de Sitter space/conformal field theory (AdS/CFT) correspondence do not lead to observable conical angular correlations in the strict N c →∞ supergravity limit if Cooper-Frye hadronization is assumed. However, a special nonequilibrium 'neck' zone near the jet is shown to produce an apparent sonic boom azimuthal angle distribution that is roughly independent of the heavy quark's velocity. Our results indicate that a measurement of the dependence of the away-side correlations on the velocity of associated identified heavy quark jets at the BNL Relativistic Heavy Ion Collider and CERN LHC will provide a direct test of the nonperturbative dynamics involved in the coupling between jets and the strongly coupled quark-gluon plasma implied by AdS/CFT correspondence
Reachable Distance Space: Efficient Sampling-Based Planning for Spatially Constrained Systems
Xinyu Tang,
2010-01-25
Motion planning for spatially constrained robots is difficult due to additional constraints placed on the robot, such as closure constraints for closed chains or requirements on end-effector placement for articulated linkages. It is usually computationally too expensive to apply sampling-based planners to these problems since it is difficult to generate valid configurations. We overcome this challenge by redefining the robot\\'s degrees of freedom and constraints into a new set of parameters, called reachable distance space (RD-space), in which all configurations lie in the set of constraint-satisfying subspaces. This enables us to directly sample the constrained subspaces with complexity linear in the number of the robot\\'s degrees of freedom. In addition to supporting efficient sampling of configurations, we show that the RD-space formulation naturally supports planning and, in particular, we design a local planner suitable for use by sampling-based planners. We demonstrate the effectiveness and efficiency of our approach for several systems including closed chain planning with multiple loops, restricted end-effector sampling, and on-line planning for drawing/sculpting. We can sample single-loop closed chain systems with 1,000 links in time comparable to open chain sampling, and we can generate samples for 1,000-link multi-loop systems of varying topologies in less than a second. © 2010 The Author(s).
Grugel, Richard N,; Tewari, Surendra; Rajamure, R. S.; Erdman, Robert; Poirier, David
2012-01-01
Primary dendrite arm spacings of Al-7 wt% Si alloy directionally solidified in low gravity environment of space (MICAST-6 and MICAST-7: Thermal gradient approx. 19 to 26 K/cm, Growth speeds varying from 5 to 50 microns/s show good agreement with the Hunt-Lu model. Primary dendrite trunk diameters of the ISS processed samples show a good fit with a simple analytical model based on Kirkwood s approach, proposed here. Natural convection, a) decreases primary dendrite arm spacing. b) appears to increase primary dendrite trunk diameter.
Czech Academy of Sciences Publication Activity Database
Hexnerová, Rozálie; Křížková, Květoslava; Fábry, Milan; Sieglová, Irena; Kedrová, Kateřina; Collinsová, Michaela; Ullrichová, P.; Srb, Pavel; Williams, C.; Crump, M. P.; Tošner, Z.; Jiráček, Jiří; Veverka, Václav; Žáková, Lenka
2016-01-01
Roč. 291, č. 40 (2016), s. 21234-21245 ISSN 0021-9258 R&D Projects: GA ČR GA15-19018S; GA MŠk(CZ) LK11205; GA MŠk(CZ) LO1304 Institutional support: RVO:61388963 ; RVO:68378050 Keywords : insulin * IGF-2 * receptor Subject RIV: CE - Biochemistry Impact factor: 4.125, year: 2016 http://www.jbc.org/content/291/40/21234.full
Correlation between k-space sampling pattern and MTF in compressed sensing MRSI.
Heikal, A A; Wachowicz, K; Fallone, B G
2016-10-01
To investigate the relationship between the k-space sampling patterns used for compressed sensing MR spectroscopic imaging (CS-MRSI) and the modulation transfer function (MTF) of the metabolite maps. This relationship may allow the desired frequency content of the metabolite maps to be quantitatively tailored when designing an undersampling pattern. Simulations of a phantom were used to calculate the MTF of Nyquist sampled (NS) 32 × 32 MRSI, and four-times undersampled CS-MRSI reconstructions. The dependence of the CS-MTF on the k-space sampling pattern was evaluated for three sets of k-space sampling patterns generated using different probability distribution functions (PDFs). CS-MTFs were also evaluated for three more sets of patterns generated using a modified algorithm where the sampling ratios are constrained to adhere to PDFs. Strong visual correlation as well as high R 2 was found between the MTF of CS-MRSI and the product of the frequency-dependant sampling ratio and the NS 32 × 32 MTF. Also, PDF-constrained sampling patterns led to higher reproducibility of the CS-MTF, and stronger correlations to the above-mentioned product. The relationship established in this work provides the user with a theoretical solution for the MTF of CS MRSI that is both predictable and customizable to the user's needs.
Conformal hyperbolicity of Lorentzian warped products
International Nuclear Information System (INIS)
Markowitz, M.J.
1982-01-01
A space-time M is said to be conformally hyperbolic if the intrinsic conformal Lorentz pseudodistance dsub(M) is a true distance. In this paper criteria are derived which insure the conformal hyperbolicity of certain space-times which are generalizations of the Robertson-Walker spaces. Then dsub(M) is determined explicitly for Einstein-de Sitter space, and important cosmological model. (author)
Conformal hyperbolicity of Lorentzian warped products
Energy Technology Data Exchange (ETDEWEB)
Markowitz, M.J. (Chicago Univ., IL (USA). Dept. of Mathematics)
1982-12-01
A space-time M is said to be conformally hyperbolic if the intrinsic conformal Lorentz pseudodistance dsub(M) is a true distance. In this paper criteria are derived which insure the conformal hyperbolicity of certain space-times which are generalizations of the Robertson-Walker spaces. Then dsub(M) is determined explicitly for Einstein-de Sitter space, and important cosmological model.
Directory of Open Access Journals (Sweden)
Frauendiener Jörg
2000-08-01
Full Text Available The notion of conformal infinity has a long history within the research in Einstein's theory of gravity. Today, ``conformal infinity'' is related with almost all other branches of research in general relativity, from quantisation procedures to abstract mathematical issues to numerical applications. This review article attempts to show how this concept gradually and inevitably evolved out of physical issues, namely the need to understand gravitational radiation and isolated systems within the theory of gravitation and how it lends itself very naturally to solve radiation problems in numerical relativity. The fundamental concept of null-infinity is introduced. Friedrich's regular conformal field equations are presented and various initial value problems for them are discussed. Finally, it is shown that the conformal field equations provide a very powerful method within numerical relativity to study global problems such as gravitational wave propagation and detection.
Frauendiener, Jörg
2004-01-01
The notion of conformal infinity has a long history within the research in Einstein's theory of gravity. Today, "conformal infinity" is related to almost all other branches of research in general relativity, from quantisation procedures to abstract mathematical issues to numerical applications. This review article attempts to show how this concept gradually and inevitably evolved from physical issues, namely the need to understand gravitational radiation and isolated systems within the theory of gravitation, and how it lends itself very naturally to the solution of radiation problems in numerical relativity. The fundamental concept of null-infinity is introduced. Friedrich's regular conformal field equations are presented and various initial value problems for them are discussed. Finally, it is shown that the conformal field equations provide a very powerful method within numerical relativity to study global problems such as gravitational wave propagation and detection.
Directory of Open Access Journals (Sweden)
Frauendiener Jörg
2004-01-01
Full Text Available The notion of conformal infinity has a long history within the research in Einstein's theory of gravity. Today, 'conformal infinity' is related to almost all other branches of research in general relativity, from quantisation procedures to abstract mathematical issues to numerical applications. This review article attempts to show how this concept gradually and inevitably evolved from physical issues, namely the need to understand gravitational radiation and isolated systems within the theory of gravitation, and how it lends itself very naturally to the solution of radiation problems in numerical relativity. The fundamental concept of null-infinity is introduced. Friedrich's regular conformal field equations are presented and various initial value problems for them are discussed. Finally, it is shown that the conformal field equations provide a very powerful method within numerical relativity to study global problems such as gravitational wave propagation and detection.
The General Conformity requirements ensure that the actions taken by federal agencies in nonattainment and maintenance areas do not interfere with a state’s plans to meet national standards for air quality.
Frauendiener, J?rg
2000-01-01
The notion of conformal infinity has a long history within the research in Einstein's theory of gravity. Today, 'conformal infinity' is related to almost all other branches of research in general relativity, from quantisation procedures to abstract mathematical issues to numerical applications. This review article attempts to show how this concept gradually and inevitably evolved from physical issues, namely the need to understand gravitational radiation and isolated systems within the theory...
A Transmission Electron Microscope Investigation of Space Weathering Effects in Hayabusa Samples
Keller, Lindsay P.; Berger, Eve L.
2014-01-01
The Hayabusa mission to asteroid 25143 Itokawa successfully returned the first direct samples of the regolith from the surface of an asteroid. The Hayabusa samples thus present a special opportunity to directly investigate the evolution of asteroidal surfaces, from the development of the regolith to the study of the more complex effects of space weathering. Here we describe the mineralogy, microstructure and composition of three Hayabusa mission particles using transmission electron microscope (TEM) techniques
International Nuclear Information System (INIS)
Garcia-Vela, A.
2002-01-01
A new quantum-type phase-space distribution is proposed in order to sample initial conditions for classical trajectory simulations. The phase-space distribution is obtained as the modulus of a quantum phase-space state of the system, defined as the direct product of the coordinate and momentum representations of the quantum initial state. The distribution is tested by sampling initial conditions which reproduce the initial state of the Ar-HCl cluster prepared by ultraviolet excitation, and by simulating the photodissociation dynamics by classical trajectories. The results are compared with those of a wave packet calculation, and with a classical simulation using an initial phase-space distribution recently suggested. A better agreement is found between the classical and the quantum predictions with the present phase-space distribution, as compared with the previous one. This improvement is attributed to the fact that the phase-space distribution propagated classically in this work resembles more closely the shape of the wave packet propagated quantum mechanically
Architectural Design Space Exploration of an FPGA-based Compressed Sampling Engine
DEFF Research Database (Denmark)
El-Sayed, Mohammad; Koch, Peter; Le Moullec, Yannick
2015-01-01
We present the architectural design space exploration of a compressed sampling engine for use in a wireless heart-rate monitoring system. We show how parallelism affects execution time at the register transfer level. Furthermore, two example solutions (modified semi-parallel and full...
An extended sampling of the configurational space of HPr from E-coli
de Groot, B.L.; Amadei, A; Scheek, R.M.; van Nuland, N.A.J.; Berendsen, H.J.C.
1996-01-01
Recently, we developed a method (Amadei et al., J. Biomol, Str. Dyn, 13: 815-626; de Groot et al., J. Biomol. Str. Dyn. 13: 741-751, 1996) to obtain an extended sampling of the configurational space of proteins, casing an adapted form of molecular dynamics (MD) simulations, based on the essential
Numerically Accelerated Importance Sampling for Nonlinear Non-Gaussian State Space Models
Koopman, S.J.; Lucas, A.; Scharth, M.
2015-01-01
We propose a general likelihood evaluation method for nonlinear non-Gaussian state-space models using the simulation-based method of efficient importance sampling. We minimize the simulation effort by replacing some key steps of the likelihood estimation procedure by numerical integration. We refer
An extended sampling of the configurational space of HPr from E-coli
de Groot, B.L.; Amadei, A; Scheek, R.M.; van Nuland, N.A.J.; Berendsen, H.J.C.
Recently, we developed a method (Amadei et al., J. Biomol, Str. Dyn, 13: 815-626; de Groot et al., J. Biomol. Str. Dyn. 13: 741-751, 1996) to obtain an extended sampling of the configurational space of proteins, casing an adapted form of molecular dynamics (MD) simulations, based on the essential
Families and degenerations of conformal field theories
Energy Technology Data Exchange (ETDEWEB)
Roggenkamp, D.
2004-09-01
In this work, moduli spaces of conformal field theories are investigated. In the first part, moduli spaces corresponding to current-current deformation of conformal field theories are constructed explicitly. For WZW models, they are described in detail, and sigma model realizations of the deformed WZW models are presented. The second part is devoted to the study of boundaries of moduli spaces of conformal field theories. For this purpose a notion of convergence of families of conformal field theories is introduced, which admits certain degenerated conformal field theories to occur as limits. To such a degeneration of conformal field theories, a degeneration of metric spaces together with additional geometric structures can be associated, which give rise to a geometric interpretation. Boundaries of moduli spaces of toroidal conformal field theories, orbifolds thereof and WZW models are analyzed. Furthermore, also the limit of the discrete family of Virasoro minimal models is investigated. (orig.)
Conformation radiotherapy and conformal radiotherapy
International Nuclear Information System (INIS)
Morita, Kozo
1999-01-01
In order to coincide the high dose region to the target volume, the 'Conformation Radiotherapy Technique' using the multileaf collimator and the device for 'hollow-out technique' was developed by Prof. S. Takahashi in 1960. This technique can be classified a type of 2D-dynamic conformal RT techniques. By the clinical application of this technique, the late complications of the lens, the intestine and the urinary bladder after radiotherapy for the maxillary cancer and the cervical cancer decreased. Since 1980's the exact position and shape of the tumor and the surrounding normal tissues can be easily obtained by the tremendous development of the CT/MRI imaging technique. As a result, various kinds of new conformal techniques such as the 3D-CRT, the dose intensity modulation, the tomotherapy have been developed since the beginning of 1990'. Several 'dose escalation study with 2D-/3D conformal RT' is now under way to improve the treatment results. (author)
Auto-validating von Neumann rejection sampling from small phylogenetic tree spaces
Directory of Open Access Journals (Sweden)
York Thomas
2009-01-01
Full Text Available Abstract Background In phylogenetic inference one is interested in obtaining samples from the posterior distribution over the tree space on the basis of some observed DNA sequence data. One of the simplest sampling methods is the rejection sampler due to von Neumann. Here we introduce an auto-validating version of the rejection sampler, via interval analysis, to rigorously draw samples from posterior distributions over small phylogenetic tree spaces. Results The posterior samples from the auto-validating sampler are used to rigorously (i estimate posterior probabilities for different rooted topologies based on mitochondrial DNA from human, chimpanzee and gorilla, (ii conduct a non-parametric test of rate variation between protein-coding and tRNA-coding sites from three primates and (iii obtain a posterior estimate of the human-neanderthal divergence time. Conclusion This solves the open problem of rigorously drawing independent and identically distributed samples from the posterior distribution over rooted and unrooted small tree spaces (3 or 4 taxa based on any multiply-aligned sequence data.
DEFF Research Database (Denmark)
Holbøll, Joachim; Bambery, K. R.; Fleming, R. J.
2000-01-01
Electromagnetic theory predicts that a dielectric sample in which a steady DC current of density ε is flowing, and in which the ratio of permittivity ε to conductivity σ varies with position, will acquire a space charge density j·grad(ε/σ). A simple and convenient way to generate an ε/σ gradient...... in a homogeneous sample is to establish a temperature gradient across it. The resulting spatial variation in ε is usually small in polymeric insulators, but the variation in σ can be appreciable. Laser induced pressure pulse (LIPP) measurements were made on 1.5 mm thick plaques of ultra pure LDPE equipped...... with vacuum-evaporated aluminium electrodes. Temperature differences up to 27°C were maintained across the samples, which were subjected to DC fields up to 20 kV/mm. Current density was measured as a function of temperature and field. Negligible thermally generated space charge was observed. The charge...
Focused conformational sampling in proteins
Czech Academy of Sciences Publication Activity Database
Bacci, M.; Langini, C.; Vymětal, Jiří; Caflisch, A.; Vitalis, A.
2017-01-01
Roč. 147, č. 19 (2017), č. článku 195102. ISSN 0021-9606 Institutional support: RVO:61388963 Keywords : molecular dynamics simulations * histone recognition * fibril elongation Subject RIV: CF - Physical ; Theoretical Chemistry OBOR OECD: Physical chemistry Impact factor: 2.965, year: 2016
International Nuclear Information System (INIS)
Hooft, G.
2012-01-01
The dynamical degree of freedom for the gravitational force is the metric tensor, having 10 locally independent degrees of freedom (of which 4 can be used to fix the coordinate choice). In conformal gravity, we split this field into an overall scalar factor and a nine-component remainder. All unrenormalizable infinities are in this remainder, while the scalar component can be handled like any other scalar field such as the Higgs field. In this formalism, conformal symmetry is spontaneously broken. An imperative demand on any healthy quantum gravity theory is that black holes should be described as quantum systems with micro-states as dictated by the Hawking-Bekenstein theory. This requires conformal symmetry that may be broken spontaneously but not explicitly, and this means that all conformal anomalies must cancel out. Cancellation of conformal anomalies yields constraints on the matter sector as described by some universal field theory. Thus black hole physics may eventually be of help in the construction of unified field theories. (author)
Screen Space Ambient Occlusion Based Multiple Importance Sampling for Real-Time Rendering
Zerari, Abd El Mouméne; Babahenini, Mohamed Chaouki
2018-03-01
We propose a new approximation technique for accelerating the Global Illumination algorithm for real-time rendering. The proposed approach is based on the Screen-Space Ambient Occlusion (SSAO) method, which approximates the global illumination for large, fully dynamic scenes at interactive frame rates. Current algorithms that are based on the SSAO method suffer from difficulties due to the large number of samples that are required. In this paper, we propose an improvement to the SSAO technique by integrating it with a Multiple Importance Sampling technique that combines a stratified sampling method with an importance sampling method, with the objective of reducing the number of samples. Experimental evaluation demonstrates that our technique can produce high-quality images in real time and is significantly faster than traditional techniques.
A novel heterogeneous training sample selection method on space-time adaptive processing
Wang, Qiang; Zhang, Yongshun; Guo, Yiduo
2018-04-01
The performance of ground target detection about space-time adaptive processing (STAP) decreases when non-homogeneity of clutter power is caused because of training samples contaminated by target-like signals. In order to solve this problem, a novel nonhomogeneous training sample selection method based on sample similarity is proposed, which converts the training sample selection into a convex optimization problem. Firstly, the existing deficiencies on the sample selection using generalized inner product (GIP) are analyzed. Secondly, the similarities of different training samples are obtained by calculating mean-hausdorff distance so as to reject the contaminated training samples. Thirdly, cell under test (CUT) and the residual training samples are projected into the orthogonal subspace of the target in the CUT, and mean-hausdorff distances between the projected CUT and training samples are calculated. Fourthly, the distances are sorted in order of value and the training samples which have the bigger value are selective preference to realize the reduced-dimension. Finally, simulation results with Mountain-Top data verify the effectiveness of the proposed method.
Allen, J. S.
2009-12-01
NASA is eager for students and the public to experience lunar Apollo rocks and regolith soils first hand. Lunar samples embedded in plastic are available for educators to use in their classrooms, museums, science centers, and public libraries for education activities and display. The sample education disks are valuable tools for engaging students in the exploration of the Solar System. Scientific research conducted on the Apollo rocks has revealed the early history of our Earth-Moon system. The rocks help educators make the connections to this ancient history of our planet as well as connections to the basic lunar surface processes - impact and volcanism. With these samples educators in museums, science centers, libraries, and classrooms can help students and the public understand the key questions pursued by missions to Moon. The Office of the Curator at Johnson Space Center is in the process of reorganizing and renewing the Lunar and Meteorite Sample Education Disk Program to increase reach, security and accountability. The new program expands the reach of these exciting extraterrestrial rocks through increased access to training and educator borrowing. One of the expanded opportunities is that trained certified educators from science centers, museums, and libraries may now borrow the extraterrestrial rock samples. Previously the loan program was only open to classroom educators so the expansion will increase the public access to the samples and allow educators to make the critical connections of the rocks to the exciting exploration missions taking place in our solar system. Each Lunar Disk contains three lunar rocks and three regolith soils embedded in Lucite. The anorthosite sample is a part of the magma ocean formed on the surface of Moon in the early melting period, the basalt is part of the extensive lunar mare lava flows, and the breccias sample is an important example of the violent impact history of the Moon. The disks also include two regolith soils and
Wang, Huiya; Feng, Jun; Wang, Hongyu
2017-07-20
Detection of clustered microcalcification (MC) from mammograms plays essential roles in computer-aided diagnosis for early stage breast cancer. To tackle problems associated with the diversity of data structures of MC lesions and the variability of normal breast tissues, multi-pattern sample space learning is required. In this paper, a novel grouped fuzzy Support Vector Machine (SVM) algorithm with sample space partition based on Expectation-Maximization (EM) (called G-FSVM) is proposed for clustered MC detection. The diversified pattern of training data is partitioned into several groups based on EM algorithm. Then a series of fuzzy SVM are integrated for classification with each group of samples from the MC lesions and normal breast tissues. From DDSM database, a total of 1,064 suspicious regions are selected from 239 mammography, and the measurement of Accuracy, True Positive Rate (TPR), False Positive Rate (FPR) and EVL = TPR* 1-FPR are 0.82, 0.78, 0.14 and 0.72, respectively. The proposed method incorporates the merits of fuzzy SVM and multi-pattern sample space learning, decomposing the MC detection problem into serial simple two-class classification. Experimental results from synthetic data and DDSM database demonstrate that our integrated classification framework reduces the false positive rate significantly while maintaining the true positive rate.
Sample selection via angular distance in the space of the arguments of an artificial neural network
Fernández Jaramillo, J. M.; Mayerle, R.
2018-05-01
In the construction of an artificial neural network (ANN) a proper data splitting of the available samples plays a major role in the training process. This selection of subsets for training, testing and validation affects the generalization ability of the neural network. Also the number of samples has an impact in the time required for the design of the ANN and the training. This paper introduces an efficient and simple method for reducing the set of samples used for training a neural network. The method reduces the required time to calculate the network coefficients, while keeping the diversity and avoiding overtraining the ANN due the presence of similar samples. The proposed method is based on the calculation of the angle between two vectors, each one representing one input of the neural network. When the angle formed among samples is smaller than a defined threshold only one input is accepted for the training. The accepted inputs are scattered throughout the sample space. Tidal records are used to demonstrate the proposed method. The results of a cross-validation show that with few inputs the quality of the outputs is not accurate and depends on the selection of the first sample, but as the number of inputs increases the accuracy is improved and differences among the scenarios with a different starting sample have and important reduction. A comparison with the K-means clustering algorithm shows that for this application the proposed method with a smaller number of samples is producing a more accurate network.
Dynamic Sampling of Trace Contaminants During the Mission Operations Test of the Deep Space Habitat
Monje, Oscar; Valling, Simo; Cornish, Jim
2013-01-01
The atmospheric composition inside spacecraft during long duration space missions is dynamic due to changes in the living and working environment of crew members, crew metabolism and payload operations. A portable FTIR gas analyzer was used to monitor the atmospheric composition within the Deep Space Habitat (DSH) during the Mission Operations Test (MOT) conducted at the Johnson Space Center (JSC). The FTIR monitored up to 20 gases in near- real time. The procedures developed for operating the FTIR were successful and data was collected with the FTIR at 5 minute intervals. Not all the 20 gases sampled were detected in all the modules and it was possible to measure dynamic changes in trace contaminant concentrations that were related to crew activities involving exercise and meal preparation.
Two dimensional infinite conformal symmetry
International Nuclear Information System (INIS)
Mohanta, N.N.; Tripathy, K.C.
1993-01-01
The invariant discontinuous (discrete) conformal transformation groups, namely the Kleinian and Fuchsian groups Gamma (with an arbitrary signature) of H (the Poincare upper half-plane l) and the unit disc Delta are explicitly constructed from the fundamental domain D. The Riemann surface with signatures of Gamma and conformally invariant automorphic forms (functions) with Peterson scalar product are discussed. The functor, where the category of complex Hilbert spaces spanned by the space of cusp forms constitutes the two dimensional conformal field theory. (Author) 7 refs
Towards conformal loop quantum gravity
International Nuclear Information System (INIS)
Wang, Charles H-T
2006-01-01
A discussion is given of recent developments in canonical gravity that assimilates the conformal analysis of gravitational degrees of freedom. The work is motivated by the problem of time in quantum gravity and is carried out at the metric and the triad levels. At the metric level, it is shown that by extending the Arnowitt-Deser-Misner (ADM) phase space of general relativity (GR), a conformal form of geometrodynamics can be constructed. In addition to the Hamiltonian and Diffeomorphism constraints, an extra first class constraint is introduced to generate conformal transformations. This phase space consists of York's mean extrinsic curvature time, conformal three-metric and their momenta. At the triad level, the phase space of GR is further enlarged by incorporating spin-gauge as well as conformal symmetries. This leads to a canonical formulation of GR using a new set of real spin connection variables. The resulting gravitational constraints are first class, consisting of the Hamiltonian constraint and the canonical generators for spin-gauge and conformorphism transformations. The formulation has a remarkable feature of being parameter-free. Indeed, it is shown that a conformal parameter of the Barbero-Immirzi type can be absorbed by the conformal symmetry of the extended phase space. This gives rise to an alternative approach to loop quantum gravity that addresses both the conceptual problem of time and the technical problem of functional calculus in quantum gravity
Deng, Bai-chuan; Yun, Yong-huan; Liang, Yi-zeng; Yi, Lun-zhao
2014-10-07
In this study, a new optimization algorithm called the Variable Iterative Space Shrinkage Approach (VISSA) that is based on the idea of model population analysis (MPA) is proposed for variable selection. Unlike most of the existing optimization methods for variable selection, VISSA statistically evaluates the performance of variable space in each step of optimization. Weighted binary matrix sampling (WBMS) is proposed to generate sub-models that span the variable subspace. Two rules are highlighted during the optimization procedure. First, the variable space shrinks in each step. Second, the new variable space outperforms the previous one. The second rule, which is rarely satisfied in most of the existing methods, is the core of the VISSA strategy. Compared with some promising variable selection methods such as competitive adaptive reweighted sampling (CARS), Monte Carlo uninformative variable elimination (MCUVE) and iteratively retaining informative variables (IRIV), VISSA showed better prediction ability for the calibration of NIR data. In addition, VISSA is user-friendly; only a few insensitive parameters are needed, and the program terminates automatically without any additional conditions. The Matlab codes for implementing VISSA are freely available on the website: https://sourceforge.net/projects/multivariateanalysis/files/VISSA/.
Simulating and assessing boson sampling experiments with phase-space representations
Opanchuk, Bogdan; Rosales-Zárate, Laura; Reid, Margaret D.; Drummond, Peter D.
2018-04-01
The search for new, application-specific quantum computers designed to outperform any classical computer is driven by the ending of Moore's law and the quantum advantages potentially obtainable. Photonic networks are promising examples, with experimental demonstrations and potential for obtaining a quantum computer to solve problems believed classically impossible. This introduces a challenge: how does one design or understand such photonic networks? One must be able to calculate observables using general methods capable of treating arbitrary inputs, dissipation, and noise. We develop complex phase-space software for simulating these photonic networks, and apply this to boson sampling experiments. Our techniques give sampling errors orders of magnitude lower than experimental correlation measurements for the same number of samples. We show that these techniques remove systematic errors in previous algorithms for estimating correlations, with large improvements in errors in some cases. In addition, we obtain a scalable channel-combination strategy for assessment of boson sampling devices.
Conformity and statistical tolerancing
Leblond, Laurent; Pillet, Maurice
2018-02-01
Statistical tolerancing was first proposed by Shewhart (Economic Control of Quality of Manufactured Product, (1931) reprinted 1980 by ASQC), in spite of this long history, its use remains moderate. One of the probable reasons for this low utilization is undoubtedly the difficulty for designers to anticipate the risks of this approach. The arithmetic tolerance (worst case) allows a simple interpretation: conformity is defined by the presence of the characteristic in an interval. Statistical tolerancing is more complex in its definition. An interval is not sufficient to define the conformance. To justify the statistical tolerancing formula used by designers, a tolerance interval should be interpreted as the interval where most of the parts produced should probably be located. This tolerance is justified by considering a conformity criterion of the parts guaranteeing low offsets on the latter characteristics. Unlike traditional arithmetic tolerancing, statistical tolerancing requires a sustained exchange of information between design and manufacture to be used safely. This paper proposes a formal definition of the conformity, which we apply successively to the quadratic and arithmetic tolerancing. We introduce a concept of concavity, which helps us to demonstrate the link between tolerancing approach and conformity. We use this concept to demonstrate the various acceptable propositions of statistical tolerancing (in the space decentring, dispersion).
Axiomatic conformal field theory
International Nuclear Information System (INIS)
Gaberdiel, M.R.; Goddard, P.
2000-01-01
A new rigourous approach to conformal field theory is presented. The basic objects are families of complex-valued amplitudes, which define a meromorphic conformal field theory (or chiral algebra) and which lead naturally to the definition of topological vector spaces, between which vertex operators act as continuous operators. In fact, in order to develop the theory, Moebius invariance rather than full conformal invariance is required but it is shown that every Moebius theory can be extended to a conformal theory by the construction of a Virasoro field. In this approach, a representation of a conformal field theory is naturally defined in terms of a family of amplitudes with appropriate analytic properties. It is shown that these amplitudes can also be derived from a suitable collection of states in the meromorphic theory. Zhu's algebra then appears naturally as the algebra of conditions which states defining highest weight representations must satisfy. The relationship of the representations of Zhu's algebra to the classification of highest weight representations is explained. (orig.)
Space density and clustering properties of a new sample of emission-line galaxies
International Nuclear Information System (INIS)
Wasilewski, A.J.
1982-01-01
A moderate-dispersion objective-prism survey for low-redshift emission-line galaxies has been carried out in an 825 sq. deg. region of sky with the Burrell Schmidt telescope of Case Western Reserve University. A 4 0 prism (300 A/mm at H#betta#) was used with the Illa-J emulsion to show that a new sample of emission-line galaxies is available even in areas already searched with the excess uv-continuum technique. The new emission-line galaxies occur quite commonly in systems with peculiar morphology indicating gravitational interaction with a close companion or other disturbance. About 10 to 15% of the sample are Seyfert galaxies. It is suggested that tidal interaction involving matter infall play a significant role in the generation of an emission-line spectrum. The space density of the new galaxies is found to be similar to the space density of the Makarian galaxies. Like the Markarian sample, the galaxies in the present survey represent about 10% of all galaxies in the absolute magnitude range M/sub p/ = -16 to -22. The observations also indicate that current estimates of dwarf galaxy space densities may be too low. The clustering properties of the new galaxies have been investigated using two approaches: cluster contour maps and the spatial correlation function. These tests suggest that there is weak clustering and possibly superclustering within the sample itself and that the galaxies considered here are about as common in clusters of ordinary galaxies as in the field
Conformal group actions and Segal's cosmology
International Nuclear Information System (INIS)
Werth, J.-E.
1984-01-01
A mathematical description of Segal's cosmological model in the framework of conformal group actions is presented. The relation between conformal and causal group actions on time-orientable Lorentzian manifolds is analysed and several examples are discussed. A criterion for the conformality of a map between Lorentzian manifolds is given. The results are applied to Segal's 'conformal compactification' of Minkowski space. Furthermore, the 'unitary formulation' of Segal's cosmology is regarded. (Author) [pt
Galaxy power-spectrum responses and redshift-space super-sample effect
Li, Yin; Schmittfull, Marcel; Seljak, Uroš
2018-02-01
As a major source of cosmological information, galaxy clustering is susceptible to long-wavelength density and tidal fluctuations. These long modes modulate the growth and expansion rate of local structures, shifting them in both amplitude and scale. These effects are often named the growth and dilation effects, respectively. In particular the dilation shifts the baryon acoustic oscillation (BAO) peak and breaks the assumption of the Alcock-Paczynski (AP) test. This cannot be removed with reconstruction techniques because the effect originates from long modes outside the survey. In redshift space, the long modes generate a large-scale radial peculiar velocity that affects the redshift-space distortion (RSD) signal. We compute the redshift-space response functions of the galaxy power spectrum to long density and tidal modes at leading order in perturbation theory, including both the growth and dilation terms. We validate these response functions against measurements from simulated galaxy mock catalogs. As one application, long density and tidal modes beyond the scale of a survey correlate various observables leading to an excess error known as the super-sample covariance, and thus weaken their constraining power. We quantify the super-sample effect on BAO, AP, and RSD measurements, and study its impact on current and future surveys.
International Nuclear Information System (INIS)
Kaplan, David B.; Lee, Jong-Wan; Son, Dam T.; Stephanov, Mikhail A.
2009-01-01
We consider zero-temperature transitions from conformal to nonconformal phases in quantum theories. We argue that there are three generic mechanisms for the loss of conformality in any number of dimensions: (i) fixed point goes to zero coupling, (ii) fixed point runs off to infinite coupling, or (iii) an IR fixed point annihilates with a UV fixed point and they both disappear into the complex plane. We give both relativistic and nonrelativistic examples of the last case in various dimensions and show that the critical behavior of the mass gap behaves similarly to the correlation length in the finite temperature Berezinskii-Kosterlitz-Thouless (BKT) phase transition in two dimensions, ξ∼exp(c/|T-T c | 1/2 ). We speculate that the chiral phase transition in QCD at large number of fermion flavors belongs to this universality class, and attempt to identify the UV fixed point that annihilates with the Banks-Zaks fixed point at the lower end of the conformal window.
Allen, Jaclyn; Luckey, M.; McInturff, B.; Huynh, P.; Tobola, K.; Loftin, L.
2010-01-01
NASA is eager for students and the public to experience lunar Apollo samples and meteorites first hand. Lunar rocks and soil, embedded in Lucite disks, are available for educators to use in their classrooms, museums, science centers, and public libraries for education activities and display. The sample education disks are valuable tools for engaging students in the exploration of the Solar System. Scientific research conducted on the Apollo rocks reveals the early history of our Earth-Moon system and meteorites reveal much of the history of the early solar system. The rocks help educators make the connections to this ancient history of our planet and solar system and the basic processes accretion, differentiation, impact and volcanism. With these samples, educators in museums, science centers, libraries, and classrooms can help students and the public understand the key questions pursued by many NASA planetary missions. The Office of the Curator at Johnson Space Center is in the process of reorganizing and renewing the Lunar and Meteorite Sample Education Disk Program to increase reach, security and accountability. The new program expands the reach of these exciting extraterrestrial rocks through increased access to training and educator borrowing. One of the expanded opportunities is that trained certified educators from science centers, museums, and libraries may now borrow the extraterrestrial rock samples. Previously the loan program was only open to classroom educators so the expansion will increase the public access to the samples and allow educators to make the critical connections to the exciting exploration missions taking place in our solar system. Each Lunar Disk contains three lunar rocks and three regolith soils embedded in Lucite. The anorthosite sample is a part of the magma ocean formed on the surface of Moon in the early melting period, the basalt is part of the extensive lunar mare lava flows, and the breccias sample is an important example of the
Poeschl, Paul W; Crepaz, Valentina; Russmueller, Guenter; Seemann, Rudolf; Hirschl, Alexander M; Ewers, Rolf
2011-09-01
The aims of the present study were to compare microbial populations in patients suffering from deep neck space abscesses caused by primary endodontic infections by sampling the infections with aspiration or swabbing techniques and to determine the susceptibility rates of the isolated bacteria to commonly used antibiotics. A total of 89 patients with deep neck space abscesses caused by primary endodontic infections requiring extraoral incision and drainage under general anesthesia were included. Either aspiration or swabbing was used to sample microbial pus specimens. The culture of the microbial specimens and susceptibility testing were performed following standard procedures. A total of 142 strains were recovered from 76 patients. In 13 patients, no bacteria were found. The predominant bacteria observed were streptococci (36%), staphylococci (13%), Prevotella (8%), and Peptostreptococcus (6%). A statistically significant greater number of obligate anaerobes were found in the aspiration group. The majority of patients presented a mixed aerobic-anaerobic population of bacterial flora (62%). The antibiotic resistance rates for the predominant bacteria were 10% for penicillin G, 9% for amoxicillin, 0% for amoxicillin clavulanate, 24% for clindamycin, and 24% for erythromycin. The results of our study indicated that a greater number of anaerobes were found when sampling using the aspiration technique. Penicillin G and aminopenicillins alone are not always sufficient for the treatment of severe deep neck space abscesses; beta-lactamase inhibitor combinations are more effective. Bacteria showed significant resistant rates to clindamycin. Thus, its single use in penicillin-allergic patients has to be carefully considered. Copyright © 2011 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.
Recursion Relations for Conformal Blocks
Penedones, João; Yamazaki, Masahito
2016-09-12
In the context of conformal field theories in general space-time dimension, we find all the possible singularities of the conformal blocks as functions of the scaling dimension $\\Delta$ of the exchanged operator. In particular, we argue, using representation theory of parabolic Verma modules, that in odd spacetime dimension the singularities are only simple poles. We discuss how to use this information to write recursion relations that determine the conformal blocks. We first recover the recursion relation introduced in 1307.6856 for conformal blocks of external scalar operators. We then generalize this recursion relation for the conformal blocks associated to the four point function of three scalar and one vector operator. Finally we specialize to the case in which the vector operator is a conserved current.
Clark, J. L.; Konda, K. A.; Silva-Santisteban, A.; Peinado, J.; Lama, J. R.; Kusunoki, L.; Perez-Brumer, A.; Pun, M.; Cabello, R.; Sebastian, J. L.; Suarez-Ognio, L.; Sanchez, J.
2014-01-01
Alternatives to convenience sampling (CS) are needed for HIV/STI surveillance of most-at-risk populations in Latin America. We compared CS, time space sampling (TSS), and respondent driven sampling (RDS) for recruitment of men who have sex with men (MSM) and transgender women (TW) in Lima, Peru. During concurrent 60-day periods from June-August, 2011, we recruited MSM/TW for epidemiologic surveillance using CS, TSS, and RDS. A total of 748 participants were recruited through CS, 233 through T...
Energy Technology Data Exchange (ETDEWEB)
Backlund, Peter B. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Shahan, David W. [HRL Labs., LLC, Malibu, CA (United States); Seepersad, Carolyn Conner [Univ. of Texas, Austin, TX (United States)
2014-04-22
A classifier-guided sampling (CGS) method is introduced for solving engineering design optimization problems with discrete and/or continuous variables and continuous and/or discontinuous responses. The method merges concepts from metamodel-guided sampling and population-based optimization algorithms. The CGS method uses a Bayesian network classifier for predicting the performance of new designs based on a set of known observations or training points. Unlike most metamodeling techniques, however, the classifier assigns a categorical class label to a new design, rather than predicting the resulting response in continuous space, and thereby accommodates nondifferentiable and discontinuous functions of discrete or categorical variables. The CGS method uses these classifiers to guide a population-based sampling process towards combinations of discrete and/or continuous variable values with a high probability of yielding preferred performance. Accordingly, the CGS method is appropriate for discrete/discontinuous design problems that are ill-suited for conventional metamodeling techniques and too computationally expensive to be solved by population-based algorithms alone. In addition, the rates of convergence and computational properties of the CGS method are investigated when applied to a set of discrete variable optimization problems. Results show that the CGS method significantly improves the rate of convergence towards known global optima, on average, when compared to genetic algorithms.
Conformal dimension theory and application
Mackay, John M
2010-01-01
Conformal dimension measures the extent to which the Hausdorff dimension of a metric space can be lowered by quasisymmetric deformations. Introduced by Pansu in 1989, this concept has proved extremely fruitful in a diverse range of areas, including geometric function theory, conformal dynamics, and geometric group theory. This survey leads the reader from the definitions and basic theory through to active research applications in geometric function theory, Gromov hyperbolic geometry, and the dynamics of rational maps, amongst other areas. It reviews the theory of dimension in metric spaces and of deformations of metric spaces. It summarizes the basic tools for estimating conformal dimension and illustrates their application to concrete problems of independent interest. Numerous examples and proofs are provided. Working from basic definitions through to current research areas, this book can be used as a guide for graduate students interested in this field, or as a helpful survey for experts. Background needed ...
Discrete- vs. Continuous-Time Modeling of Unequally Spaced Experience Sampling Method Data
Directory of Open Access Journals (Sweden)
Silvia de Haan-Rietdijk
2017-10-01
Full Text Available The Experience Sampling Method is a common approach in psychological research for collecting intensive longitudinal data with high ecological validity. One characteristic of ESM data is that it is often unequally spaced, because the measurement intervals within a day are deliberately varied, and measurement continues over several days. This poses a problem for discrete-time (DT modeling approaches, which are based on the assumption that all measurements are equally spaced. Nevertheless, DT approaches such as (vector autoregressive modeling are often used to analyze ESM data, for instance in the context of affective dynamics research. There are equivalent continuous-time (CT models, but they are more difficult to implement. In this paper we take a pragmatic approach and evaluate the practical relevance of the violated model assumption in DT AR(1 and VAR(1 models, for the N = 1 case. We use simulated data under an ESM measurement design to investigate the bias in the parameters of interest under four different model implementations, ranging from the true CT model that accounts for all the exact measurement times, to the crudest possible DT model implementation, where even the nighttime is treated as a regular interval. An analysis of empirical affect data illustrates how the differences between DT and CT modeling can play out in practice. We find that the size and the direction of the bias in DT (VAR models for unequally spaced ESM data depend quite strongly on the true parameter in addition to data characteristics. Our recommendation is to use CT modeling whenever possible, especially now that new software implementations have become available.
The Hubble Space Telescope Medium Deep Survey Cluster Sample: Methodology and Data
Ostrander, E. J.; Nichol, R. C.; Ratnatunga, K. U.; Griffiths, R. E.
1998-12-01
We present a new, objectively selected, sample of galaxy overdensities detected in the Hubble Space Telescope Medium Deep Survey (MDS). These clusters/groups were found using an automated procedure that involved searching for statistically significant galaxy overdensities. The contrast of the clusters against the field galaxy population is increased when morphological data are used to search around bulge-dominated galaxies. In total, we present 92 overdensities above a probability threshold of 99.5%. We show, via extensive Monte Carlo simulations, that at least 60% of these overdensities are likely to be real clusters and groups and not random line-of-sight superpositions of galaxies. For each overdensity in the MDS cluster sample, we provide a richness and the average of the bulge-to-total ratio of galaxies within each system. This MDS cluster sample potentially contains some of the most distant clusters/groups ever detected, with about 25% of the overdensities having estimated redshifts z > ~0.9. We have made this sample publicly available to facilitate spectroscopic confirmation of these clusters and help more detailed studies of cluster and galaxy evolution. We also report the serendipitous discovery of a new cluster close on the sky to the rich optical cluster Cl l0016+16 at z = 0.546. This new overdensity, HST 001831+16208, may be coincident with both an X-ray source and a radio source. HST 001831+16208 is the third cluster/group discovered near to Cl 0016+16 and appears to strengthen the claims of Connolly et al. of superclustering at high redshift.
Inverse bootstrapping conformal field theories
Li, Wenliang
2018-01-01
We propose a novel approach to study conformal field theories (CFTs) in general dimensions. In the conformal bootstrap program, one usually searches for consistent CFT data that satisfy crossing symmetry. In the new method, we reverse the logic and interpret manifestly crossing-symmetric functions as generating functions of conformal data. Physical CFTs can be obtained by scanning the space of crossing-symmetric functions. By truncating the fusion rules, we are able to concentrate on the low-lying operators and derive some approximate relations for their conformal data. It turns out that the free scalar theory, the 2d minimal model CFTs, the ϕ 4 Wilson-Fisher CFT, the Lee-Yang CFTs and the Ising CFTs are consistent with the universal relations from the minimal fusion rule ϕ 1 × ϕ 1 = I + ϕ 2 + T , where ϕ 1 , ϕ 2 are scalar operators, I is the identity operator and T is the stress tensor.
Tomaschitz, R
2000-01-01
We study tachyons conformally coupled to the background geometry of a Milne universe. The causality of superluminal signal transfer is scrutinized in this context. The cosmic time of the comoving frame determines a distinguished time order for events connected by superluminal signals. An observer can relate his rest frame to the galaxy frame, and compare so the time order of events in his proper time to the cosmic time order. All observers can in this way arrive at identical conclusions on the causality of events connected by superluminal signals. An unambiguous energy concept for tachyonic rays is defined by means of the cosmic time of the comoving reference frame, without resorting to an antiparticle interpretation. On that basis we give an explicit proof that no signals can be sent into the past of observers. Causality violating signals are energetically forbidden, as they would have negative energy in the rest frame of the emitting observer. If an observer emits a superluminal signal, the tachyonic respon...
International Nuclear Information System (INIS)
Hinterbichler, Kurt; Joyce, Austin; Khoury, Justin
2012-01-01
The pseudo-conformal scenario is an alternative to inflation in which the early universe is described by an approximate conformal field theory on flat, Minkowski space. Some fields acquire a time-dependent expectation value, which breaks the flat space so(4,2) conformal algebra to its so(4,1) de Sitter subalgebra. As a result, weight-0 fields acquire a scale invariant spectrum of perturbations. The scenario is very general, and its essential features are determined by the symmetry breaking pattern, irrespective of the details of the underlying microphysics. In this paper, we apply the well-known coset technique to derive the most general effective lagrangian describing the Goldstone field and matter fields, consistent with the assumed symmetries. The resulting action captures the low energy dynamics of any pseudo-conformal realization, including the U(1)-invariant quartic model and the Galilean Genesis scenario. We also derive this lagrangian using an alternative method of curvature invariants, consisting of writing down geometric scalars in terms of the conformal mode. Using this general effective action, we compute the two-point function for the Goldstone and a fiducial weight-0 field, as well as some sample three-point functions involving these fields
Energy Technology Data Exchange (ETDEWEB)
Hayes, Matthew; Östlin, Göran; Duval, Florent; Sandberg, Andreas; Guaita, Lucia; Melinder, Jens; Rivera-Thorsen, Thøger [Department of Astronomy, Oskar Klein Centre, Stockholm University, AlbaNova University Centre, SE-106 91 Stockholm (Sweden); Adamo, Angela [Max Planck Institute for Astronomy, Königstuhl 17, D-69117 Heidelberg (Germany); Schaerer, Daniel [Université de Toulouse, UPS-OMP, IRAP, F-31000 Toulouse (France); Verhamme, Anne; Orlitová, Ivana [Geneva Observatory, University of Geneva, 51 Chemin des Maillettes, CH-1290 Versoix (Switzerland); Mas-Hesse, J. Miguel; Otí-Floranes, Héctor [Centro de Astrobiología (CSIC-INTA), Departamento de Astrofísica, P.O. Box 78, E-28691 Villanueva de la Cañada (Spain); Cannon, John M.; Pardy, Stephen [Department of Physics and Astronomy, Macalester College, 1600 Grand Avenue, Saint Paul, MN 55105 (United States); Atek, Hakim [Laboratoire dAstrophysique, École Polytechnique Fédérale de Lausanne (EPFL), Observatoire, CH-1290 Sauverny (Switzerland); Kunth, Daniel [Institut d' Astrophysique de Paris, UMR 7095, CNRS and UPMC, 98 bis Bd Arago, F-75014 Paris (France); Laursen, Peter [Dark Cosmology Centre, Niels Bohr Institute, University of Copenhagen, Juliane Maries Vej 30, DK-2100 Copenhagen (Denmark); Herenz, E. Christian, E-mail: matthew@astro.su.se [Leibniz-Institut für Astrophysik (AIP), An der Sternwarte 16, D-14482 Potsdam (Germany)
2014-02-10
We report new results regarding the Lyα output of galaxies, derived from the Lyman Alpha Reference Sample, and focused on Hubble Space Telescope imaging. For 14 galaxies we present intensity images in Lyα, Hα, and UV, and maps of Hα/Hβ, Lyα equivalent width (EW), and Lyα/Hα. We present Lyα and UV radial light profiles and show they are well-fitted by Sérsic profiles, but Lyα profiles show indices systematically lower than those of the UV (n ≈ 1-2 instead of ≳ 4). This reveals a general lack of the central concentration in Lyα that is ubiquitous in the UV. Photometric growth curves increase more slowly for Lyα than the far ultraviolet, showing that small apertures may underestimate the EW. For most galaxies, however, flux and EW curves flatten by radii ≈10 kpc, suggesting that if placed at high-z only a few of our galaxies would suffer from large flux losses. We compute global properties of the sample in large apertures, and show total Lyα luminosities to be independent of all other quantities. Normalized Lyα throughput, however, shows significant correlations: escape is found to be higher in galaxies of lower star formation rate, dust content, mass, and nebular quantities that suggest harder ionizing continuum and lower metallicity. Six galaxies would be selected as high-z Lyα emitters, based upon their luminosity and EW. We discuss the results in the context of high-z Lyα and UV samples. A few galaxies have EWs above 50 Å, and one shows f{sub esc}{sup Lyα} of 80%; such objects have not previously been reported at low-z.
International Nuclear Information System (INIS)
Hayes, Matthew; Östlin, Göran; Duval, Florent; Sandberg, Andreas; Guaita, Lucia; Melinder, Jens; Rivera-Thorsen, Thøger; Adamo, Angela; Schaerer, Daniel; Verhamme, Anne; Orlitová, Ivana; Mas-Hesse, J. Miguel; Otí-Floranes, Héctor; Cannon, John M.; Pardy, Stephen; Atek, Hakim; Kunth, Daniel; Laursen, Peter; Herenz, E. Christian
2014-01-01
We report new results regarding the Lyα output of galaxies, derived from the Lyman Alpha Reference Sample, and focused on Hubble Space Telescope imaging. For 14 galaxies we present intensity images in Lyα, Hα, and UV, and maps of Hα/Hβ, Lyα equivalent width (EW), and Lyα/Hα. We present Lyα and UV radial light profiles and show they are well-fitted by Sérsic profiles, but Lyα profiles show indices systematically lower than those of the UV (n ≈ 1-2 instead of ≳ 4). This reveals a general lack of the central concentration in Lyα that is ubiquitous in the UV. Photometric growth curves increase more slowly for Lyα than the far ultraviolet, showing that small apertures may underestimate the EW. For most galaxies, however, flux and EW curves flatten by radii ≈10 kpc, suggesting that if placed at high-z only a few of our galaxies would suffer from large flux losses. We compute global properties of the sample in large apertures, and show total Lyα luminosities to be independent of all other quantities. Normalized Lyα throughput, however, shows significant correlations: escape is found to be higher in galaxies of lower star formation rate, dust content, mass, and nebular quantities that suggest harder ionizing continuum and lower metallicity. Six galaxies would be selected as high-z Lyα emitters, based upon their luminosity and EW. We discuss the results in the context of high-z Lyα and UV samples. A few galaxies have EWs above 50 Å, and one shows f esc Lyα of 80%; such objects have not previously been reported at low-z.
de Groot, B.L.; Amadei, A; van Aalten, D.M.F.; Berendsen, H.J.C.
The recently introduced Essential Dynamics sampling method is extended such that an exhaustive sampling of the available (backbone) configurational space can be achieved. From an initial Molecular Dynamics simulation an approximated definition of the essential subspace is obtained. This subspace is
Bacterial communities of disease vectors sampled across time, space, and species.
Jones, Ryan T; Knight, Rob; Martin, Andrew P
2010-02-01
A common strategy of pathogenic bacteria is to form close associations with parasitic insects that feed on animals and to use these insects as vectors for their own transmission. Pathogens interact closely with other coexisting bacteria within the insect, and interactions between co-occurring bacteria may influence the vector competency of the parasite. Interactions between particular lineages can be explored through measures of alpha-diversity. Furthermore, general patterns of bacterial community assembly can be explored through measures of beta-diversity. Here, we use pyrosequencing (n=115,924 16S rRNA gene sequences) to describe the bacterial communities of 230 prairie dog fleas sampled across space and time. We use these communinty characterizations to assess interactions between dominant community members and to explore general patterns of bacterial community assembly in fleas. An analysis of co-occurrence patterns suggests non-neutral negative interactions between dominant community members (Pspace (phylotype-based: R=0.418, Pspace and time.
Instantons in conformal gravity
International Nuclear Information System (INIS)
Strominger, A.; Horowitz, G.T.; Perry, M.J.
1984-01-01
Fe study extrema of the general conformally invariant action: Ssub(c)=∫1/sub(α) 2 Csup(abcd)Csub(abcd)+γRsup(abcd*)Rsup(*)sub(abcd)+iTHETARsup(abcd)*Rsub(abcd). We find the first examples in four dimensions of asymptotically euclidean gravitational instantons. These have arbitrary Euler number and Hirzebruch signature. Some of these instantons represent tunneling between zero-curvature vacua that are not related by small gauge transformations. Others represent tunneling between flat space and topologically non-trivial zero-energy initial data. A general formula for the one-loop determinant is derived in terms of the renormalization group invariant masses, the volume of space-time, the Euler number and the Hirzebruch signature. (orig.)
Alakent, Burak; Doruker, Pemra; Camurdan, Mehmet C
2004-09-08
Time series analysis is applied on the collective coordinates obtained from principal component analysis of independent molecular dynamics simulations of alpha-amylase inhibitor tendamistat and immunity protein of colicin E7 based on the Calpha coordinates history. Even though the principal component directions obtained for each run are considerably different, the dynamics information obtained from these runs are surprisingly similar in terms of time series models and parameters. There are two main differences in the dynamics of the two proteins: the higher density of low frequencies and the larger step sizes for the interminima motions of colicin E7 than those of alpha-amylase inhibitor, which may be attributed to the higher number of residues of colicin E7 and/or the structural differences of the two proteins. The cumulative density function of the low frequencies in each run conforms to the expectations from the normal mode analysis. When different runs of alpha-amylase inhibitor are projected on the same set of eigenvectors, it is found that principal components obtained from a certain conformational region of a protein has a moderate explanation power in other conformational regions and the local minima are similar to a certain extent, while the height of the energy barriers in between the minima significantly change. As a final remark, time series analysis tools are further exploited in this study with the motive of explaining the equilibrium fluctuations of proteins. Copyright 2004 American Institute of Physics
Supertwistor connection and conformal supergravity
International Nuclear Information System (INIS)
Merkulov, S.A.
1985-01-01
Supersymmetry expansion of the geometry of local twistors is suggested. Definition of the space of local supertwistors is given and its differential geometry is formulated. Variational principles are discussed, and it is shown that corresponding Euler-Lagrange equations also coincide and result in superzero equations of N=1 conformal supergravitation, which generalize Bach equations
Supergravitational conformal Galileons
Deen, Rehan; Ovrut, Burt
2017-08-01
The worldvolume actions of 3+1 dimensional bosonic branes embedded in a five-dimensional bulk space can lead to important effective field theories, such as the DBI conformal Galileons, and may, when the Null Energy Condition is violated, play an essential role in cosmological theories of the early universe. These include Galileon Genesis and "bouncing" cosmology, where a pre-Big Bang contracting phase bounces smoothly to the presently observed expanding universe. Perhaps the most natural arena for such branes to arise is within the context of superstring and M -theory vacua. Here, not only are branes required for the consistency of the theory, but, in many cases, the exact spectrum of particle physics occurs at low energy. However, such theories have the additional constraint that they must be N = 1 supersymmetric. This motivates us to compute the worldvolume actions of N = 1 supersymmetric three-branes, first in flat superspace and then to generalize them to N = 1 supergravitation. In this paper, for simplicity, we begin the process, not within the context of a superstring vacuum but, rather, for the conformal Galileons arising on a co-dimension one brane embedded in a maximally symmetric AdS 5 bulk space. We proceed to N = 1 supersymmetrize the associated worldvolume theory and then generalize the results to N = 1 supergravity, opening the door to possible new cosmological scenarios
Thompson, Steven K
2012-01-01
Praise for the Second Edition "This book has never had a competitor. It is the only book that takes a broad approach to sampling . . . any good personal statistics library should include a copy of this book." —Technometrics "Well-written . . . an excellent book on an important subject. Highly recommended." —Choice "An ideal reference for scientific researchers and other professionals who use sampling." —Zentralblatt Math Features new developments in the field combined with all aspects of obtaining, interpreting, and using sample data Sampling provides an up-to-date treat
Säwén, Elin; Massad, Tariq; Landersjö, Clas; Damberg, Peter; Widmalm, Göran
2010-08-21
The conformational space available to the flexible molecule α-D-Manp-(1-->2)-α-D-Manp-OMe, a model for the α-(1-->2)-linked mannose disaccharide in N- or O-linked glycoproteins, is determined using experimental data and molecular simulation combined with a maximum entropy approach that leads to a converged population distribution utilizing different input information. A database survey of the Protein Data Bank where structures having the constituent disaccharide were retrieved resulted in an ensemble with >200 structures. Subsequent filtering removed erroneous structures and gave the database (DB) ensemble having three classes of mannose-containing compounds, viz., N- and O-linked structures, and ligands to proteins. A molecular dynamics (MD) simulation of the disaccharide revealed a two-state equilibrium with a major and a minor conformational state, i.e., the MD ensemble. These two different conformation ensembles of the disaccharide were compared to measured experimental spectroscopic data for the molecule in water solution. However, neither of the two populations were compatible with experimental data from optical rotation, NMR (1)H,(1)H cross-relaxation rates as well as homo- and heteronuclear (3)J couplings. The conformational distributions were subsequently used as background information to generate priors that were used in a maximum entropy analysis. The resulting posteriors, i.e., the population distributions after the application of the maximum entropy analysis, still showed notable deviations that were not anticipated based on the prior information. Therefore, reparameterization of homo- and heteronuclear Karplus relationships for the glycosidic torsion angles Φ and Ψ were carried out in which the importance of electronegative substituents on the coupling pathway was deemed essential resulting in four derived equations, two (3)J(COCC) and two (3)J(COCH) being different for the Φ and Ψ torsions, respectively. These Karplus relationships are denoted
Closed forms for conformally flat Green's functions
International Nuclear Information System (INIS)
Brown, M.R.; Grove, P.G.; Ottewill, A.C.
1981-01-01
A closed form is obtained for the massless scalar Green's function on Rindler space. This is related by conformal transformation to the Green's function for a massless, conformally coupled scalar field on the open Einstein universe. A closed form is also obtained for the corresponding Green's function on the Einstein static universe. (author)
Development of a Novel Self-Enclosed Sample Preparation Device for DNA/RNA Isolation in Space
Zhang, Ye; Mehta, Satish K.; Pensinger, Stuart J.; Pickering, Karen D.
2011-01-01
Modern biology techniques present potentials for a wide range of molecular, cellular, and biochemistry applications in space, including detection of infectious pathogens and environmental contaminations, monitoring of drug-resistant microbial and dangerous mutations, identification of new phenotypes of microbial and new life species. However, one of the major technological blockades in enabling these technologies in space is a lack of devices for sample preparation in the space environment. To overcome such an obstacle, we constructed a prototype of a DNA/RNA isolation device based on our novel designs documented in the NASA New Technology Reporting System (MSC-24811-1/3-1). This device is self-enclosed and pipette free, purposely designed for use in the absence of gravity. Our design can also be modified easily for preparing samples in space for other applications, such as flowcytometry, immunostaining, cell separation, sample purification and separation according to its size and charges, sample chemical labeling, and sample purification. The prototype of our DNA/RNA isolation device was tested for efficiencies of DNA and RNA isolation from various cell types for PCR analysis. The purity and integrity of purified DNA and RNA were determined as well. Results showed that our developed DNA/RNA isolation device offers similar efficiency and quality in comparison to the samples prepared using the standard protocol in the laboratory.
Clark, J L; Konda, K A; Silva-Santisteban, A; Peinado, J; Lama, J R; Kusunoki, L; Perez-Brumer, A; Pun, M; Cabello, R; Sebastian, J L; Suarez-Ognio, L; Sanchez, J
2014-12-01
Alternatives to convenience sampling (CS) are needed for HIV/STI surveillance of most-at-risk populations in Latin America. We compared CS, time space sampling (TSS), and respondent driven sampling (RDS) for recruitment of men who have sex with men (MSM) and transgender women (TW) in Lima, Peru. During concurrent 60-day periods from June-August, 2011, we recruited MSM/TW for epidemiologic surveillance using CS, TSS, and RDS. A total of 748 participants were recruited through CS, 233 through TSS, and 127 through RDS. The TSS sample included the largest proportion of TW (30.7 %) and the lowest percentage of subjects who had previously participated in HIV/STI research (14.9 %). The prevalence of newly diagnosed HIV infection, according to participants' self-reported previous HIV diagnosis, was highest among TSS recruits (17.9 %) compared with RDS (12.6 %) and CS (10.2 %). TSS identified diverse populations of MSM/TW with higher prevalences of HIV/STIs not accessed by other methods.
Clark, J. L.; Konda, K. A.; Silva-Santisteban, A.; Peinado, J.; Lama, J. R.; Kusunoki, L.; Perez-Brumer, A.; Pun, M.; Cabello, R.; Sebastian, J. L.; Suarez-Ognio, L.; Sanchez, J.
2014-01-01
Alternatives to convenience sampling (CS) are needed for HIV/STI surveillance of most-at-risk populations in Latin America. We compared CS, time space sampling (TSS), and respondent driven sampling (RDS) for recruitment of men who have sex with men (MSM) and transgender women (TW) in Lima, Peru. During concurrent 60-day periods from June–August, 2011, we recruited MSM/TW for epidemiologic surveillance using CS, TSS, and RDS. A total of 748 participants were recruited through CS, 233 through TSS, and 127 through RDS. The TSS sample included the largest proportion of TW (30.7 %) and the lowest percentage of subjects who had previously participated in HIV/STI research (14.9 %). The prevalence of newly diagnosed HIV infection, according to participants’ self-reported previous HIV diagnosis, was highest among TSS recruits (17.9 %) compared with RDS (12.6 %) and CS (10.2 %). TSS identified diverse populations of MSM/TW with higher prevalences of HIV/STIs not accessed by other methods. PMID:24362754
Geometrical formulation of the conformal Ward identity
International Nuclear Information System (INIS)
Kachkachi, M.
2002-08-01
In this paper we use deep ideas in complex geometry that proved to be very powerful in unveiling the Polyakov measure on the moduli space of Riemann surfaces and lead to obtain the partition function of perturbative string theory for 2, 3, 4 loops. Indeed, a geometrical interpretation of the conformal Ward identity in two dimensional conformal field theory is proposed: the conformal anomaly is interpreted as a deformation of the complex structure of the basic Riemann surface. This point of view is in line with the modern trend of geometric quantizations that are based on deformations of classical structures. Then, we solve the conformal Ward identity by using this geometrical formalism. (author)
Gluon amplitudes as 2 d conformal correlators
Pasterski, Sabrina; Shao, Shu-Heng; Strominger, Andrew
2017-10-01
Recently, spin-one wave functions in four dimensions that are conformal primaries of the Lorentz group S L (2 ,C ) were constructed. We compute low-point, tree-level gluon scattering amplitudes in the space of these conformal primary wave functions. The answers have the same conformal covariance as correlators of spin-one primaries in a 2 d CFT. The Britto-Cachazo-Feng-Witten (BCFW) recursion relation between three- and four-point gluon amplitudes is recast into this conformal basis.
Nickles, C.; Zhao, Y.; Beighley, E.; Durand, M. T.; David, C. H.; Lee, H.
2017-12-01
The Surface Water and Ocean Topography (SWOT) satellite mission is jointly developed by NASA, the French space agency (CNES), with participation from the Canadian and UK space agencies to serve both the hydrology and oceanography communities. The SWOT mission will sample global surface water extents and elevations (lakes/reservoirs, rivers, estuaries, oceans, sea and land ice) at a finer spatial resolution than is currently possible enabling hydrologic discovery, model advancements and new applications that are not currently possible or likely even conceivable. Although the mission will provide global cover, analysis and interpolation of the data generated from the irregular space/time sampling represents a significant challenge. In this study, we explore the applicability of the unique space/time sampling for understanding river discharge dynamics throughout the Ohio River Basin. River network topology, SWOT sampling (i.e., orbit and identified SWOT river reaches) and spatial interpolation concepts are used to quantify the fraction of effective sampling of river reaches each day of the three-year mission. Streamflow statistics for SWOT generated river discharge time series are compared to continuous daily river discharge series. Relationships are presented to transform SWOT generated streamflow statistics to equivalent continuous daily discharge time series statistics intended to support hydrologic applications using low-flow and annual flow duration statistics.
Angart, Samuel; Erdman, R. G.; Poirier, David R.; Tewari, S.N.; Grugel, R. N.
2014-01-01
This talk reports research that has been carried out under the aegis of NASA as part of a collaboration between ESA and NASA for solidification experiments on the International Space Station (ISS). The focus has been on the effect of convection on the microstructural evolution and macrosegregation in hypoeutectic Al-Si alloys during directional solidification (DS). The DS-experiments have been carried out under 1-g at Cleveland State University (CSU) and under low-g on the International Space Station (ISS). The thermal processing-history of the experiments is well defined for both the terrestrially-processed samples and the ISS-processed samples. We have observed that the primary dendrite arm spacings of two samples grown in the low-g environment of the ISS show good agreement with a dendrite-growth model based on diffusion controlled growth. The gravity-driven convection (i.e., thermosolutal convection) in terrestrially grown samples has the effect of decreasing the primary dendrite arm spacings and causes macrosgregation. In order to process DS-samples aboard the ISS, dendritic-seed crystals have to partially remelted in a stationary thermal gradient before the DS is carried out. Microstructural changes and macrosegregation effects during this period are described.
A Novel, Low-Cost Conformable Lander
National Aeronautics and Space Administration — The primary focus of this activity will be to outline a preliminary mechanical design for this conforming lander. Salient issues to be worked include (1) determining...
Conformational and functional analysis of molecular dynamics trajectories by Self-Organising Maps
Directory of Open Access Journals (Sweden)
Stella Fabio
2011-05-01
Full Text Available Abstract Background Molecular dynamics (MD simulations are powerful tools to investigate the conformational dynamics of proteins that is often a critical element of their function. Identification of functionally relevant conformations is generally done clustering the large ensemble of structures that are generated. Recently, Self-Organising Maps (SOMs were reported performing more accurately and providing more consistent results than traditional clustering algorithms in various data mining problems. We present a novel strategy to analyse and compare conformational ensembles of protein domains using a two-level approach that combines SOMs and hierarchical clustering. Results The conformational dynamics of the α-spectrin SH3 protein domain and six single mutants were analysed by MD simulations. The Cα's Cartesian coordinates of conformations sampled in the essential space were used as input data vectors for SOM training, then complete linkage clustering was performed on the SOM prototype vectors. A specific protocol to optimize a SOM for structural ensembles was proposed: the optimal SOM was selected by means of a Taguchi experimental design plan applied to different data sets, and the optimal sampling rate of the MD trajectory was selected. The proposed two-level approach was applied to single trajectories of the SH3 domain independently as well as to groups of them at the same time. The results demonstrated the potential of this approach in the analysis of large ensembles of molecular structures: the possibility of producing a topological mapping of the conformational space in a simple 2D visualisation, as well as of effectively highlighting differences in the conformational dynamics directly related to biological functions. Conclusions The use of a two-level approach combining SOMs and hierarchical clustering for conformational analysis of structural ensembles of proteins was proposed. It can easily be extended to other study cases and to
Conformational and functional analysis of molecular dynamics trajectories by Self-Organising Maps
2011-01-01
Background Molecular dynamics (MD) simulations are powerful tools to investigate the conformational dynamics of proteins that is often a critical element of their function. Identification of functionally relevant conformations is generally done clustering the large ensemble of structures that are generated. Recently, Self-Organising Maps (SOMs) were reported performing more accurately and providing more consistent results than traditional clustering algorithms in various data mining problems. We present a novel strategy to analyse and compare conformational ensembles of protein domains using a two-level approach that combines SOMs and hierarchical clustering. Results The conformational dynamics of the α-spectrin SH3 protein domain and six single mutants were analysed by MD simulations. The Cα's Cartesian coordinates of conformations sampled in the essential space were used as input data vectors for SOM training, then complete linkage clustering was performed on the SOM prototype vectors. A specific protocol to optimize a SOM for structural ensembles was proposed: the optimal SOM was selected by means of a Taguchi experimental design plan applied to different data sets, and the optimal sampling rate of the MD trajectory was selected. The proposed two-level approach was applied to single trajectories of the SH3 domain independently as well as to groups of them at the same time. The results demonstrated the potential of this approach in the analysis of large ensembles of molecular structures: the possibility of producing a topological mapping of the conformational space in a simple 2D visualisation, as well as of effectively highlighting differences in the conformational dynamics directly related to biological functions. Conclusions The use of a two-level approach combining SOMs and hierarchical clustering for conformational analysis of structural ensembles of proteins was proposed. It can easily be extended to other study cases and to conformational ensembles from
Two-dimensional T2 distribution mapping in rock core plugs with optimal k-space sampling.
Xiao, Dan; Balcom, Bruce J
2012-07-01
Spin-echo single point imaging has been employed for 1D T(2) distribution mapping, but a simple extension to 2D is challenging since the time increase is n fold, where n is the number of pixels in the second dimension. Nevertheless 2D T(2) mapping in fluid saturated rock core plugs is highly desirable because the bedding plane structure in rocks often results in different pore properties within the sample. The acquisition time can be improved by undersampling k-space. The cylindrical shape of rock core plugs yields well defined intensity distributions in k-space that may be efficiently determined by new k-space sampling patterns that are developed in this work. These patterns acquire 22.2% and 11.7% of the k-space data points. Companion density images may be employed, in a keyhole imaging sense, to improve image quality. T(2) weighted images are fit to extract T(2) distributions, pixel by pixel, employing an inverse Laplace transform. Images reconstructed with compressed sensing, with similar acceleration factors, are also presented. The results show that restricted k-space sampling, in this application, provides high quality results. Copyright © 2012 Elsevier Inc. All rights reserved.
Conformal Symmetry Patterns in Baryon Spectra
International Nuclear Information System (INIS)
Kirchbach, Mariana; Compean, Cliffor B
2011-01-01
Attention is drawn to the fact that the spectra of the baryons of the lightest flavors, the nucleon and the Δ, carry quantum numbers characteristic for an unitary representation of the conformal group. We show that the above phenomenon is well explained for baryons whose internal structure is dominated by a quark-diquark configuration that resides in a conformally compactified Minkowski space time, R 1 x S 3 , and is described by means of the conformal scale equation there. The R 1 x S 3 space-time represents the boundary of the conformally compactified AdS 5 , on which one expects to encounter a conformal theory in accord with the gauge-gravity duality. Within this context, our model is congruent with AdS 5 /CFT 4 .
Equilibrium Molecular Thermodynamics from Kirkwood Sampling
Somani, Sandeep; Okamoto, Yuko; Ballard, Andrew J.; Wales, David J.
2015-01-01
We present two methods for barrierless equilibrium sampling of molecular systems based on the recently proposed Kirkwood method (J. Chem. Phys. 2009, 130, 134102). Kirkwood sampling employs low-order correlations among internal coordinates of a molecule for random (or non-Markovian) sampling of the high dimensional conformational space. This is a geometrical sampling method independent of the potential energy surface. The first method is a variant of biased Monte Carlo, wher...
Ruf, B.; Erdnuess, B.; Weinmann, M.
2017-08-01
With the emergence of small consumer Unmanned Aerial Vehicles (UAVs), the importance and interest of image-based depth estimation and model generation from aerial images has greatly increased in the photogrammetric society. In our work, we focus on algorithms that allow an online image-based dense depth estimation from video sequences, which enables the direct and live structural analysis of the depicted scene. Therefore, we use a multi-view plane-sweep algorithm with a semi-global matching (SGM) optimization which is parallelized for general purpose computation on a GPU (GPGPU), reaching sufficient performance to keep up with the key-frames of input sequences. One important aspect to reach good performance is the way to sample the scene space, creating plane hypotheses. A small step size between consecutive planes, which is needed to reconstruct details in the near vicinity of the camera may lead to ambiguities in distant regions, due to the perspective projection of the camera. Furthermore, an equidistant sampling with a small step size produces a large number of plane hypotheses, leading to high computational effort. To overcome these problems, we present a novel methodology to directly determine the sampling points of plane-sweep algorithms in image space. The use of the perspective invariant cross-ratio allows us to derive the location of the sampling planes directly from the image data. With this, we efficiently sample the scene space, achieving higher sampling density in areas which are close to the camera and a lower density in distant regions. We evaluate our approach on a synthetic benchmark dataset for quantitative evaluation and on a real-image dataset consisting of aerial imagery. The experiments reveal that an inverse sampling achieves equal and better results than a linear sampling, with less sampling points and thus less runtime. Our algorithm allows an online computation of depth maps for subsequences of five frames, provided that the relative
Directory of Open Access Journals (Sweden)
B. Ruf
2017-08-01
Full Text Available With the emergence of small consumer Unmanned Aerial Vehicles (UAVs, the importance and interest of image-based depth estimation and model generation from aerial images has greatly increased in the photogrammetric society. In our work, we focus on algorithms that allow an online image-based dense depth estimation from video sequences, which enables the direct and live structural analysis of the depicted scene. Therefore, we use a multi-view plane-sweep algorithm with a semi-global matching (SGM optimization which is parallelized for general purpose computation on a GPU (GPGPU, reaching sufficient performance to keep up with the key-frames of input sequences. One important aspect to reach good performance is the way to sample the scene space, creating plane hypotheses. A small step size between consecutive planes, which is needed to reconstruct details in the near vicinity of the camera may lead to ambiguities in distant regions, due to the perspective projection of the camera. Furthermore, an equidistant sampling with a small step size produces a large number of plane hypotheses, leading to high computational effort. To overcome these problems, we present a novel methodology to directly determine the sampling points of plane-sweep algorithms in image space. The use of the perspective invariant cross-ratio allows us to derive the location of the sampling planes directly from the image data. With this, we efficiently sample the scene space, achieving higher sampling density in areas which are close to the camera and a lower density in distant regions. We evaluate our approach on a synthetic benchmark dataset for quantitative evaluation and on a real-image dataset consisting of aerial imagery. The experiments reveal that an inverse sampling achieves equal and better results than a linear sampling, with less sampling points and thus less runtime. Our algorithm allows an online computation of depth maps for subsequences of five frames, provided that
Energy Technology Data Exchange (ETDEWEB)
Brodsky, S
2003-11-19
Theoretical and phenomenological evidence is now accumulating that the QCD coupling becomes constant at small virtuality; i.e., {alpha}{sub s}(Q{sup 2}) develops an infrared fixed point in contradiction to the usual assumption of singular growth in the infrared. For example, the hadronic decays of the {tau} lepton can be used to determine the effective charge {alpha}{sub {tau}}(m{sub {tau}{prime}}{sup 2}) for a hypothetical {tau}-lepton with mass in the range 0 < m{sub {tau}{prime}} < m{sub {tau}}. The {tau} decay data at low mass scales indicates that the effective charge freezes at a value of s = m{sub {tau}{prime}}{sup 2} of order 1 GeV{sup 2} with a magnitude {alpha}{sub {tau}} {approx} 0.9 {+-} 0.1. The near-constant behavior of effective couplings suggests that QCD can be approximated as a conformal theory even at relatively small momentum transfer and why there are no significant running coupling corrections to quark counting rules for exclusive processes. The AdS/CFT correspondence of large N{sub c} supergravity theory in higher-dimensional anti-de Sitter space with supersymmetric QCD in 4-dimensional space-time also has interesting implications for hadron phenomenology in the conformal limit, including an all-orders demonstration of counting rules for exclusive processes and light-front wavefunctions. The utility of light-front quantization and light-front Fock wavefunctions for analyzing nonperturbative QCD and representing the dynamics of QCD bound states is also discussed.
14 CFR 21.130 - Statement of conformity.
2010-01-01
... 14 Aeronautics and Space 1 2010-01-01 2010-01-01 false Statement of conformity. 21.130 Section 21... conformity. Each holder or licensee of a type certificate only, for a product manufactured in the United... Administrator a statement of conformity (FAA Form 317). This statement must be signed by an authorized person...
14 CFR 21.53 - Statement of conformity.
2010-01-01
... 14 Aeronautics and Space 1 2010-01-01 2010-01-01 false Statement of conformity. 21.53 Section 21... CERTIFICATION PROCEDURES FOR PRODUCTS AND PARTS Type Certificates § 21.53 Statement of conformity. Link to an... conformity (FAA Form 317) to the Administrator for each aircraft engine and propeller presented to the...
Directory of Open Access Journals (Sweden)
Jiang Hualiang
2010-11-01
Full Text Available Abstract Background Conformational sampling for small molecules plays an essential role in drug discovery research pipeline. Based on multi-objective evolution algorithm (MOEA, we have developed a conformational generation method called Cyndi in the previous study. In this work, in addition to Tripos force field in the previous version, Cyndi was updated by incorporation of MMFF94 force field to assess the conformational energy more rationally. With two force fields against a larger dataset of 742 bioactive conformations of small ligands extracted from PDB, a comparative analysis was performed between pure force field based method (FFBM and multiple empirical criteria based method (MECBM hybrided with different force fields. Results Our analysis reveals that incorporating multiple empirical rules can significantly improve the accuracy of conformational generation. MECBM, which takes both empirical and force field criteria as the objective functions, can reproduce about 54% (within 1Å RMSD of the bioactive conformations in the 742-molecule testset, much higher than that of pure force field method (FFBM, about 37%. On the other hand, MECBM achieved a more complete and efficient sampling of the conformational space because the average size of unique conformations ensemble per molecule is about 6 times larger than that of FFBM, while the time scale for conformational generation is nearly the same as FFBM. Furthermore, as a complementary comparison study between the methods with and without empirical biases, we also tested the performance of the three conformational generation methods in MacroModel in combination with different force fields. Compared with the methods in MacroModel, MECBM is more competitive in retrieving the bioactive conformations in light of accuracy but has much lower computational cost. Conclusions By incorporating different energy terms with several empirical criteria, the MECBM method can produce more reasonable conformational
Frank, Martin
2015-01-01
Complex carbohydrates usually have a large number of rotatable bonds and consequently a large number of theoretically possible conformations can be generated (combinatorial explosion). The application of systematic search methods for conformational analysis of carbohydrates is therefore limited to disaccharides and trisaccharides in a routine analysis. An alternative approach is to use Monte-Carlo methods or (high-temperature) molecular dynamics (MD) simulations to explore the conformational space of complex carbohydrates. This chapter describes how to use MD simulation data to perform a conformational analysis (conformational maps, hydrogen bonds) of oligosaccharides and how to build realistic 3D structures of large polysaccharides using Conformational Analysis Tools (CAT).
DEFF Research Database (Denmark)
Bambery, K.R.; Fleming, R.J.; Holbøll, Joachim
2001-01-01
.5×107 V m-1. Current density was also measured as a function of temperature and field. Space charge due exclusively to the temperature gradient was detected, with density of order 0.01 C m-3. The activation energy associated with the transport of electrons through the bulk was calculated as 0.09 e...
Directory of Open Access Journals (Sweden)
Gregory D Friedland
2009-05-01
Full Text Available Conformational ensembles are increasingly recognized as a useful representation to describe fundamental relationships between protein structure, dynamics and function. Here we present an ensemble of ubiquitin in solution that is created by sampling conformational space without experimental information using "Backrub" motions inspired by alternative conformations observed in sub-Angstrom resolution crystal structures. Backrub-generated structures are then selected to produce an ensemble that optimizes agreement with nuclear magnetic resonance (NMR Residual Dipolar Couplings (RDCs. Using this ensemble, we probe two proposed relationships between properties of protein ensembles: (i a link between native-state dynamics and the conformational heterogeneity observed in crystal structures, and (ii a relation between dynamics of an individual protein and the conformational variability explored by its natural family. We show that the Backrub motional mechanism can simultaneously explore protein native-state dynamics measured by RDCs, encompass the conformational variability present in ubiquitin complex structures and facilitate sampling of conformational and sequence variability matching those occurring in the ubiquitin protein family. Our results thus support an overall relation between protein dynamics and conformational changes enabling sequence changes in evolution. More practically, the presented method can be applied to improve protein design predictions by accounting for intrinsic native-state dynamics.
Conformal invariance from nonconformal gravity
International Nuclear Information System (INIS)
Meissner, Krzysztof A.; Nicolai, Hermann
2009-01-01
We discuss the conditions under which classically conformally invariant models in four dimensions can arise out of nonconformal (Einstein) gravity. As an 'existence proof' that this is indeed possible we show how to derive N=4 super Yang-Mills theory with any compact gauge group G from nonconformal gauged N=4 supergravity as a special flat space limit. We stress the role that the anticipated UV finiteness of the (so far unknown) underlying theory of quantum gravity would have to play in such a scheme, as well as the fact that the masses of elementary particles would have to arise via quantum gravitational effects which mimic the conformal anomalies of standard (flat space) UV divergent quantum field theory.
Viscous conformal gauge theories
DEFF Research Database (Denmark)
Toniato, Arianna; Sannino, Francesco; Rischke, Dirk H.
2017-01-01
We present the conformal behavior of the shear viscosity-to-entropy density ratio and the fermion-number diffusion coefficient within the perturbative regime of the conformal window for gauge-fermion theories.......We present the conformal behavior of the shear viscosity-to-entropy density ratio and the fermion-number diffusion coefficient within the perturbative regime of the conformal window for gauge-fermion theories....
Superspace conformal field theory
Energy Technology Data Exchange (ETDEWEB)
Quella, Thomas [Koeln Univ. (Germany). Inst. fuer Theoretische Physik; Schomerus, Volker [Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany)
2013-07-15
Conformal sigma models and WZW models on coset superspaces provide important examples of logarithmic conformal field theories. They possess many applications to problems in string and condensed matter theory. We review recent results and developments, including the general construction of WZW models on type I supergroups, the classification of conformal sigma models and their embedding into string theory.
Superspace conformal field theory
International Nuclear Information System (INIS)
Quella, Thomas
2013-07-01
Conformal sigma models and WZW models on coset superspaces provide important examples of logarithmic conformal field theories. They possess many applications to problems in string and condensed matter theory. We review recent results and developments, including the general construction of WZW models on type I supergroups, the classification of conformal sigma models and their embedding into string theory.
Directory of Open Access Journals (Sweden)
Brunatto S.F.
2001-01-01
Full Text Available The present work reports an investigation of the influence of the radial spacing between cathodes on the iron sintering process by hollow cathode electrical discharge, with surface enrichment of the alloying elements Cr and Ni. Pressed cylindrical samples of 9.5 mm diameter and density of 7.0 ± 0.1 g/cm³ were prepared by compaction of Ancorsteel 1000C iron powder. These samples, constituting the central cathode, were positioned concentrically in the interior of an external cathode machined from a tube of stainless steel AISI 310 (containing: 25% Cr, 16% Ni, 1.5% Mn, 1.5% Si, 0.03% C and the remainder Fe. Sintering was done at 1150 °C, for 120 min, utilizing radial spacings between the central and hollow cathodes of 3, 6 and 9 mm and a gas mixture of 80% Ar and 20% H2, with a flow rate of 5 cm³/s at a pressure of 3 Torr. The electric discharge was generated using a pulsed voltage power source, with a period of 200 mus. The radial spacing had only a slight influence on the quantity of atoms of alloying elements deposited and diffused on the surface of the sample. Analysis with a microprobe showed the presence of chrome (up to 4.0% and nickel (up to 3.0%, in at. % at the surface of the samples. This surface enrichment can be attributed to the mechanism of sputtering of the metallic atoms present in the external cathode, with the deposition of these elements on the sample surface and consequent diffusion within the sample.
Christoff Fourie; Elisabeth Schoepfer
2014-01-01
Sample supervised image analysis, in particular sample supervised segment generation, shows promise as a methodological avenue applicable within Geographic Object-Based Image Analysis (GEOBIA). Segmentation is acknowledged as a constituent component within typically expansive image analysis processes. A general extension to the basic formulation of an empirical discrepancy measure directed segmentation algorithm parameter tuning approach is proposed. An expanded search landscape is defined, c...
International Nuclear Information System (INIS)
Pavicevic, M.; Novakovic, M.; Zecevic, V.
1961-01-01
The objective of this paper is to present adaptation of the RA reactor which would enable samples irradiation by fast neutrons and describe new experimental possibilities. New experimental space was achieved using hollow fuel elements which have been reconstructed to enable placement of irradiation capsules inside the tube. This paper includes thermal analysis and describes problems related to operation, safety and radiation protection issues which arise from using reconstructed fuel elements
Goyet, Catherine; Davis, Daniel; Peltzer, Edward T.; Brewer, Peter G.
1995-01-01
Large-scale ocean observing programs such as the Joint Global Ocean Flux Study (JGOFS) and the World Ocean Circulation Experiment (WOCE) today, must face the problem of designing an adequate sampling strategy. For ocean chemical variables, the goals and observing technologies are quite different from ocean physical variables (temperature, salinity, pressure). We have recently acquired data on the ocean CO2 properties on WOCE cruises P16c and P17c that are sufficiently dense to test for sampling redundancy. We use linear and quadratic interpolation methods on the sampled field to investigate what is the minimum number of samples required to define the deep ocean total inorganic carbon (TCO2) field within the limits of experimental accuracy (+/- 4 micromol/kg). Within the limits of current measurements, these lines were oversampled in the deep ocean. Should the precision of the measurement be improved, then a denser sampling pattern may be desirable in the future. This approach rationalizes the efficient use of resources for field work and for estimating gridded (TCO2) fields needed to constrain geochemical models.
Non-conformable, partial and conformable transposition
DEFF Research Database (Denmark)
König, Thomas; Mäder, Lars Kai
2013-01-01
and the Commission regarding a directive’s outcome, play a much more strategic role than has to date acknowledged in the transposition literature. Whereas disagreement of a member state delays conformable transposition, it speeds up non-conformable transposition. Disagreement of the Commission only prolongs...... the transposition process. We therefore conclude that a stronger focus on an effective sanctioning mechanism is warranted for safeguarding compliance with directives....
Use of space-filling curves to select sample locations in natural resource monitoring studies
Andrew Lister; Charles T. Scott
2009-01-01
The establishment of several large area monitoring networks over the past few decades has led to increased research into ways to spatially balance sample locations across the landscape. Many of these methods are well documented and have been used in the past with great success. In this paper, we present a method using geographic information systems (GIS) and fractals...
Aaron, Kim
1991-01-01
The Sample Acquisition, Analysis, and Preservation Project is summarized in outline and graphic form. The objective of the project is to develop component and system level technology to enable the unmanned collection, analysis and preservation of physical, chemical and mineralogical data from the surface of planetary bodies. Technology needs and challenges are identified and specific objectives are described.
Inversion theory and conformal mapping
Blair, David E
2000-01-01
It is rarely taught in an undergraduate or even graduate curriculum that the only conformal maps in Euclidean space of dimension greater than two are those generated by similarities and inversions in spheres. This is in stark contrast to the wealth of conformal maps in the plane. The principal aim of this text is to give a treatment of this paucity of conformal maps in higher dimensions. The exposition includes both an analytic proof in general dimension and a differential-geometric proof in dimension three. For completeness, enough complex analysis is developed to prove the abundance of conformal maps in the plane. In addition, the book develops inversion theory as a subject, along with the auxiliary theme of circle-preserving maps. A particular feature is the inclusion of a paper by Carath�odory with the remarkable result that any circle-preserving transformation is necessarily a M�bius transformation, not even the continuity of the transformation is assumed. The text is at the level of advanced undergr...
GARN: Sampling RNA 3D Structure Space with Game Theory and Knowledge-Based Scoring Strategies.
Boudard, Mélanie; Bernauer, Julie; Barth, Dominique; Cohen, Johanne; Denise, Alain
2015-01-01
Cellular processes involve large numbers of RNA molecules. The functions of these RNA molecules and their binding to molecular machines are highly dependent on their 3D structures. One of the key challenges in RNA structure prediction and modeling is predicting the spatial arrangement of the various structural elements of RNA. As RNA folding is generally hierarchical, methods involving coarse-grained models hold great promise for this purpose. We present here a novel coarse-grained method for sampling, based on game theory and knowledge-based potentials. This strategy, GARN (Game Algorithm for RNa sampling), is often much faster than previously described techniques and generates large sets of solutions closely resembling the native structure. GARN is thus a suitable starting point for the molecular modeling of large RNAs, particularly those with experimental constraints. GARN is available from: http://garn.lri.fr/.
The decomposition of global conformal invariants
Alexakis, Spyros
2012-01-01
This book addresses a basic question in differential geometry that was first considered by physicists Stanley Deser and Adam Schwimmer in 1993 in their study of conformal anomalies. The question concerns conformally invariant functionals on the space of Riemannian metrics over a given manifold. These functionals act on a metric by first constructing a Riemannian scalar out of it, and then integrating this scalar over the manifold. Suppose this integral remains invariant under conformal re-scalings of the underlying metric. What information can one then deduce about the Riemannian scalar? Dese
An efficient method for sampling the essential subspace of proteins
Amadei, A; Linssen, A.B M; de Groot, B.L.; van Aalten, D.M.F.; Berendsen, H.J.C.
A method is presented for a more efficient sampling of the configurational space of proteins as compared to conventional sampling techniques such as molecular dynamics. The method is based on the large conformational changes in proteins revealed by the ''essential dynamics'' analysis. A form of
Suga, Mitsuo; Nishiyama, Hidetoshi; Konyuba, Yuji; Iwamatsu, Shinnosuke; Watanabe, Yoshiyuki; Yoshiura, Chie; Ueda, Takumi; Sato, Chikara
2011-12-01
Although conventional electron microscopy (EM) requires samples to be in vacuum, most chemical and physical reactions occur in liquid or gas. The Atmospheric Scanning Electron Microscope (ASEM) can observe dynamic phenomena in liquid or gas under atmospheric pressure in real time. An electron-permeable window made of pressure-resistant 100 nm-thick silicon nitride (SiN) film, set into the bottom of the open ASEM sample dish, allows an electron beam to be projected from underneath the sample. A detector positioned below captures backscattered electrons. Using the ASEM, we observed the radiation-induced self-organization process of particles, as well as phenomena accompanying volume change, including evaporation-induced crystallization. Using the electrochemical ASEM dish, we observed tree-like electrochemical depositions on the cathode. In silver nitrate solution, we observed silver depositions near the cathode forming incidental internal voids. The heated ASEM dish allowed observation of patterns of contrast in melting and solidifying solder. Finally, to demonstrate its applicability for monitoring and control of industrial processes, silver paste and solder paste were examined at high throughput. High resolution, imaging speed, flexibility, adaptability, and ease of use facilitate the observation of previously difficult-to-image phenomena, and make the ASEM applicable to various fields. Copyright © 2011 Elsevier B.V. All rights reserved.
Long, partial-short, and special conformal fields
Energy Technology Data Exchange (ETDEWEB)
Metsaev, R.R. [Department of Theoretical Physics, P.N. Lebedev Physical Institute,Leninsky prospect 53, Moscow 119991 (Russian Federation)
2016-05-17
In the framework of metric-like approach, totally symmetric arbitrary spin bosonic conformal fields propagating in flat space-time are studied. Depending on the values of conformal dimension, spin, and dimension of space-time, we classify all conformal field as long, partial-short, short, and special conformal fields. An ordinary-derivative (second-derivative) Lagrangian formulation for such conformal fields is obtained. The ordinary-derivative Lagrangian formulation is realized by using double-traceless gauge fields, Stueckelberg fields, and auxiliary fields. Gauge-fixed Lagrangian invariant under global BRST transformations is obtained. The gauge-fixed BRST Lagrangian is used for the computation of partition functions for all conformal fields. Using the result for the partition functions, numbers of propagating D.o.F for the conformal fields are also found.
Anomalies, conformal manifolds, and spheres
Energy Technology Data Exchange (ETDEWEB)
Gomis, Jaume [Perimeter Institute for Theoretical Physics,Waterloo, Ontario, N2L 2Y5 (Canada); Hsin, Po-Shen [Department of Physics, Princeton University,Princeton, NJ 08544 (United States); Komargodski, Zohar; Schwimmer, Adam [Weizmann Institute of Science,Rehovot 76100 (Israel); Seiberg, Nathan [School of Natural Sciences, Institute for Advanced Study,Princeton, NJ 08540 (United States); Theisen, Stefan [Max-Planck-Institut für Gravitationsphysik, Albert-Einstein-Institut,14476 Golm (Germany)
2016-03-04
The two-point function of exactly marginal operators leads to a universal contribution to the trace anomaly in even dimensions. We study aspects of this trace anomaly, emphasizing its interpretation as a sigma model, whose target space M is the space of conformal field theories (a.k.a. the conformal manifold). When the underlying quantum field theory is supersymmetric, this sigma model has to be appropriately supersymmetrized. As examples, we consider in some detail N=(2,2) and N=(0,2) supersymmetric theories in d=2 and N=2 supersymmetric theories in d=4. This reasoning leads to new information about the conformal manifolds of these theories, for example, we show that the manifold is Kähler-Hodge and we further argue that it has vanishing Kähler class. For N=(2,2) theories in d=2 and N=2 theories in d=4 we also show that the relation between the sphere partition function and the Kähler potential of M follows immediately from the appropriate sigma models that we construct. Along the way we find several examples of potential trace anomalies that obey the Wess-Zumino consistency conditions, but can be ruled out by a more detailed analysis.
Directory of Open Access Journals (Sweden)
Christoff Fourie
2014-04-01
Full Text Available Sample supervised image analysis, in particular sample supervised segment generation, shows promise as a methodological avenue applicable within Geographic Object-Based Image Analysis (GEOBIA. Segmentation is acknowledged as a constituent component within typically expansive image analysis processes. A general extension to the basic formulation of an empirical discrepancy measure directed segmentation algorithm parameter tuning approach is proposed. An expanded search landscape is defined, consisting not only of the segmentation algorithm parameters, but also of low-level, parameterized image processing functions. Such higher dimensional search landscapes potentially allow for achieving better segmentation accuracies. The proposed method is tested with a range of low-level image transformation functions and two segmentation algorithms. The general effectiveness of such an approach is demonstrated compared to a variant only optimising segmentation algorithm parameters. Further, it is shown that the resultant search landscapes obtained from combining mid- and low-level image processing parameter domains, in our problem contexts, are sufficiently complex to warrant the use of population based stochastic search methods. Interdependencies of these two parameter domains are also demonstrated, necessitating simultaneous optimization.
Directory of Open Access Journals (Sweden)
Roger Hyam
Full Text Available The psychological restorative effects of exposure to nature are well established and extend to just viewing of images of nature. A previous study has shown that Perceived Naturalness (PN of images correlates with their restorative value. This study tests whether it is possible to detect degree of PN of images using an image classifier. It takes images that have been scored by humans for PN (including a subset that have been assessed for restorative value and passes them through the Google Vision API image classification service. The resulting labels are assigned to broad semantic classes to create a Calculated Semantic Naturalness (CSN metric for each image. It was found that CSN correlates with PN. CSN was then calculated for a geospatial sampling of Google Street View images across the city of Edinburgh. CSN was found to correlate with PN in this sample also indicating the technique may be useful in large scale studies. Because CSN correlates with PN which correlates with restorativeness it is suggested that CSN or a similar measure may be useful in automatically detecting restorative images and locations. In an exploratory aside CSN was not found to correlate with an indicator of socioeconomic deprivation.
A Mediated Moderation Model of Conformative Peer Bullying
Cho, Yoonju; Chung, Ock-Boon
2012-01-01
We investigated the relationship between conformative peer bullying and issues of peer conformity among adolescents. This relationship is examined through the establishment of a mediated moderation model for conformative peer bullying using structural equation modeling in a sample of 391 second-year middle school students in Seoul, South Korea. We…
Improved abdominal MRI in non-breath-holding children using a radial k-space sampling technique
Energy Technology Data Exchange (ETDEWEB)
Lee, Jong Hyuk; Choi, Young Hun; Cheon, Jung Eun; Lee, So Mi; Cho, Hyun Hae; Kim, Woo Sun; Kim, In One [Seoul National University Children' s Hospital, Department of Radiology, Seoul (Korea, Republic of); Shin, Su Mi [SMG-SNU Boramae Medical Center, Department of Radiology, Seoul (Korea, Republic of)
2015-06-15
Radial k-space sampling techniques have been shown to reduce motion artifacts in adult abdominal MRI. To compare a T2-weighted radial k-space sampling MRI pulse sequence (BLADE) with standard respiratory-triggered T2-weighted turbo spin echo (TSE) in pediatric abdominal imaging. Axial BLADE and respiratory-triggered turbo spin echo sequences were performed without fat suppression in 32 abdominal MR examinations in children. We retrospectively assessed overall image quality, the presence of respiratory, peristaltic and radial artifact, and lesion conspicuity. We evaluated signal uniformity of each sequence. BLADE showed improved overall image quality (3.35 ± 0.85 vs. 2.59 ± 0.59, P < 0.001), reduced respiratory motion artifact (0.51 ± 0.56 vs. 1.89 ± 0.68, P < 0.001), and improved lesion conspicuity (3.54 ± 0.88 vs. 2.92 ± 0.77, P = 0.006) compared to respiratory triggering turbo spin-echo (TSE) sequences. The bowel motion artifact scores were similar for both sequences (1.65 ± 0.77 vs. 1.79 ± 0.74, P = 0.691). BLADE introduced a radial artifact that was not observed on the respiratory triggering-TSE images (1.10 ± 0.85 vs. 0, P < 0.001). BLADE was associated with diminished signal variation compared with respiratory triggering-TSE in the liver, spleen and air (P < 0.001). The radial k-space sampling technique improved the quality and reduced respiratory motion artifacts in young children compared with conventional respiratory-triggered turbo spin-echo sequences. (orig.)
Conformal manifolds: ODEs from OPEs
Behan, Connor
2018-03-01
The existence of an exactly marginal deformation in a conformal field theory is very special, but it is not well understood how this is reflected in the allowed dimensions and OPE coefficients of local operators. To shed light on this question, we compute perturbative corrections to several observables in an abstract CFT, starting with the beta function. This yields a sum rule that the theory must obey in order to be part of a conformal manifold. The set of constraints relating CFT data at different values of the coupling can in principle be written as a dynamical system that allows one to flow arbitrarily far. We begin the analysis of it by finding a simple form for the differential equations when the spacetime and theory space are both one-dimensional. A useful feature we can immediately observe is that our system makes it very difficult for level crossing to occur.
A new Langmuir probe concept for rapid sampling of space plasma electron density
International Nuclear Information System (INIS)
Jacobsen, K S; Pedersen, A; Moen, J I; Bekkeng, T A
2010-01-01
In this paper we describe a new Langmuir probe concept that was invented for the in situ investigation of HF radar backscatter irregularities, with the capability to measure absolute electron density at a resolution sufficient to resolve the finest conceivable structure in an ionospheric plasma. The instrument consists of two or more fixed-bias cylindrical Langmuir probes whose radius is small compared to the Debye length. With this configuration, it is possible to acquire absolute electron density measurements independent of electron temperature and rocket/satellite potential. The system was flown on the ICI-2 sounding rocket to investigate the plasma irregularities which cause HF backscatter. It had a sampling rate of more than 5 kHz and successfully measured structures down to the scale of one electron gyro radius. The system can easily be adapted for any ionospheric rocket or satellite, and provides high-quality measurements of electron density at any desired resolution
Conformal solids and holography
Esposito, A.; Garcia-Saenz, S.; Nicolis, A.; Penco, R.
2017-12-01
We argue that a SO( d) magnetic monopole in an asymptotically AdS space-time is dual to a d-dimensional strongly coupled system in a solid state. In light of this, it would be remiss of us not to dub such a field configuration solidon. In the presence of mixed boundary conditions, a solidon spontaneously breaks translations (among many other symmetries) and gives rise to Goldstone excitations on the boundary — the phonons of the solid. We derive the quadratic action for the boundary phonons in the probe limit and show that, when the mixed boundary conditions preserve conformal symmetry, the longitudinal and transverse sound speeds are related to each other as expected from effective field theory arguments. We then include backreaction and calculate the free energy of the solidon for a particular choice of mixed boundary conditions, corresponding to a relevant multi-trace deformation of the boundary theory. We find such free energy to be lower than that of thermal AdS. This suggests that our solidon undergoes a solid-to-liquid first order phase transition by melting into a Schwarzschild-AdS black hole as the temperature is raised.
Arbitrary spin conformal fields in (A)dS
International Nuclear Information System (INIS)
Metsaev, R.R.
2014-01-01
Totally symmetric arbitrary spin conformal fields in (A)dS space of even dimension greater than or equal to four are studied. Ordinary-derivative and gauge invariant Lagrangian formulation for such fields is obtained. Gauge symmetries are realized by using auxiliary fields and Stueckelberg fields. We demonstrate that Lagrangian of conformal field is decomposed into a sum of gauge invariant Lagrangians for massless, partial-massless, and massive fields. We obtain a mass spectrum of the partial-massless and massive fields and confirm the conjecture about the mass spectrum made in the earlier literature. In contrast to conformal fields in flat space, the kinetic terms of conformal fields in (A)dS space turn out to be diagonal with respect to fields entering the Lagrangian. Explicit form of conformal transformation which maps conformal field in flat space to conformal field in (A)dS space is obtained. Covariant Lorentz-like and de-Donder like gauge conditions leading to simple gauge-fixed Lagrangian of conformal fields are proposed. Using such gauge-fixed Lagrangian, which is invariant under global BRST transformations, we explain how the partition function of conformal field is obtained in the framework of our approach
Computational Methods for Conformational Sampling of Biomolecules
DEFF Research Database (Denmark)
Bottaro, Sandro
mathematical approach to a classic geometrical problem in protein simulations, and demonstrated its superiority compared to existing approaches. Secondly, we have constructed a more accurate implicit model of the aqueous environment, which is of fundamental importance in protein chemistry. This model......Proteins play a fundamental role in virtually every process within living organisms. For example, some proteins act as enzymes, catalyzing a wide range of reactions necessary for life, others mediate the cell interaction with the surrounding environment and still others have regulatory functions...... is computationally much faster than models where water molecules are represented explicitly. Finally, in collaboration with the group of structural bioinformatics at the Department of Biology (KU), we have applied these techniques in the context of modeling of protein structure and flexibility from low...
Difference between standard and quasi-conformal BFKL kernels
International Nuclear Information System (INIS)
Fadin, V.S.; Fiore, R.; Papa, A.
2012-01-01
As it was recently shown, the colour singlet BFKL kernel, taken in Möbius representation in the space of impact parameters, can be written in quasi-conformal shape, which is unbelievably simple compared with the conventional form of the BFKL kernel in momentum space. It was also proved that the total kernel is completely defined by its Möbius representation. In this paper we calculated the difference between standard and quasi-conformal BFKL kernels in momentum space and discovered that it is rather simple. Therefore we come to the conclusion that the simplicity of the quasi-conformal kernel is caused mainly by using the impact parameter space.
International Nuclear Information System (INIS)
Corominas-Murtra, Bernat; Hanel, Rudolf; Thurner, Stefan
2016-01-01
It has been shown recently that a specific class of path-dependent stochastic processes, which reduce their sample space as they unfold, lead to exact scaling laws in frequency and rank distributions. Such sample space reducing processes offer an alternative new mechanism to understand the emergence of scaling in countless processes. The corresponding power law exponents were shown to be related to noise levels in the process. Here we show that the emergence of scaling is not limited to the simplest SSRPs, but holds for a huge domain of stochastic processes that are characterised by non-uniform prior distributions. We demonstrate mathematically that in the absence of noise the scaling exponents converge to −1 (Zipf’s law) for almost all prior distributions. As a consequence it becomes possible to fully understand targeted diffusion on weighted directed networks and its associated scaling laws in node visit distributions. The presence of cycles can be properly interpreted as playing the same role as noise in SSRPs and, accordingly, determine the scaling exponents. The result that Zipf’s law emerges as a generic feature of diffusion on networks, regardless of its details, and that the exponent of visiting times is related to the amount of cycles in a network could be relevant for a series of applications in traffic-, transport- and supply chain management. (paper)
Wang, Wei
2017-10-06
The function of complex biomolecular machines relies heavily on their conformational changes. Investigating these functional conformational changes is therefore essential for understanding the corresponding biological processes and promoting bioengineering applications and rational drug design. Constructing Markov State Models (MSMs) based on large-scale molecular dynamics simulations has emerged as a powerful approach to model functional conformational changes of the biomolecular system with sufficient resolution in both time and space. However, the rapid development of theory and algorithms for constructing MSMs has made it difficult for nonexperts to understand and apply the MSM framework, necessitating a comprehensive guidance toward its theory and practical usage. In this study, we introduce the MSM theory of conformational dynamics based on the projection operator scheme. We further propose a general protocol of constructing MSM to investigate functional conformational changes, which integrates the state-of-the-art techniques for building and optimizing initial pathways, performing adaptive sampling and constructing MSMs. We anticipate this protocol to be widely applied and useful in guiding nonexperts to study the functional conformational changes of large biomolecular systems via the MSM framework. We also discuss the current limitations of MSMs and some alternative methods to alleviate them.
Induced quantum conformal gravity
International Nuclear Information System (INIS)
Novozhilov, Y.V.; Vassilevich, D.V.
1988-11-01
Quantum gravity is considered as induced by matter degrees of freedom and related to the symmetry breakdown in the low energy region of a non-Abelian gauge theory of fundamental fields. An effective action for quantum conformal gravity is derived where both the gravitational constant and conformal kinetic term are positive. Relation with induced classical gravity is established. (author). 15 refs
Conformal transformations in superspace
International Nuclear Information System (INIS)
Dao Vong Duc
1977-01-01
The spinor extension of the conformal algebra is investigated. The transformation law of superfields under the conformal coordinate inversion R defined in the superspace is derived. Using R-technique, the superconformally covariant two-point and three-point correlation functions are found
Conformational stability of calreticulin
DEFF Research Database (Denmark)
Jørgensen, C.S.; Trandum, C.; Larsen, N.
2005-01-01
The conformational stability of calreticulin was investigated. Apparent unfolding temperatures (T-m) increased from 31 degrees C at pH 5 to 51 degrees C at pH 9, but electrophoretic analysis revealed that calreticulin oligomerized instead of unfolding. Structural analyses showed that the single C......-terminal a-helix was of major importance to the conformational stability of calreticulin....
Conformational Transitions and Convergence of Absolute Binding Free Energy Calculations
Lapelosa, Mauro; Gallicchio, Emilio; Levy, Ronald M.
2011-01-01
The Binding Energy Distribution Analysis Method (BEDAM) is employed to compute the standard binding free energies of a series of ligands to a FK506 binding protein (FKBP12) with implicit solvation. Binding free energy estimates are in reasonably good agreement with experimental affinities. The conformations of the complexes identified by the simulations are in good agreement with crystallographic data, which was not used to restrain ligand orientations. The BEDAM method is based on λ -hopping Hamiltonian parallel Replica Exchange (HREM) molecular dynamics conformational sampling, the OPLS-AA/AGBNP2 effective potential, and multi-state free energy estimators (MBAR). Achieving converged and accurate results depends on all of these elements of the calculation. Convergence of the binding free energy is tied to the level of convergence of binding energy distributions at critical intermediate states where bound and unbound states are at equilibrium, and where the rate of binding/unbinding conformational transitions is maximal. This finding mirrors similar observations in the context of order/disorder transitions as for example in protein folding. Insights concerning the physical mechanism of ligand binding and unbinding are obtained. Convergence for the largest FK506 ligand is achieved only after imposing strict conformational restraints, which however require accurate prior structural knowledge of the structure of the complex. The analytical AGBNP2 model is found to underestimate the magnitude of the hydrophobic driving force towards binding in these systems characterized by loosely packed protein-ligand binding interfaces. Rescoring of the binding energies using a numerical surface area model corrects this deficiency. This study illustrates the complex interplay between energy models, exploration of conformational space, and free energy estimators needed to obtain robust estimates from binding free energy calculations. PMID:22368530
International Nuclear Information System (INIS)
Feuvret, Loic; Noel, Georges; Mazeron, Jean-Jacques; Bey, Pierre
2006-01-01
We present a critical analysis of the conformity indices described in the literature and an evaluation of their field of application. Three-dimensional conformal radiotherapy, with or without intensity modulation, is based on medical imaging techniques, three-dimensional dosimetry software, compression accessories, and verification procedures. It consists of delineating target volumes and critical healthy tissues to select the best combination of beams. This approach allows better adaptation of the isodose to the tumor volume, while limiting irradiation of healthy tissues. Tools must be developed to evaluate the quality of proposed treatment plans. Dosimetry software provides the dose distribution in each CT section and dose-volume histograms without really indicating the degree of conformity. The conformity index is a complementary tool that attributes a score to a treatment plan or that can compare several treatment plans for the same patient. The future of conformal index in everyday practice therefore remains unclear
Conformal invariance in supergravity
International Nuclear Information System (INIS)
Bergshoeff, E.A.
1983-01-01
In this thesis the author explains the role of conformal invariance in supergravity. He presents the complete structure of extended conformal supergravity for N <= 4. The outline of this work is as follows. In chapter 2 he briefly summarizes the essential properties of supersymmetry and supergravity and indicates the use of conformal invariance in supergravity. The idea that the introduction of additional symmetry transformations can make clear the structure of a field theory is not reserved to supergravity only. By means of some simple examples it is shown in chapter 3 how one can always introduce additional gauge transformations in a theory of massive vector fields. Moreover it is shown how the gauge invariant formulation sometimes explains the quantum mechanical properties of the theory. In chapter 4 the author defines the conformal transformations and summarizes their main properties. He explains how these conformal transformations can be used to analyse the structure of gravity. The supersymmetric extension of these results is discussed in chapter 5. Here he describes as an example how N=1 supergravity can be reformulated in a conformally-invariant way. He also shows that beyond N=1 the gauge fields of the superconformal symmetries do not constitute an off-shell field representation of extended conformal supergravity. Therefore, in chapter 6, a systematic method to construct the off-shell formulation of all extended conformal supergravity theories with N <= 4 is developed. As an example he uses this method to construct N=1 conformal supergravity. Finally, in chapter 7 N=4 conformal supergravity is discussed. (Auth.)
The conformal method and the conformal thin-sandwich method are the same
International Nuclear Information System (INIS)
Maxwell, David
2014-01-01
The conformal method developed in the 1970s and the more recent Lagrangian and Hamiltonian conformal thin-sandwich methods are techniques for finding solutions of the Einstein constraint equations. We show that they are manifestations of a single conformal method: there is a straightforward way to convert back and forth between the parameters for these methods so that the corresponding solutions of the Einstein constraint equations agree. The unifying idea is the need to clearly distinguish tangent and cotangent vectors to the space of conformal classes on a manifold, and we introduce a vocabulary for working with these objects without reference to a particular representative background metric. As a consequence of these conceptual advantages, we demonstrate how to strengthen previous near-CMC (constant mean curvature) existence and non-existence theorems for the original conformal method to include metrics with scalar curvatures that change sign. (paper)
Virtual and solution conformations of oligosaccharides
International Nuclear Information System (INIS)
Cumming, D.A.; Carver, J.P.
1987-01-01
The possibility that observed nuclear Overhauser enhancements and bulk longitudinal relaxation times, parameters measured by 1 H NMR and often employed in determining the preferred solution conformation of biologically important molecules, are the result of averaging over many conformational states is quantitatively evaluated. Of particular interest was to ascertain whether certain 1 H NMR determined conformations are virtual in nature; i.e., the fraction of the population of molecules actually found at any time within the subset of conformational space defined as the solution conformation is vanishingly small. A statistical mechanics approach was utilized to calculate an ensemble average relaxation matrix from which (NOE)'s and (T 1 )'s are calculated. Model glycosidic linkages in four oligosaccharides were studied. The nature of the resultant population distributions is such that 50% of the molecular population is found within 1% of available microstates, while 99% of the molecular population occupies about 10% of the ensemble microstates, a number roughly equal to that sterically allowed. From this analysis the authors conclude that in many cases quantitative interpretation of NMR relaxation data, which attempts to define a single set of allowable torsion angle values consistent with the observed data, will lead to solution conformations that are either virtual or reflect torsion angle values possessed by a minority of the molecular population. Observed values of NMR relaxation data are the result of the complex interdependence of the population distribution and NOE (or T 1 ) surfaces in conformational space. In conformational analyses, NMR data can therefore be used to test different population distributions calculated from empirical potential energy functions
Birmele, Michele N.
2011-01-01
The Regenerative, Environmental Control and Life Support System (ECLSS) on the International Space Station (ISS) includes the the Water Recovery System (WRS) and the Oxygen Generation System (OGS). The WRS consists of a Urine Processor Assembly (UPA) and Water Processor Assembly (WPA). This report describes microbial characterization of wastewater and surface samples collected from the WRS and OGS subsystems, returned to KSC, JSC, and MSFC on consecutive shuttle flights (STS-129 and STS-130) in 2009-10. STS-129 returned two filters that contained fluid samples from the WPA Waste Tank Orbital Recovery Unit (ORU), one from the waste tank and the other from the ISS humidity condensate. Direct count by microscopic enumeration revealed 8.38 x 104 cells per mL in the humidity condensate sample, but none of those cells were recoverable on solid agar media. In contrast, 3.32 x lOs cells per mL were measured from a surface swab of the WRS waste tank, including viable bacteria and fungi recovered after S12 days of incubation on solid agar media. Based on rDNA sequencing and phenotypic characterization, a fungus recovered from the filter was determined to be Lecythophora mutabilis. The bacterial isolate was identified by rDNA sequence data to be Methylobacterium radiotolerans. Additional UPA subsystem samples were returned on STS-130 for analysis. Both liquid and solid samples were collected from the Russian urine container (EDV), Distillation Assembly (DA) and Recycle Filter Tank Assembly (RFTA) for post-flight analysis. The bacterium Pseudomonas aeruginosa and fungus Chaetomium brasiliense were isolated from the EDV samples. No viable bacteria or fungi were recovered from RFTA brine samples (N= 6), but multiple samples (N = 11) from the DA and RFTA were found to contain fungal and bacterial cells. Many recovered cells have been identified to genus by rDNA sequencing and carbon source utilization profiling (BiOLOG Gen III). The presence of viable bacteria and fungi from WRS
Draper, D. S.
2016-01-01
NASA Johnson Space Center's (JSC's) Astromaterials Research and Exploration Science (ARES) Division, part of the Exploration Integration and Science Directorate, houses a unique combination of laboratories and other assets for conducting cutting edge planetary research. These facilities have been accessed for decades by outside scientists, most at no cost and on an informal basis. ARES has thus provided substantial leverage to many past and ongoing science projects at the national and international level. Here we propose to formalize that support via an ARES/JSC Plane-tary Sample Analysis and Mission Science Laboratory (PSAMS Lab). We maintain three major research capa-bilities: astromaterial sample analysis, planetary process simulation, and robotic-mission analog research. ARES scientists also support planning for eventual human ex-ploration missions, including astronaut geological training. We outline our facility's capabilities and its potential service to the community at large which, taken together with longstanding ARES experience and expertise in curation and in applied mission science, enable multi-disciplinary planetary research possible at no other institution. Comprehensive campaigns incorporating sample data, experimental constraints, and mission science data can be conducted under one roof.
Directory of Open Access Journals (Sweden)
Rui Xu
2013-01-01
Full Text Available Minimum description length (MDL based group-wise registration was a state-of-the-art method to determine the corresponding points of 3D shapes for the construction of statistical shape models (SSMs. However, it suffered from the problem that determined corresponding points did not uniformly spread on original shapes, since corresponding points were obtained by uniformly sampling the aligned shape on the parameterized space of unit sphere. We proposed a particle-system based method to obtain adaptive sampling positions on the unit sphere to resolve this problem. Here, a set of particles was placed on the unit sphere to construct a particle system whose energy was related to the distortions of parameterized meshes. By minimizing this energy, each particle was moved on the unit sphere. When the system became steady, particles were treated as vertices to build a spherical mesh, which was then relaxed to slightly adjust vertices to obtain optimal sampling-positions. We used 47 cases of (left and right lungs and 50 cases of livers, (left and right kidneys, and spleens for evaluations. Experiments showed that the proposed method was able to resolve the problem of the original MDL method, and the proposed method performed better in the generalization and specificity tests.
Conformal expansions and renormalons
Energy Technology Data Exchange (ETDEWEB)
Rathsman, J.
2000-02-07
The coefficients in perturbative expansions in gauge theories are factorially increasing, predominantly due to renormalons. This type of factorial increase is not expected in conformal theories. In QCD conformal relations between observables can be defined in the presence of a perturbative infrared fixed-point. Using the Banks-Zaks expansion the authors study the effect of the large-order behavior of the perturbative series on the conformal coefficients. The authors find that in general these coefficients become factorially increasing. However, when the factorial behavior genuinely originates in a renormalon integral, as implied by a postulated skeleton expansion, it does not affect the conformal coefficients. As a consequence, the conformal coefficients will indeed be free of renormalon divergence, in accordance with previous observations concerning the smallness of these coefficients for specific observables. The authors further show that the correspondence of the BLM method with the skeleton expansion implies a unique scale-setting procedure. The BLM coefficients can be interpreted as the conformal coefficients in the series relating the fixed-point value of the observable with that of the skeleton effective charge. Through the skeleton expansion the relevance of renormalon-free conformal coefficients extends to real-world QCD.
Visualization of SV2A conformations in situ by the use of Protein Tomography
International Nuclear Information System (INIS)
Lynch, Berkley A.; Matagne, Alain; Braennstroem, Annika; Euler, Anne von; Jansson, Magnus; Hauzenberger, Elenor; Soederhaell, J. Arvid
2008-01-01
The synaptic vesicle protein 2A (SV2A), the brain-binding site of the anti-epileptic drug levetiracetam (LEV), has been characterized by Protein Tomography TM . We identified two major conformations of SV2A in mouse brain tissue: first, a compact, funnel-structure with a pore-like opening towards the cytoplasm; second, a more open, V-shaped structure with a cleft-like opening towards the intravesicular space. The large differences between these conformations suggest a high degree of flexibility and support a valve-like mechanism consistent with the postulated transporter role of SV2A. These two conformations are represented both in samples treated with LEV, and in saline-treated samples, which indicates that LEV binding does not cause a large-scale conformational change of SV2A, or lock a specific conformational state of the protein. This study provides the first direct structural data on SV2A, and supports a transporter function suggested by sequence homology to MFS class of transporter proteins
Conformal sequestering simplified
International Nuclear Information System (INIS)
Schmaltz, Martin; Sundrum, Raman
2006-01-01
Sequestering is important for obtaining flavor-universal soft masses in models where supersymmetry breaking is mediated at high scales. We construct a simple and robust class of hidden sector models which sequester themselves from the visible sector due to strong and conformally invariant hidden dynamics. Masses for hidden matter eventually break the conformal symmetry and lead to supersymmetry breaking by the mechanism recently discovered by Intriligator, Seiberg and Shih. We give a unified treatment of subtleties due to global symmetries of the CFT. There is enough review for the paper to constitute a self-contained account of conformal sequestering
Conformally connected universes
International Nuclear Information System (INIS)
Cantor, M.; Piran, T.
1983-01-01
A well-known difficulty associated with the conformal method for the solution of the general relativistic Hamiltonian constraint is the appearance of an aphysical ''bag of gold'' singularity at the nodal surface of the conformal factor. This happens whenever the background Ricci scalar is too large. Using a simple model, it is demonstrated that some of these singular solutions do have a physical meaning, and that these can be considered as initial data for Universe containing black holes, which are connected, in a conformally nonsingular way with each other. The relation between the ADM mass and the horizon area in this solution supports the cosmic censorship conjecture. (author)
Coadjoint orbits and conformal field theory
International Nuclear Information System (INIS)
Taylor, W. IV.
1993-08-01
This thesis is primarily a study of certain aspects of the geometric and algebraic structure of coadjoint orbit representations of infinite-dimensional Lie groups. The goal of this work is to use coadjoint orbit representations to construct conformal field theories, in a fashion analogous to the free-field constructions of conformal field theories. The new results which are presented in this thesis are as follows: First, an explicit set of formulae are derived giving an algebraic realization of coadjoint orbit representations in terms of differential operators acting on a polynomial Fock space. These representations are equivalent to dual Verma module representations. Next, intertwiners are explicitly constructed which allow the construction of resolutions for irreducible representations using these Fock space realizations. Finally, vertex operators between these irreducible representations are explicitly constructed as chain maps between the resolutions; these vertex operators allow the construction of rational conformal field theories according to an algebraic prescription
Kawai, Toshio; Sumino, Kimiaki; Ohashi, Fumiko; Ikeda, Masayuki
2011-01-01
To facilitate urine sample preparation prior to head-space gas-chromatographic (HS-GC) analysis. Urine samples containing one of the five solvents (acetone, methanol, methyl ethyl ketone, methyl isobutyl ketone and toluene) at the levels of biological exposure limits were aspirated into a vacuum tube via holder, a device commercially available for venous blood collection (the vacuum tube method). The urine sample, 5 ml, was quantitatively transferred to a 20-ml head-space vial prior to HS-GC analysis. The loaded tubes were stored at +4 ℃ in dark for up to 3 d. The vacuum tube method facilitated on-site procedures of urine sample preparation for HS-GC with no significant loss of solvents in the sample and no need of skilled hands, whereas on-site sample preparation time was significantly reduced. Furthermore, no loss of solvents was detected during the 3-d storage, irrespective of hydrophilic (acetone) or lipophilic solvent (toluene). In a pilot application, high performance of the vacuum tube method in sealing a sample in an air-tight space succeeded to confirm that no solvent will be lost when sealing is completed within 5 min after urine voiding, and that the allowance time is as long as 30 min in case of toluene in urine. The use of the holder-vacuum tube device not only saves hands for transfer of the sample to air-tight space, but facilitates sample storage prior to HS-GC analysis.
Very special conformal field theories and their holographic duals
Nakayama, Yu
2018-03-01
Cohen and Glashow introduced the notion of very special relativity as viable space-time symmetry of elementary particle physics. As a natural generalization of their idea, we study the subgroup of the conformal group, dubbed very special conformal symmetry, which is an extension of the very special relativity. We classify all of them and construct field theory examples as well as holographic realization of the very special conformal field theories.
From conformal Haag-Kastler nets to Wightman functions
International Nuclear Information System (INIS)
Joerss, M.
1996-08-01
Starting from a chiral conformal Haag-Kastler net on 2 dimensional Minkowski space we present a canonical construction that leads to a complete set of conformally covariant N-point-functions fulfilling the Wightman axioms. Our method consists of an explicit use of the representation theory of the universal covering group of SL(2,R) combined with a generalization of the conformal cluster theorem to N-point-functions. (orig.)
Chelgren, Nathan D.; Samora, Barbara; Adams, Michael J.; McCreary, Brome
2011-01-01
High variability in abundance, cryptic coloration, and small body size of newly metamorphosed anurans have limited demographic studies of this life-history stage. We used line-transect distance sampling and Bayesian methods to estimate the abundance and spatial distribution of newly metamorphosed Western Toads (Anaxyrus boreas) in terrestrial habitat surrounding a montane lake in central Washington, USA. We completed 154 line-transect surveys from the commencement of metamorphosis (15 September 2009) to the date of first snow accumulation in fall (1 October 2009), and located 543 newly metamorphosed toads. After accounting for variable detection probability associated with the extent of barren habitats, estimates of total surface abundance ranged from a posterior median of 3,880 (95% credible intervals from 2,235 to 12,600) in the first week of sampling to 12,150 (5,543 to 51,670) during the second week of sampling. Numbers of newly metamorphosed toads dropped quickly with increasing distance from the lakeshore in a pattern that differed over the three weeks of the study and contradicted our original hypotheses. Though we hypothesized that the spatial distribution of toads would initially be concentrated near the lake shore and then spread outward from the lake over time, we observed the opposite. Ninety-five percent of individuals occurred within 20, 16, and 15 m of shore during weeks one, two, and three respectively, probably reflecting continued emergence of newly metamorphosed toads from the lake and mortality or burrow use of dispersed individuals. Numbers of toads were highest near the inlet stream of the lake. Distance sampling may provide a useful method for estimating the surface abundance of newly metamorphosed toads and relating their space use to landscape variables despite uncertain and variable probability of detection. We discuss means of improving the precision of estimates of total abundance.
Conformable variational iteration method
Directory of Open Access Journals (Sweden)
Omer Acan
2017-02-01
Full Text Available In this study, we introduce the conformable variational iteration method based on new defined fractional derivative called conformable fractional derivative. This new method is applied two fractional order ordinary differential equations. To see how the solutions of this method, linear homogeneous and non-linear non-homogeneous fractional ordinary differential equations are selected. Obtained results are compared the exact solutions and their graphics are plotted to demonstrate efficiency and accuracy of the method.
Delineating the conformal window
DEFF Research Database (Denmark)
Frandsen, Mads Toudal; Pickup, Thomas; Teper, Michael
2011-01-01
We identify and characterise the conformal window in gauge theories relevant for beyond the standard model building, e.g. Technicolour, using the criteria of metric confinement and causal analytic couplings, which are known to be consistent with the phase diagram of supersymmetric QCD from Seiberg...... duality. Using these criteria we find perturbation theory to be consistent throughout the predicted conformal window for several of these gauge theories and we discuss recent lattice results in the light of our findings....
Conformable Pressurized Structures : Design and Analysis
Geuskens, F.J.J.M.M.
2012-01-01
There are many applications where volume needs to be pressurised within a geometrical space for which conventional pressure vessels do not provide suitable solutions. Applications are for example found in pressure cabins for Blended Wing Body Aircraft and conformable pressure vessels for an
Remarks on Multi-Dimensional Conformal Mechanics
Directory of Open Access Journals (Sweden)
Cestmír Burdík
2009-01-01
Full Text Available Recently, Galajinsky, Lechtenfeld and Polovnikov proposed an elegant group-theoretical transformation of the generic conformal-invariant mechanics to the free one. Considering the classical counterpart of this transformation, we relate this transformation with the Weil model of Lobachewsky space.
Holographic applications of logarithmic conformal field theories
Grumiller, D.; Riedler, W.; Rosseel, J.; Zojer, T.
2013-01-01
We review the relations between Jordan cells in various branches of physics, ranging from quantum mechanics to massive gravity theories. Our main focus is on holographic correspondences between critically tuned gravity theories in anti-de Sitter space and logarithmic conformal field theories in
On holography for (pseudo-)conformal cosmology
Libanov, M.; Sibiryakov, S.
2015-01-01
We propose a holographic dual for (pseudo-)conformal cosmological scenario, with a scalar field that forms a moving domain wall in adS_5. The domain wall separates two vacua with unequal energy densities. Unlike in the existing construction, the 5d solution is regular in the relevant space-time domain.
Lv, Chao; Aitchison, Erick W; Wu, Dongsheng; Zheng, Lianqing; Cheng, Xiaolin; Yang, Wei
2016-03-05
Hydrogen sulfide (H2 S), a commonly known toxic gas compound, possesses unique chemical features that allow this small solute molecule to quickly diffuse through cell membranes. Taking advantage of the recent orthogonal space tempering (OST) method, we comparatively mapped the transmembrane free energy landscapes of H2 S and its structural analogue, water (H2 O), seeking to decipher the molecular determinants that govern their drastically different permeabilities. As revealed by our OST sampling results, in contrast to the highly polar water solute, hydrogen sulfide is evidently amphipathic, and thus inside membrane is favorably localized at the interfacial region, that is, the interface between the polar head-group and nonpolar acyl chain regions. Because the membrane binding affinity of H2 S is mainly governed by its small hydrophobic moiety and the barrier height inbetween the interfacial region and the membrane center is largely determined by its moderate polarity, the transmembrane free energy barriers to encounter by this toxic molecule are very small. Moreover when H2 S diffuses from the bulk solution to the membrane center, the above two effects nearly cancel each other, so as to lead to a negligible free energy difference. This study not only explains why H2 S can quickly pass through cell membranes but also provides a practical illustration on how to use the OST free energy sampling method to conveniently analyze complex molecular processes. © 2015 Wiley Periodicals, Inc. © 2015 Wiley Periodicals, Inc.
Energy Technology Data Exchange (ETDEWEB)
Bellini, A.; Anderson, J.; Van der Marel, R. P.; Watkins, L. L. [Space Telescope Science Institute, 3700 San Martin Drive, Baltimore, MD 21218 (United States); King, I. R. [Department of Astronomy, University of Washington, Box 351580, Seattle, WA 98195 (United States); Bianchini, P. [Max Planck Institute for Astronomy, Königstuhl 17, D-69117 Heidelberg (Germany); Chanamé, J. [Instituto de Astrofísica, Pontificia Universidad Católica de Chile, Av. Vicuña Mackenna 4860, Macul 782-0436, Santiago (Chile); Chandar, R. [Department of Physics and Astronomy, The University of Toledo, 2801 West Bancroft Street, Toledo, OH 43606 (United States); Cool, A. M. [Department of Physics and Astronomy, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132 (United States); Ferraro, F. R.; Massari, D. [Dipartimento di Fisica e Astronomia, Università di Bologna, via Ranzani 1, I-40127 Bologna (Italy); Ford, H., E-mail: bellini@stsci.edu [Department of Physics and Astronomy, The Johns Hopkins University, 3400 North Charles Street, Baltimore, MD 21218 (United States)
2014-12-20
We present the first study of high-precision internal proper motions (PMs) in a large sample of globular clusters, based on Hubble Space Telescope (HST) data obtained over the past decade with the ACS/WFC, ACS/HRC, and WFC3/UVIS instruments. We determine PMs for over 1.3 million stars in the central regions of 22 clusters, with a median number of ∼60,000 stars per cluster. These PMs have the potential to significantly advance our understanding of the internal kinematics of globular clusters by extending past line-of-sight (LOS) velocity measurements to two- or three-dimensional velocities, lower stellar masses, and larger sample sizes. We describe the reduction pipeline that we developed to derive homogeneous PMs from the very heterogeneous archival data. We demonstrate the quality of the measurements through extensive Monte Carlo simulations. We also discuss the PM errors introduced by various systematic effects and the techniques that we have developed to correct or remove them to the extent possible. We provide in electronic form the catalog for NGC 7078 (M 15), which consists of 77,837 stars in the central 2.'4. We validate the catalog by comparison with existing PM measurements and LOS velocities and use it to study the dependence of the velocity dispersion on radius, stellar magnitude (or mass) along the main sequence, and direction in the plane of the sky (radial or tangential). Subsequent papers in this series will explore a range of applications in globular-cluster science and will also present the PM catalogs for the other sample clusters.
NLO conformal symmetry in the Regge limit of QCD
International Nuclear Information System (INIS)
Coriano, C.; White, A.R.; Wuesthoff, M.
1996-01-01
The authors show that a scale invariant approximation to the next-to-leading order BFKL kernel, constructed via transverse momentum diagrams, has a simple conformally invariant representation in impact parameter space. That a conformally invariant representation exists is shown first by relating the kernel directly to Feynman diagrams contributing to two photon diffractive dissociation
Conformal transformation and symplectic structure of self-dual fields
International Nuclear Information System (INIS)
Yang Kongqing; Luo Yan
1996-01-01
Considered two dimensional self-dual fields, the symplectic structure on the space of solutions is given. It is shown that this structure is Poincare invariant. The Lagrangian of two dimensional self-dual field is invariant under infinite one component conformal group, then this symplectic structure is also invariant under this conformal group. The conserved currents in geometrical formalism are also obtained
Park, Jinil; Shin, Taehoon; Yoon, Soon Ho; Goo, Jin Mo; Park, Jang-Yeon
2016-05-01
The purpose of this work was to develop a 3D radial-sampling strategy which maintains uniform k-space sample density after retrospective respiratory gating, and demonstrate its feasibility in free-breathing ultrashort-echo-time lung MRI. A multi-shot, interleaved 3D radial sampling function was designed by segmenting a single-shot trajectory of projection views such that each interleaf samples k-space in an incoherent fashion. An optimal segmentation factor for the interleaved acquisition was derived based on an approximate model of respiratory patterns such that radial interleaves are evenly accepted during the retrospective gating. The optimality of the proposed sampling scheme was tested by numerical simulations and phantom experiments using human respiratory waveforms. Retrospectively, respiratory-gated, free-breathing lung MRI with the proposed sampling strategy was performed in healthy subjects. The simulation yielded the most uniform k-space sample density with the optimal segmentation factor, as evidenced by the smallest standard deviation of the number of neighboring samples as well as minimal side-lobe energy in the point spread function. The optimality of the proposed scheme was also confirmed by minimal image artifacts in phantom images. Human lung images showed that the proposed sampling scheme significantly reduced streak and ring artifacts compared with the conventional retrospective respiratory gating while suppressing motion-related blurring compared with full sampling without respiratory gating. In conclusion, the proposed 3D radial-sampling scheme can effectively suppress the image artifacts due to non-uniform k-space sample density in retrospectively respiratory-gated lung MRI by uniformly distributing gated radial views across the k-space. Copyright © 2016 John Wiley & Sons, Ltd.
International Nuclear Information System (INIS)
Ligotke, M.W.; Pool, K.H.; Lerner, B.D.
1994-10-01
This report is to provide analytical results for use in safety and toxicological evaluations of the vapor space of Hanford single-shell waste storage tanks C-103. Samples were analysed to determine concentrations of ammonia, nitric oxide, nitrogen dioxide, sulfur oxides, and hydrogen cyanide. In addition to the samples, controls were analyzed that included blanks, spiked blanks, and spiked samples. These controls provided information about the suitability of sampling and analytical methods. Also included are the following: information describing the methods and sampling procedures used; results of sample analyses; and Conclusions and recommendations
Logarithmic conformal field theory
Gainutdinov, Azat; Ridout, David; Runkel, Ingo
2013-12-01
Conformal field theory (CFT) has proven to be one of the richest and deepest subjects of modern theoretical and mathematical physics research, especially as regards statistical mechanics and string theory. It has also stimulated an enormous amount of activity in mathematics, shaping and building bridges between seemingly disparate fields through the study of vertex operator algebras, a (partial) axiomatisation of a chiral CFT. One can add to this that the successes of CFT, particularly when applied to statistical lattice models, have also served as an inspiration for mathematicians to develop entirely new fields: the Schramm-Loewner evolution and Smirnov's discrete complex analysis being notable examples. When the energy operator fails to be diagonalisable on the quantum state space, the CFT is said to be logarithmic. Consequently, a logarithmic CFT is one whose quantum space of states is constructed from a collection of representations which includes reducible but indecomposable ones. This qualifier arises because of the consequence that certain correlation functions will possess logarithmic singularities, something that contrasts with the familiar case of power law singularities. While such logarithmic singularities and reducible representations were noted by Rozansky and Saleur in their study of the U (1|1) Wess-Zumino-Witten model in 1992, the link between the non-diagonalisability of the energy operator and logarithmic singularities in correlators is usually ascribed to Gurarie's 1993 article (his paper also contains the first usage of the term 'logarithmic conformal field theory'). The class of CFTs that were under control at this time was quite small. In particular, an enormous amount of work from the statistical mechanics and string theory communities had produced a fairly detailed understanding of the (so-called) rational CFTs. However, physicists from both camps were well aware that applications from many diverse fields required significantly more
Conformal array design on arbitrary polygon surface with transformation optics
Energy Technology Data Exchange (ETDEWEB)
Deng, Li, E-mail: dengl@bupt.edu.cn; Hong, Weijun, E-mail: hongwj@bupt.edu.cn; Zhu, Jianfeng; Peng, Biao; Li, Shufang [Beijing Key Laboratory of Network System Architecture and Convergence, School of Information and Communication Engineering, Beijing University of Posts and Telecommunications, 100876 Beijing (China); Wu, Yongle, E-mail: wuyongle138@gmail.com [Beijing Key Laboratory of Work Safety Intelligent Monitoring, School of Electronic Engineering, Beijing University of Posts and Telecommunications, 100876 Beijing (China)
2016-06-15
A transformation-optics based method to design a conformal antenna array on an arbitrary polygon surface is proposed and demonstrated in this paper. This conformal antenna array can be adjusted to behave equivalently as a uniformly spaced linear array by applying an appropriate transformation medium. An typical example of general arbitrary polygon conformal arrays, not limited to circular array, is presented, verifying the proposed approach. In summary, the novel arbitrary polygon surface conformal array can be utilized in array synthesis and beam-forming, maintaining all benefits of linear array.
Conformal array design on arbitrary polygon surface with transformation optics
International Nuclear Information System (INIS)
Deng, Li; Hong, Weijun; Zhu, Jianfeng; Peng, Biao; Li, Shufang; Wu, Yongle
2016-01-01
A transformation-optics based method to design a conformal antenna array on an arbitrary polygon surface is proposed and demonstrated in this paper. This conformal antenna array can be adjusted to behave equivalently as a uniformly spaced linear array by applying an appropriate transformation medium. An typical example of general arbitrary polygon conformal arrays, not limited to circular array, is presented, verifying the proposed approach. In summary, the novel arbitrary polygon surface conformal array can be utilized in array synthesis and beam-forming, maintaining all benefits of linear array.
An Efficient Null Model for Conformational Fluctuations in Proteins
DEFF Research Database (Denmark)
Harder, Tim Philipp; Borg, Mikael; Bottaro, Sandro
2012-01-01
Protein dynamics play a crucial role in function, catalytic activity, and pathogenesis. Consequently, there is great interest in computational methods that probe the conformational fluctuations of a protein. However, molecular dynamics simulations are computationally costly and therefore are often...... limited to comparatively short timescales. TYPHON is a probabilistic method to explore the conformational space of proteins under the guidance of a sophisticated probabilistic model of local structure and a given set of restraints that represent nonlocal interactions, such as hydrogen bonds or disulfide...... on conformational fluctuations that is in correspondence with experimental measurements. TYPHON provides a flexible, yet computationally efficient, method to explore possible conformational fluctuations in proteins....
Conformal invariance in quantum field theory
International Nuclear Information System (INIS)
Grensing, G.
1978-01-01
We study the transformation law of interacting fields under the universal covering group of the conformal group. It is defined with respect to the representations of the discrete series. These representations are field representations in the sense that they act on finite component fields defined over Minkowski space. The conflict with Einstein causality is avoided as in the case of free fields with canonical dimension. Furthermore, we determine the conformal invariant two-point function of arbitrary spin. Our result coincides with that obtained by Ruehl. In particular, we investigate the two-point function of symmetric and traceless tensor fields and give the explicit form of the trace terms
Degenerate conformal theories on higher-genus surfaces
International Nuclear Information System (INIS)
Gerasimov, A.A.
1989-01-01
Two-dimensional degenerate field theories on higher-genus surfaces are investigated. Objects are built on the space of moduli, whose linear combinations are hypothetically conformal blocks in degenerate theories
Probing RNA native conformational ensembles with structural constraints
DEFF Research Database (Denmark)
Fonseca, Rasmus; van den Bedem, Henry; Bernauer, Julie
2016-01-01
substates, which are difficult to characterize experimentally and computationally. Here, we present an innovative, entirely kinematic computational procedure to efficiently explore the native ensemble of RNA molecules. Our procedure projects degrees of freedom onto a subspace of conformation space defined...
Directory of Open Access Journals (Sweden)
Maley Carlo C
2008-10-01
Full Text Available Abstract Background Genomes store information for building and maintaining organisms. Complete sequencing of many genomes provides the opportunity to study and compare global information properties of those genomes. Results We have analyzed aspects of the information content of Homo sapiens, Mus musculus, Drosophila melanogaster, Caenorhabditis elegans, Arabidopsis thaliana, Saccharomyces cerevisiae, and Escherichia coli (K-12 genomes. Virtually all possible (> 98% 12 bp oligomers appear in vertebrate genomes while 98% to D. melanogaster (12–17 bp, C. elegans (11–17 bp, A. thaliana (11–17 bp, S. cerevisiae (10–16 bp and E. coli (9–15 bp. Frequencies of unique oligomers in the genomes follow similar patterns. We identified a set of 2.6 M 15-mers that are more than 1 nucleotide different from all 15-mers in the human genome and so could be used as probes to detect microbes in human samples. In a human sample, these probes would detect 100% of the 433 currently fully sequenced prokaryotes and 75% of the 3065 fully sequenced viruses. The human genome is significantly more compact in sequence space than a random genome. We identified the most frequent 5- to 20-mers in the human genome, which may prove useful as PCR primers. We also identified a bacterium, Anaeromyxobacter dehalogenans, which has an exceptionally low diversity of oligomers given the size of its genome and its GC content. The entropy of coding regions in the human genome is significantly higher than non-coding regions and chromosomes. However chromosomes 1, 2, 9, 12 and 14 have a relatively high proportion of coding DNA without high entropy, and chromosome 20 is the opposite with a low frequency of coding regions but relatively high entropy. Conclusion Measures of the frequency of oligomers are useful for designing PCR assays and for identifying chromosomes and organisms with hidden structure that had not been previously recognized. This information may be used to detect
Liu, Zhandong; Venkatesh, Santosh S; Maley, Carlo C
2008-01-01
Background Genomes store information for building and maintaining organisms. Complete sequencing of many genomes provides the opportunity to study and compare global information properties of those genomes. Results We have analyzed aspects of the information content of Homo sapiens, Mus musculus, Drosophila melanogaster, Caenorhabditis elegans, Arabidopsis thaliana, Saccharomyces cerevisiae, and Escherichia coli (K-12) genomes. Virtually all possible (> 98%) 12 bp oligomers appear in vertebrate genomes while 98% to < 2% of possible oligomers in D. melanogaster (12–17 bp), C. elegans (11–17 bp), A. thaliana (11–17 bp), S. cerevisiae (10–16 bp) and E. coli (9–15 bp). Frequencies of unique oligomers in the genomes follow similar patterns. We identified a set of 2.6 M 15-mers that are more than 1 nucleotide different from all 15-mers in the human genome and so could be used as probes to detect microbes in human samples. In a human sample, these probes would detect 100% of the 433 currently fully sequenced prokaryotes and 75% of the 3065 fully sequenced viruses. The human genome is significantly more compact in sequence space than a random genome. We identified the most frequent 5- to 20-mers in the human genome, which may prove useful as PCR primers. We also identified a bacterium, Anaeromyxobacter dehalogenans, which has an exceptionally low diversity of oligomers given the size of its genome and its GC content. The entropy of coding regions in the human genome is significantly higher than non-coding regions and chromosomes. However chromosomes 1, 2, 9, 12 and 14 have a relatively high proportion of coding DNA without high entropy, and chromosome 20 is the opposite with a low frequency of coding regions but relatively high entropy. Conclusion Measures of the frequency of oligomers are useful for designing PCR assays and for identifying chromosomes and organisms with hidden structure that had not been previously recognized. This information may be used to
International Nuclear Information System (INIS)
Goddard, Peter
1990-01-01
The algebra of the group of conformal transformations in two dimensions consists of two commuting copies of the Virasoro algebra. In many mathematical and physical contexts, the representations of ν which are relevant satisfy two conditions: they are unitary and they have the ''positive energy'' property that L o is bounded below. In an irreducible unitary representation the central element c takes a fixed real value. In physical contexts, the value of c is a characteristic of a theory. If c < 1, it turns out that the conformal algebra is sufficient to ''solve'' the theory, in the sense of relating the calculation of the infinite set of physically interesting quantities to a finite subset which can be handled in principle. For c ≥ 1, this is no longer the case for the algebra alone and one needs some sort of extended conformal algebra, such as the superconformal algebra. It is these algebras that this paper aims at addressing. (author)
Algebraic conformal field theory
International Nuclear Information System (INIS)
Fuchs, J.; Nationaal Inst. voor Kernfysica en Hoge-Energiefysica
1991-11-01
Many conformal field theory features are special versions of structures which are present in arbitrary 2-dimensional quantum field theories. So it makes sense to describe 2-dimensional conformal field theories in context of algebraic theory of superselection sectors. While most of the results of the algebraic theory are rather abstract, conformal field theories offer the possibility to work out many formulae explicitly. In particular, one can construct the full algebra A-bar of global observables and the endomorphisms of A-bar which represent the superselection sectors. Some explicit results are presented for the level 1 so(N) WZW theories; the algebra A-bar is found to be the enveloping algebra of a Lie algebra L-bar which is an extension of the chiral symmetry algebra of the WZW theory. (author). 21 refs., 6 figs
Comments on conformal Killing vector fields and quantum field theory
International Nuclear Information System (INIS)
Brown, M.R.; Ottewill, A.C.; Siklos, S.T.C.
1982-01-01
We give a comprehensive analysis of those vacuums for flat and conformally flat space-times which can be defined by timelike, hypersurface-orthogonal, conformal Killing vector fields. We obtain formulas for the difference in stress-energy density between any two such states and display the correspondence with the renormalized stress tensors. A brief discussion is given of the relevance of these results to quantum-mechanical measurements made by noninertial observers moving through flat space
Wu, Xiangyang
1999-07-01
The heterocyclic amine 2-amino-3-methylimidazo (4, 5-f) quinoline (IQ) is one of a number of carcinogens found in barbecued meat and fish. It induces tumors in mammals and is probably involved in human carcinogenesis, because of great exposure to such food carcinogens. IQ is biochemically activated to a derivative which reacts with DNA to form a covalent adduct. This adduct may deform the DNA and consequently cause a mutation. which may initiate carcinogenesis. To understand this cancer initiating event, it is necessary to obtain atomic resolution structures of the damaged DNA. No such structures are available experimentally due to synthesis difficulties. Therefore, we employ extensive molecular mechanics and dynamics calculations for this purpose. The major IQ-DNA adduct in the specific DNA sequence d(5'G1G2C G3CCA3') - d(5'TGGCGCC3') with IQ modified at G3 is studied. The d(5'G1G2C G3CC3') sequence has recently been shown to be a hot-spot for mutations when IQ modification is at G3. Although this sequence is prone to -2 deletions via a ``slippage mechanism'' even when unmodified, a key question is why IQ increases the mutation frequency of the unmodified DNA by about 104 fold. Is there a structural feature imposed by IQ that is responsible? The molecular mechanics and dynamics program AMBER for nucleic acids with the latest force field was chosen for this work. This force field has been demonstrated to reproduce well the B-DNA structure. However, some parameters, the partial charges, bond lengths and angles, dihedral parameters of the modified residue, are not available in the AMBER database. We parameterized the force field using high level ab initio quantum calculations. We created 800 starting conformations which uniformly sampled in combination at 18° intervals three torsion angles that govern the IQ-DNA orientations, and energy minimized them. The most important structures are abnormal; the IQ damaged guanine is rotated out of its standard B
Mukherjee, Sriparna; Liu, Chang; Jakubikova, Elena
2018-02-22
Fe(II)-polypyridines have limited applications as chromophores in dye-sensitized solar cells due to the short lifetimes (∼100 fs) of their photoactive metal-to-ligand charge transfer (MLCT) states formed upon photoexcitation. Recently, a 100-fold increase in the MLCT lifetime was observed in a [Fe(CNC) 2 ] 2+ complex (CNC = 2,6-bis(3-methylimidazole-1-ylidine)pyridine) which has strong σ-donating N-heterocyclic carbene ligand in comparison to the weaker field parent [Fe(tpy) 2 ] 2+ complex (tpy = 2,2':6',2″-terpyridine). This study utilizes density functional theory (DFT), time-dependent DFT, and quantum dynamics simulations to investigate the interfacial electron transfer (IET) in [Fe(cCNC) 2 ] 2+ (cCNC = 4'-carboxy-2,6-bis(3-methylimidazole-1-ylidine)pyridine) and [Fe(ctpy) 2 ] 2+ (ctpy = 4'-carboxy-2,2':6',2″-terpyridine) sensitized TiO 2 . Our results suggest that the replacement of tpy by CNC ligand does not significantly speed up the IET kinetics in the [Fe(cCNC) 2 ] 2+ -TiO 2 assembly in comparison to the [Fe(ctpy) 2 ] 2+ -TiO 2 analogue. The high IET efficiency in the [Fe(cCNC) 2 ] 2+ -TiO 2 assemblies is therefore due to longer lifetime of [Fe(cCNC) 2 ] 2+ photoactive 3 MLCT states rather than faster electron injection kinetics. It was also found that the inclusion of conformational sampling in the computational model is important for proper description of the IET processes in these systems, as the models relying on the use of only fully optimized structures may yield misleading results. The simulations presented in this work also illustrate various pitfalls of utilizing properties such as electronic coupling, number of available acceptor states, and driving force, as well as calculations based on Fermi's golden rule framework, to reach conclusions on the IET efficiency in dye-semiconductor systems.
Conformal collineations and anisotropic fluids in general relativity
International Nuclear Information System (INIS)
Duggal, K.L.; Sharma, R.
1986-01-01
Recently, Herrera et al. [L. Herrera, J. Jimenez, L. Leal, J. Ponce de Leon, M. Esculpi, and V. Galino, J. Math. Phys. 25, 3274 (1984)] studied the consequences of the existence of a one-parameter group of conformal motions for anisotropic matter. They concluded that for special conformal motions, the stiff equation of state (p = μ) is singled out in a unique way, provided the generating conformal vector field is orthogonal to the four-velocity. In this paper, the same problem is studied by using conformal collineations (which include conformal motions as subgroups). It is shown that, for a special conformal collineation, the stiff equation of state is not singled out. Non-Einstein Ricci-recurrent spaces are considered as physical models for the fluid matter
Asymptotic mass degeneracies in conformal field theories
International Nuclear Information System (INIS)
Kani, I.; Vafa, C.
1990-01-01
By applying a method of Hardy and Ramanujan to characters of rational conformal field theories, we find an asymptotic expansion for degeneracy of states in the limit of large mass which is exact for strings propagating in more than two uncompactified space-time dimensions. Moreover we explore how the rationality of the conformal theory is reflected in the degeneracy of states. We also consider the one loop partition function for strings, restricted to physical states, for arbitrary (irrational) conformal theories, and obtain an asymptotic expansion for it in the limit that the torus degenerates. This expansion depends only on the spectrum of (physical and unphysical) relevant operators in the theory. We see how rationality is consistent with the smoothness of mass degeneracies as a function of moduli. (orig.)
Dual conformal transformations of smooth holographic Wilson loops
Energy Technology Data Exchange (ETDEWEB)
Dekel, Amit [Nordita, KTH Royal Institute of Technology and Stockholm University, Roslagstullsbacken 23, SE-106 91 Stockholm (Sweden)
2017-01-19
We study dual conformal transformations of minimal area surfaces in AdS{sub 5}×S{sup 5} corresponding to holographic smooth Wilson loops and some other related observables. To act with dual conformal transformations we map the string solutions to the dual space by means of T-duality, then we apply a conformal transformation and finally T-dualize back to the original space. The transformation maps between string solutions with different boundary contours. The boundary contours of the minimal surfaces are not mapped back to the AdS boundary, and the regularized area of the surface changes.
Liebi, Marianne; Georgiadis, Marios; Kohlbrecher, Joachim; Holler, Mirko; Raabe, Jörg; Usov, Ivan; Menzel, Andreas; Schneider, Philipp; Bunk, Oliver; Guizar-Sicairos, Manuel
2018-01-01
Small-angle X-ray scattering tensor tomography, which allows reconstruction of the local three-dimensional reciprocal-space map within a three-dimensional sample as introduced by Liebi et al. [Nature (2015), 527, 349-352], is described in more detail with regard to the mathematical framework and the optimization algorithm. For the case of trabecular bone samples from vertebrae it is shown that the model of the three-dimensional reciprocal-space map using spherical harmonics can adequately describe the measured data. The method enables the determination of nanostructure orientation and degree of orientation as demonstrated previously in a single momentum transfer q range. This article presents a reconstruction of the complete reciprocal-space map for the case of bone over extended ranges of q. In addition, it is shown that uniform angular sampling and advanced regularization strategies help to reduce the amount of data required.
Wang, Hongrui; Liu, Hongwei; Cai, Leixin; Wang, Caixia; Lv, Qiang
2017-07-10
In this study, we extended the replica exchange Monte Carlo (REMC) sampling method to protein-small molecule docking conformational prediction using RosettaLigand. In contrast to the traditional Monte Carlo (MC) and REMC sampling methods, these methods use multi-objective optimization Pareto front information to facilitate the selection of replicas for exchange. The Pareto front information generated to select lower energy conformations as representative conformation structure replicas can facilitate the convergence of the available conformational space, including available near-native structures. Furthermore, our approach directly provides min-min scenario Pareto optimal solutions, as well as a hybrid of the min-min and max-min scenario Pareto optimal solutions with lower energy conformations for use as structure templates in the REMC sampling method. These methods were validated based on a thorough analysis of a benchmark data set containing 16 benchmark test cases. An in-depth comparison between MC, REMC, multi-objective optimization-REMC (MO-REMC), and hybrid MO-REMC (HMO-REMC) sampling methods was performed to illustrate the differences between the four conformational search strategies. Our findings demonstrate that the MO-REMC and HMO-REMC conformational sampling methods are powerful approaches for obtaining protein-small molecule docking conformational predictions based on the binding energy of complexes in RosettaLigand.
International Nuclear Information System (INIS)
Faria, F. F.
2014-01-01
We construct a massive theory of gravity that is invariant under conformal transformations. The massive action of the theory depends on the metric tensor and a scalar field, which are considered the only field variables. We find the vacuum field equations of the theory and analyze its weak-field approximation and Newtonian limit.
International Nuclear Information System (INIS)
Moore, G.; Seiberg, N.
1989-01-01
All known rational conformal field theories may be obtained from (2+1)-dimensional Chern-Simons gauge theories by appropriate choice of gauge group. We conjecture that all rational field theories are classified by groups via (2+1)-dimensional Chern-Simons gauge theories. (orig.)
International Nuclear Information System (INIS)
Maia, M.D.
2006-01-01
It is shown that the information loss/recovery theorem based on the ADS/CFT correspondence is not consistent with the stability of the Schwarzschild or Reissner-Nordstrom black holes. Nonetheless, the conformal invariance of Yang-Mills theory points to new relativity principle compatible with quantum unitarity near those black holes
Animal culture: chimpanzee conformity?
van Schaik, Carel P
2012-05-22
Culture-like phenomena in wild animals have received much attention, but how good is the evidence and how similar are they to human culture? New data on chimpanzees suggest their culture may even have an element of conformity. Copyright © 2012 Elsevier Ltd. All rights reserved.
Parafermionic conformal field theory
International Nuclear Information System (INIS)
Kurak, V.
1989-09-01
Conformal parafermionic field theories are reviewed with emphasis on the computation of their OPE estructure constants. It is presented a simple computational of these for the Z(N) parafermions, unveilling their Lie algebra content. (A.C.A.S.) [pt
Seed conformal blocks in 4D CFT
Energy Technology Data Exchange (ETDEWEB)
Echeverri, Alejandro Castedo; Elkhidir, Emtinan; Karateev, Denis [SISSA and INFN,Via Bonomea 265, I-34136 Trieste (Italy); Serone, Marco [SISSA and INFN,Via Bonomea 265, I-34136 Trieste (Italy); ICTP,Strada Costiera 11, I-34151 Trieste (Italy)
2016-02-29
We compute in closed analytical form the minimal set of “seed' conformal blocks associated to the exchange of generic mixed symmetry spinor/tensor operators in an arbitrary representation (ℓ,ℓ̄) of the Lorentz group in four dimensional conformal field theories. These blocks arise from 4-point functions involving two scalars, one (0,|ℓ−ℓ̄|) and one (|ℓ−ℓ̄|,0) spinors or tensors. We directly solve the set of Casimir equations, that can elegantly be written in a compact form for any (ℓ,ℓ̄), by using an educated ansatz and reducing the problem to an algebraic linear system. Various details on the form of the ansatz have been deduced by using the so called shadow formalism. The complexity of the conformal blocks depends on the value of p=|ℓ−ℓ̄| and grows with p, in analogy to what happens to scalar conformal blocks in d even space-time dimensions as d increases. These results open the way to bootstrap 4-point functions involving arbitrary spinor/tensor operators in four dimensional conformal field theories.
Allen, J.; Luckey, M.; McInturff, B.; Huynh, P.; Tobola, K.; Loftin, L.
2010-03-01
NASA’s Lunar and Meteorite Sample Education Disk Program has Lucite disks containing Apollo lunar samples and meteorite samples that are available for trained educators to borrow for use in classrooms, museums, science center, and libraries.
Deep Inelastic Scattering in Conformal QCD
Cornalba, Lorenzo; Penedones, Joao
2010-01-01
We consider the Regge limit of a CFT correlation function of two vector and two scalar operators, as appropriate to study small-x deep inelastic scattering in N=4 SYM or in QCD assuming approximate conformal symmetry. After clarifying the nature of the Regge limit for a CFT correlator, we use its conformal partial wave expansion to obtain an impact parameter representation encoding the exchange of a spin j Reggeon for any value of the coupling constant. The CFT impact parameter space is the three-dimensional hyperbolic space H3, which is the impact parameter space for high energy scattering in the dual AdS space. We determine the small-x structure functions associated to the exchange of a Reggeon. We discuss unitarization from the point of view of scattering in AdS and comment on the validity of the eikonal approximation. We then focus on the weak coupling limit of the theory where the amplitude is dominated by the exchange of the BFKL pomeron. Conformal invariance fixes the form of the vector impact factor a...
Representation theory of current algebra and conformal field theory on Riemann surfaces
International Nuclear Information System (INIS)
Yamada, Yasuhiko
1989-01-01
We study conformal field theories with current algebra (WZW-model) on general Riemann surfaces based on the integrable representation theory of current algebra. The space of chiral conformal blocks defined as solutions of current and conformal Ward identities is shown to be finite dimensional and satisfies the factorization properties. (author)
Cerezo, Javier; Aranda, Daniel; Avila Ferrer, Francisco J; Prampolini, Giacomo; Mazzeo, Giuseppe; Longhi, Giovanna; Abbate, Sergio; Santoro, Fabrizio
2018-06-01
We extend a recently proposed mixed quantum/classical method for computing the vibronic electronic circular dichroism (ECD) spectrum of molecules with different conformers, to cases where more than one hindered rotation is present. The method generalizes the standard procedure, based on the simple Boltzmann average of the vibronic spectra of the stable conformers, and includes the contribution of structures that sample all the accessible conformational space. It is applied to the simulation of the ECD spectrum of (S)-2,2,2-trifluoroanthrylethanol, a molecule with easily interconvertible conformers, whose spectrum exhibits a pattern of alternating positive and negative vibronic peaks. Results are in very good agreement with experiment and show that spectra averaged over all the sampled conformational space can deviate significantly from the simple average of the contributions of the stable conformers. The present mixed quantum/classical method is able to capture the effect of the nonlinear dependence of the rotatory strength on the molecular structure and of the anharmonic couplings among the modes responsible for molecular flexibility. Despite its computational cost, the procedure is still affordable and promises to be useful in all cases where the ECD shape arises from a subtle balance between vibronic effects and conformational variety. © 2018 Wiley Periodicals, Inc.
Spatial and null infinity via advanced and retarded conformal factors
International Nuclear Information System (INIS)
Hayward, Sean A.
2003-01-01
A new approach to space-time asymptotics is presented, refining Penrose's idea of conformal transformations with infinity represented by the conformal boundary of space-time. It is proposed that the Penrose conformal factor be a product of advanced and retarded conformal factors, which asymptotically relate physical and conformal null coordinates and vanish at future and past null infinity respectively. A refined definition of asymptotic flatness at both spatial and null infinity is given, including that the conformal boundary is locally a light cone, with spatial infinity as the vertex. It is shown how to choose the conformal factors so that this asymptotic light cone is locally a metric light cone. The theory is implemented in the spin-coefficient (or null-tetrad) formalism by a joint transformation of the spin-metric and spin-basis (or metric and tetrad). Asymptotic regularity conditions are proposed, based on the conformal boundary locally being a smoothly embedded metric light cone. These conditions ensure that the Bondi-Sachs energy-flux integrals of ingoing and outgoing gravitational radiation decay at spatial infinity such that the total radiated energy is finite, and that the Bondi-Sachs energy-momentum has a unique limit at spatial infinity, coinciding with the uniquely rendered ADM energy-momentum
Transportation Conformity Training and Presentations
EPA's OTAQ has provided multiple conformity training sessions in the past to assist state and local governments in implementing conformity requirements. As training information is prepared for other venues, it will be posted on this page.
DEFF Research Database (Denmark)
Mojaza, Matin; Pica, Claudio; Sannino, Francesco
2010-01-01
of flavors. Surprisingly this number, if computed to the order g^2, agrees with previous predictions for the lower boundary of the conformal window for nonsupersymmetric gauge theories. The higher order results tend to predict a higher number of critical flavors. These are universal properties, i......We compute the nonzero temperature free energy up to the order g^6 \\ln(1/g) in the coupling constant for vector like SU(N) gauge theories featuring matter transforming according to different representations of the underlying gauge group. The number of matter fields, i.e. flavors, is arranged...... in such a way that the theory develops a perturbative stable infrared fixed point at zero temperature. Due to large distance conformality we trade the coupling constant with its fixed point value and define a reduced free energy which depends only on the number of flavors, colors and matter representation. We...
Conformational flexibility of aspartame.
Toniolo, Claudio; Temussi, Pierandrea
2016-05-01
L-Aspartyl-L-phenylalanine methyl ester, better known as aspartame, is not only one of the most used artificial sweeteners, but also a very interesting molecule with respect to the correlation between molecular structure and taste. The extreme conformational flexibility of this dipeptide posed a huge difficulty when researchers tried to use it as a lead compound to design new sweeteners. In particular, it was difficult to take advantage of its molecular model as a mold to infer the shape of the, then unknown, active site of the sweet taste receptor. Here, we follow the story of the 3D structural aspects of aspartame from early conformational studies to recent docking into homology models of the receptor. © 2016 Wiley Periodicals, Inc. Biopolymers (Pept Sci) 106: 376-384, 2016. © 2016 Wiley Periodicals, Inc.
Conformal radiotherapy: a glossary
International Nuclear Information System (INIS)
Dubray, B.; Giraud, P.; Beaudre, A.
1999-01-01
Most of the concepts and terms related to conformal radiotherapy were produced by English-speaking authors and eventually validated by international groups of experts, whose working language was also English. Therefore, a significant part of this literature is poorly accessible to the French-speaking radiation oncology community. The present paper gathers the 'official' definitions already published in French, along with propositions for the remaining terms which should be submitted to a more formal and representative validation process. (author)
Conformal potential in N dimensions (N>1)
Energy Technology Data Exchange (ETDEWEB)
Barucchi, G [Turin Univ. (Italy). Ist. di Fisica; Istituto di Fisica Matematica dell' Universita, Torino (Italy); Istituto Nazionale di Fisica Nucleare, Turin (Italy))
1977-07-21
The conformal invariant model of de Alfaro, Fubini and Furlan is studied in the case of potential V(Q) = g/2Q/sup 2/(Q/sup 2/ = ..sigma..sub(i=1)sup(N) Qsub(i)sup(2), N>1). By means of the invariance under projective transformations and the rotation symmetry of the system in configuration space, explicit solutions are obtained.
Conformal mechanics in Newton-Hooke spacetime
International Nuclear Information System (INIS)
Galajinsky, Anton
2010-01-01
Conformal many-body mechanics in Newton-Hooke spacetime is studied within the framework of the Lagrangian formalism. Global symmetries and Noether charges are given in a form convenient for analyzing the flat space limit. N=2 superconformal extension is built and a new class on N=2 models related to simple Lie algebras is presented. A decoupling similarity transformation on N=2 quantum mechanics in Newton-Hooke spacetime is discussed.
Conformal Transformations and Conformal Killing Fields
Definition 1.1 A semi-Riemannian manifold is a pair (M,g) consisting of a differentiate (i.e. C∞) manifold M and a differentiable tensor field g which assigns to each point a ∈ M a non-degenerate and symmetric bilinear form on the tangent space TaM: g_a :T_a M × T_a M to R.
Conformational determinants of phosphotyrosine peptides complexed with the Src SH2 domain.
Directory of Open Access Journals (Sweden)
Joseph Nachman
2010-06-01
Full Text Available The inhibition of specific SH2 domain mediated protein-protein interactions as an effective chemotherapeutic approach in the treatment of diseases remains a challenge. That different conformations of peptide-ligands are preferred by different SH2 domains is an underappreciated observation from the structural analysis of phosphotyrosine peptide binding to SH2 domains that may aid in future drug design. To explore the nature of ligand binding, we use simulated annealing (SA to sample the conformational space of phosphotyrosine-containing peptides complexed with the Src SH2 domain. While in good agreement with the crystallographic and NMR studies of high-affinity phosphopeptide-SH2 domain complexes, the results suggest that the structural basis for phopsphopeptide- Src SH2 interactions is more complex than the "two-pronged plug two-hole socket" model. A systematic study of peptides of type pYEEX, where pY is phosphotyrosine and X is a hydrophobic residue, indicates that these peptides can assume two conformations, one extended and one helical, representing the balance between the interaction of residue X with the hydrophobic hole on the surface of the Src SH2 domain, and its contribution to the inherent tendency of the two glutamic acids to form an alpha-helix. In contrast, a beta-turn conformation, almost identical to that observed in the crystal structure of pYVNV bound to the Grb2 SH2 domain, predominates for pYXNX peptides, even in the presence of isoleucine at the third position. While peptide binding affinities, as measured by fluorescence polarization, correlate with the relative proportion of extended peptide conformation, these results suggest a model where all three residues C-terminal to the phosphotyrosine determine the conformation of the bound phosphopeptide. The information obtained in this work can be used in the design of specific SH2 domain inhibitors.
Relating c 0 conformal field theories
International Nuclear Information System (INIS)
Guruswamy, S.; Ludwig, A.W.W.
1998-03-01
A 'canonical mapping' is established between the c = -1 system of bosonic ghosts at the c = 2 complex scalar theory and, a similar mapping between the c = -2 system of fermionic ghosts and the c = 1 Dirac theory. The existence of this mapping is suggested by the identity of the characters of the respective theories. The respective c 0 theories share the same space of states, whereas the spaces of conformal fields are different. Upon this mapping from their c 0) complex scalar and the Dirac theories inherit hidden nonlocal sl(2) symmetries. (author)
Conformal Invariance in the Long-Range Ising Model
Paulos, Miguel F; van Rees, Balt C; Zan, Bernardo
2016-01-01
We consider the question of conformal invariance of the long-range Ising model at the critical point. The continuum description is given in terms of a nonlocal field theory, and the absence of a stress tensor invalidates all of the standard arguments for the enhancement of scale invariance to conformal invariance. We however show that several correlation functions, computed to second order in the epsilon expansion, are nontrivially consistent with conformal invariance. We proceed to give a proof of conformal invariance to all orders in the epsilon expansion, based on the description of the long-range Ising model as a defect theory in an auxiliary higher-dimensional space. A detailed review of conformal invariance in the d-dimensional short-range Ising model is also included and may be of independent interest.
Conformal invariance in the long-range Ising model
Directory of Open Access Journals (Sweden)
Miguel F. Paulos
2016-01-01
Full Text Available We consider the question of conformal invariance of the long-range Ising model at the critical point. The continuum description is given in terms of a nonlocal field theory, and the absence of a stress tensor invalidates all of the standard arguments for the enhancement of scale invariance to conformal invariance. We however show that several correlation functions, computed to second order in the epsilon expansion, are nontrivially consistent with conformal invariance. We proceed to give a proof of conformal invariance to all orders in the epsilon expansion, based on the description of the long-range Ising model as a defect theory in an auxiliary higher-dimensional space. A detailed review of conformal invariance in the d-dimensional short-range Ising model is also included and may be of independent interest.
Conformal invariance in the long-range Ising model
Energy Technology Data Exchange (ETDEWEB)
Paulos, Miguel F. [CERN, Theory Group, Geneva (Switzerland); Rychkov, Slava, E-mail: slava.rychkov@lpt.ens.fr [CERN, Theory Group, Geneva (Switzerland); Laboratoire de Physique Théorique de l' École Normale Supérieure (LPTENS), Paris (France); Faculté de Physique, Université Pierre et Marie Curie (UPMC), Paris (France); Rees, Balt C. van [CERN, Theory Group, Geneva (Switzerland); Zan, Bernardo [Institute of Physics, Universiteit van Amsterdam, Amsterdam (Netherlands)
2016-01-15
We consider the question of conformal invariance of the long-range Ising model at the critical point. The continuum description is given in terms of a nonlocal field theory, and the absence of a stress tensor invalidates all of the standard arguments for the enhancement of scale invariance to conformal invariance. We however show that several correlation functions, computed to second order in the epsilon expansion, are nontrivially consistent with conformal invariance. We proceed to give a proof of conformal invariance to all orders in the epsilon expansion, based on the description of the long-range Ising model as a defect theory in an auxiliary higher-dimensional space. A detailed review of conformal invariance in the d-dimensional short-range Ising model is also included and may be of independent interest.
Spacelike conformal Killing vectors and spacelike congruences
International Nuclear Information System (INIS)
Mason, D.P.; Tsamparlis, M.
1985-01-01
Necessary and sufficient conditions are derived for space-time to admit a spacelike conformal motion with symmetry vector parallel to a unit spacelike vector field n/sup a/. These conditions are expressed in terms of the shear and expansion of the spacelike congruence generated by n/sup a/ and in terms of the four-velocity of the observer employed at any given point of the congruence. It is shown that either the expansion or the rotation of this spacelike congruence must vanish if Dn/sup a//dp = 0, where p denotes arc length measured along the integral curves of n/sup a/, and also that there exist no proper spacelike homothetic motions with constant expansion. Propagation equations for the projection tensor and the rotation tensor are derived and it is proved that every isometric spacelike congruence is rigid. Fluid space-times are studied in detail. A relation is established between spacelike conformal motions and material curves in the fluid: if a fluid space-time admits a spacelike conformal Killing vector parallel to n/sup a/ and n/sub a/u/sup a/ = 0, where u/sup a/ is the fluid four-velocity, then the integral curves of n/sup a/ are material curves in an irrotational fluid, while if the fluid vorticity is nonzero, then the integral curves of n/sup a/ are material curves if and only if they are vortex lines. An alternative derivation, based on the theory of spacelike congruences, of some of the results of Collins [J. Math. Phys. 25, 995 (1984)] on conformal Killing vectors parallel to the local vorticity vector in shear-free perfect fluids with zero magnetic Weyl tensor is given
Classical extended conformal symmetries
International Nuclear Information System (INIS)
Viswanathan, R.
1990-02-01
Extensions of the Virasoro algebra are constructed as Poisson brackets of higher spin fields which appear as coefficient fields in certain covariant derivative operators of order N. These differential operators are constructed so as to be covariant under reparametrizations on fields of definite conformal dimension. Factorization of such an N-th order operator in terms of first order operators, together with the inclusion of a spin one U(1) current, is shown to lead to a two-parameter W-algebra. One of these parameters plays the role of interpolating between W-algebras based on different Lie algebras of the same rank. (author). 11 refs
Building the library of RNA 3D nucleotide conformations using the clustering approach
Directory of Open Access Journals (Sweden)
Zok Tomasz
2015-09-01
Full Text Available An increasing number of known RNA 3D structures contributes to the recognition of various RNA families and identification of their features. These tasks are based on an analysis of RNA conformations conducted at different levels of detail. On the other hand, the knowledge of native nucleotide conformations is crucial for structure prediction and understanding of RNA folding. However, this knowledge is stored in structural databases in a rather distributed form. Therefore, only automated methods for sampling the space of RNA structures can reveal plausible conformational representatives useful for further analysis. Here, we present a machine learning-based approach to inspect the dataset of RNA three-dimensional structures and to create a library of nucleotide conformers. A median neural gas algorithm is applied to cluster nucleotide structures upon their trigonometric description. The clustering procedure is two-stage: (i backbone- and (ii ribose-driven. We show the resulting library that contains RNA nucleotide representatives over the entire data, and we evaluate its quality by computing normal distribution measures and average RMSD between data points as well as the prototype within each cluster.
Conformal anomaly actions for dilaton interactions
Directory of Open Access Journals (Sweden)
Rose Luigi Delle
2014-01-01
Full Text Available We discuss, in conformally invariant field theories such as QCD with massless fermions, a possible link between the perturbative signature of the conformal anomaly, in the form of anomaly poles of the 1-particle irreducible effective action, and its descrip- tion in terms of Wess-Zumino actions with a dilaton. The two descriptions are expected to capture the UV and IR behaviour of the conformal anomaly, in terms of fundamental and effective degrees of freedom respectively, with the dilaton effective state appearing in a nonlinear realization. As in the chiral case, conformal anomalies seem to be related to the appearance of these effective interactions in the 1PI action in all the gauge-invariant sectors of the Standard Model. We show that, as a consequence of the underlying anomalous symmetry, the infinite hierarchy of recurrence relations involving self-interactions of the dilaton is entirely determined only by the first four of them. This relation can be generalized to any even space-time dimension.
International Nuclear Information System (INIS)
Yamazaki, Ryo; Hiura, Yukikazu; Tsuji, Akio; Nishiki, Shigeo; Uchikoshi, Masato
2011-01-01
Sampling perfection with application optimized contrasts using different flip angle evolution (3D-SPACE) sequence enables one to decrease specific absorption rate (SAR) by using variable flip angle refocusing pulse. Therefore, it is expected that the contrast obtained with 3D-SPACE sequences is different from that of spin echo (SE) images and turbo spin echo (TSE) images. The purpose of this study was to evaluate the characteristics of the signal intensity and central nervous system (CNS) image contrast in T 2 weighted 3D-SPACE. Using 3 different sequences (SE, 3D-TSE and 3D-SPACE) with repetition time (TR)/ echo time (TE)=3500/70, 90 and 115 ms, we obtained T 2 weighted magnetic resonance (MR) images of inhouse phantom and five healthy volunteers' brain. Signal intensity of the phantom which contains various T 1 and T 2 value was evaluated. Tissue contrasts of white/gray matter, cerebrospinal fluid (CSF)/subcutaneous fat and gray matter/subcutaneous fat were evaluated for a clinical image study. The phantom study showed that signal intensity in 3D-SPACE significantly decreased under a T 1 value of 250 ms. It was markedly decreased in comparison to other sequences, as effective echo time (TE) was extended. White/gray matter contrast of 3D-SPACE was the highest in all sequences. On the other hand, CSF/fat and gray matter/fat contrast of 3D-SPACE was higher than TSE but lower than SE. CNS image contrasts of 3D-SPACE were comparable to that of SE. Signal intensity had decreased in the range where T 1 and T 2 values were extremely short. (author)
14 CFR 314.3 - Conformity with subpart A of part 302.
2010-01-01
... 14 Aeronautics and Space 4 2010-01-01 2010-01-01 false Conformity with subpart A of part 302. 314.3 Section 314.3 Aeronautics and Space OFFICE OF THE SECRETARY, DEPARTMENT OF TRANSPORTATION (AVIATION PROCEEDINGS) PROCEDURAL REGULATIONS EMPLOYEE PROTECTION PROGRAM General § 314.3 Conformity with...
14 CFR 325.14 - Conformity with subpart A of part 302.
2010-01-01
... 14 Aeronautics and Space 4 2010-01-01 2010-01-01 false Conformity with subpart A of part 302. 325.14 Section 325.14 Aeronautics and Space OFFICE OF THE SECRETARY, DEPARTMENT OF TRANSPORTATION (AVIATION PROCEEDINGS) PROCEDURAL REGULATIONS ESSENTIAL AIR SERVICE PROCEDURES § 325.14 Conformity with...
Molecular dynamics studies of the conformation of sorbitol
Lerbret, A.; Mason, P.E.; Venable, R.M.; Cesàro, A.; Saboungi, M.-L.; Pastor, R.W.; Brady, J.W.
2009-01-01
Molecular dynamics simulations of a 3 m aqueous solution of D-sorbitol (also called D-glucitol) have been performed at 300 K, as well as at two elevated temperatures to promote conformational transitions. In principle, sorbitol is more flexible than glucose since it does not contain a constraining ring. However, a conformational analysis revealed that the sorbitol chain remains extended in solution, in contrast to the bent conformation found experimentally in the crystalline form. While there are 243 staggered conformations of the backbone possible for this open-chain polyol, only a very limited number were found to be stable in the simulations. Although many conformers were briefly sampled, only eight were significantly populated in the simulation. The carbon backbones of all but two of these eight conformers were completely extended, unlike the bent crystal conformation. These extended conformers were stabilized by a quite persistent intramolecular hydrogen bond between the hydroxyl groups of carbon C-2 and C-4. The conformational populations were found to be in good agreement with the limited available NMR data except for the C-2–C-3 torsion (spanned by the O-2–O-4 hydrogen bond), where the NMR data supports a more bent structure. PMID:19744646
On the conformal transformations in the massless Thirring model
International Nuclear Information System (INIS)
Hadjiivanov, L.K.; Mikhov, S.G.; Stoyanov, D.T.
1977-01-01
On the basis of solutions for the massless scalar field in the two dimensional space-time the fields satisfying the renormalized Thirring equation are constructed. Both infinitesimal and global transformations with respect to the two-dimensional conformal group for these fields are obtained. The latter do not coincide with the standard ones. The renormalized Thirring equation is proved to be covariant under infinitesimal conformal group transformations as well as under the global transformations belonging to the universal covering of the conformal group
Motivation, Personal Satisfaction of Team Members and Conformity ...
African Journals Online (AJOL)
Motivation, Personal Satisfaction of Team Members and Conformity to Team Norms as Predictors of Team Performance. ... The sample included two thousand and eighty-eight athletes (players of six sports) surveyed through a purposive ...
Conformally symmetric traversable wormholes
International Nuclear Information System (INIS)
Boehmer, Christian G.; Harko, Tiberiu; Lobo, Francisco S. N.
2007-01-01
Exact solutions of traversable wormholes are found under the assumption of spherical symmetry and the existence of a nonstatic conformal symmetry, which presents a more systematic approach in searching for exact wormhole solutions. In this work, a wide variety of solutions are deduced by considering choices for the form function, a specific linear equation of state relating the energy density and the pressure anisotropy, and various phantom wormhole geometries are explored. A large class of solutions impose that the spatial distribution of the exotic matter is restricted to the throat neighborhood, with a cutoff of the stress-energy tensor at a finite junction interface, although asymptotically flat exact solutions are also found. Using the 'volume integral quantifier', it is found that the conformally symmetric phantom wormhole geometries may, in principle, be constructed by infinitesimally small amounts of averaged null energy condition violating matter. Considering the tidal acceleration traversability conditions for the phantom wormhole geometry, specific wormhole dimensions and the traversal velocity are also deduced
Spectra of conformal sigma models
International Nuclear Information System (INIS)
Tlapak, Vaclav
2015-04-01
In this thesis the spectra of conformal sigma models defined on (generalized) symmetric spaces are analysed. The spaces where sigma models are conformal without the addition of a Wess-Zumino term are supermanifolds, in other words spaces that include fermionic directions. After a brief review of the general construction of vertex operators and the background field expansion, we compute the diagonal terms of the one-loop anomalous dimensions of sigma models on semi-symmetric spaces. We find that the results are formally identical to the symmetric case. However, unlike for sigma models on symmetric spaces, off diagonal terms that lead to operator mixing are also present. These are not computed here. We then present a detailed analysis of the one-loop spectrum of the supersphere S 3 vertical stroke 2 sigma model as one of the simplest examples. The analysis illustrates the power and simplicity of the construction. We use this data to revisit a duality with the OSP(4 vertical stroke 2) Gross-Neveu model that was proposed by Candu and Saleur. With the help of a recent all-loop result for the anomalous dimension of (1)/(2)BPS operators of Gross-Neveu models, we are able to recover the entire zero-mode spectrum of the supersphere model. We also argue that the sigma model constraints and its equations of motion are implemented correctly in the Gross-Neveu model, including the one-loop data. The duality is further supported by a new all-loop result for the anomalous dimension of the ground states of the sigma model. However, higher-gradient operators cannot be completely recovered. It is possible that this discrepancy is related to a known instability of the sigma model. The instability of sigma models is due to symmetry preserving high-gradient operators that become relevant at arbitrarily small values of the coupling. This feature has been observed long ago in one-loop calculations of the O(N)-vector model and soon been realized to be a generic property of sigma models
James, John T.
2010-01-01
The toxicological assessments of 1 grab sample canister (GSC) from the Shuttle are reported in Table 1. Analytical methods have not changed from earlier reports. The recoveries of the 3 surrogates (C-13-acetone, fluorobenzene, and chlorobenzene) from the Shuttle GSC were 100%, 93%, and 101%, respectively. Based on the historical experience using end-of-mission samples, the Shuttle atmosphere was acceptable for human respiration.
Directory of Open Access Journals (Sweden)
Hugues Santin-Janin
Full Text Available BACKGROUND: Data collected to inform time variations in natural population size are tainted by sampling error. Ignoring sampling error in population dynamics models induces bias in parameter estimators, e.g., density-dependence. In particular, when sampling errors are independent among populations, the classical estimator of the synchrony strength (zero-lag correlation is biased downward. However, this bias is rarely taken into account in synchrony studies although it may lead to overemphasizing the role of intrinsic factors (e.g., dispersal with respect to extrinsic factors (the Moran effect in generating population synchrony as well as to underestimating the extinction risk of a metapopulation. METHODOLOGY/PRINCIPAL FINDINGS: The aim of this paper was first to illustrate the extent of the bias that can be encountered in empirical studies when sampling error is neglected. Second, we presented a space-state modelling approach that explicitly accounts for sampling error when quantifying population synchrony. Third, we exemplify our approach with datasets for which sampling variance (i has been previously estimated, and (ii has to be jointly estimated with population synchrony. Finally, we compared our results to those of a standard approach neglecting sampling variance. We showed that ignoring sampling variance can mask a synchrony pattern whatever its true value and that the common practice of averaging few replicates of population size estimates poorly performed at decreasing the bias of the classical estimator of the synchrony strength. CONCLUSION/SIGNIFICANCE: The state-space model used in this study provides a flexible way of accurately quantifying the strength of synchrony patterns from most population size data encountered in field studies, including over-dispersed count data. We provided a user-friendly R-program and a tutorial example to encourage further studies aiming at quantifying the strength of population synchrony to account for
The pseudo-conformal universe: scale invariance from spontaneous breaking of conformal symmetry
International Nuclear Information System (INIS)
Hinterbichler, Kurt; Khoury, Justin
2012-01-01
We present a novel theory of the very early universe which addresses the traditional horizon and flatness problems of big bang cosmology and predicts a scale invariant spectrum of perturbations. Unlike inflation, this scenario requires no exponential accelerated expansion of space-time. Instead, the early universe is described by a conformal field theory minimally coupled to gravity. The conformal fields develop a time-dependent expectation value which breaks the flat space so(4,2) conformal symmetry down to so(4,1), the symmetries of de Sitter, giving perturbations a scale invariant spectrum. The solution is an attractor, at least in the case of a single time-dependent field. Meanwhile, the metric background remains approximately flat but slowly contracts, which makes the universe increasingly flat, homogeneous and isotropic, akin to the smoothing mechanism of ekpyrotic cosmology. Our scenario is very general, requiring only a conformal field theory capable of developing the appropriate time-dependent expectation values, and encompasses existing incarnations of this idea, specifically the U(1) model of Rubakov and the Galileon Genesis scenario. Its essential features depend only on the symmetry breaking pattern and not on the details of the underlying lagrangian. It makes generic observational predictions that make it potentially distinguishable from standard inflation, in particular significant non-gaussianities and the absence of primordial gravitational waves
Vapor space characterization of waste tank 241-C-101: Results from samples collected on 9/1/94
International Nuclear Information System (INIS)
Lucke, R.B.; Clauss, T.W.; Ligotke, M.W.
1995-11-01
This report describes results of the analyses of tank-headspace samples taken from the Hanford waste Tank 241-C-101 (referred to as Tank C-101) and the ambient air collected - 30 ft upwind near the tank and through the VSS near the tank. Pacific Northwest Laboratory (PNL) contracted with Westinghouse Hanford Company (WHC) to provide sampling devices and to analyze inorganic and organic analytes collected from the tank headspace and ambient air near the tank. The sample job was designated S4056, and samples were collected by WHC on September 1, 1994, using the vapor sampling system (VSS). The samples were inspected upon delivery to the 326/23B laboratory and logged into PNL record book 55408 before implementation of PNL Technical Procedure PNL-TVP-07. Custody of the sorbent traps was transferred to PNL personnel performing the inorganic analysis and stored at refrigerated (≤ 10 degrees C) temperature until the time of analysis. The canisters were stored in the 326/23B laboratory at ambient (25 degrees C) temperature until the time of the analysis. Access to the 326/23B laboratory is limited to PNL personnel working on the waste-tank safety program. Analyses described in this report were performed at PNL in the 300 area of the Hanford Reservation. Analytical methods that were used are described in the text. In summary, sorbent traps for inorganic analyses containing sample materials were either weighed (for water analysis) or desorbed with the appropriate aqueous solutions (for NH 3 , NO 2 , and NO analyses). The aqueous extracts were analyzed either by selective electrode or by ion chromatography (IC). Organic analyses were performed using cryogenic preconcentration followed by gas chromatography/mass spectrometry (GC/MS)
Conformational intermediate of the amyloidogenic protein beta 2-microglobulin at neutral pH
DEFF Research Database (Denmark)
Heegaard, N H; Sen, J W; Kaarsholm, N C
2001-01-01
electrophoresis that two conformers spontaneously exist in aqueous buffers at neutral pH. Upon treatment of wild-type beta(2)-microglobulin with acetonitrile or trifluoroethanol, two conformations were also observed. These conformations were in equilibrium dependent on the sample temperature and the percentage...
Ward identities for conformal models
International Nuclear Information System (INIS)
Lazzarini, S.; Stora, R.
1988-01-01
Ward identities which express the symmetry of conformal models are treated. Diffeomorphism invariance or locally holomorphic coordinate transformations are used. Diffeomorphism invariance is then understood in terms of Riemannian geometry. Two different sets of Ward identities expressing diffeomorphism invariance in a conformally invariant way are found for the free bosonic string. Using a geometrical argument, the correct invariance for a large class of conformal models is given
Conformational analysis of lignin models
International Nuclear Information System (INIS)
Santos, Helio F. dos
2001-01-01
The conformational equilibrium for two 5,5' biphenyl lignin models have been analyzed using a quantum mechanical semiempirical method. The gas phase and solution structures are discussed based on the NMR and X-ray experimental data. The results obtained showed that the observed conformations are solvent-dependent, being the geometries and the thermodynamic properties correlated with the experimental information. This study shows how a systematic theoretical conformational analysis can help to understand chemical processes at a molecular level. (author)
On the linear conformal gravitation
International Nuclear Information System (INIS)
Pal'chik, M.Ya.; Fradkin, E.S.
1984-01-01
Conformal gravitation is analyzed under the assumption that its solution possesses the property of conformal symmetry. This assumption has sense in the case of small distances and only for definite types of matter fields, namely: at special choice of matter fields and their interactions, providing a lack of conformal anomalies; or at definite magnitudes of binding constants, coinciding with the zeroes of the Gell-Mann-Low function. The field equations, of the group-theoretical natura are obtained
Fermion-scalar conformal blocks
Energy Technology Data Exchange (ETDEWEB)
Iliesiu, Luca [Joseph Henry Laboratories, Princeton University,Washington Road, Princeton, NJ 08544 (United States); Kos, Filip [Department of Physics, Yale University,217 Prospect Street, New Haven, CT 06520 (United States); Poland, David [Department of Physics, Yale University,217 Prospect Street, New Haven, CT 06520 (United States); School of Natural Sciences, Institute for Advanced Study,1 Einstein Dr, Princeton, New Jersey 08540 (United States); Pufu, Silviu S. [Joseph Henry Laboratories, Princeton University,Washington Road, Princeton, NJ 08544 (United States); Simmons-Duffin, David [School of Natural Sciences, Institute for Advanced Study,1 Einstein Dr, Princeton, New Jersey 08540 (United States); Yacoby, Ran [Joseph Henry Laboratories, Princeton University,Washington Road, Princeton, NJ 08544 (United States)
2016-04-13
We compute the conformal blocks associated with scalar-scalar-fermion-fermion 4-point functions in 3D CFTs. Together with the known scalar conformal blocks, our result completes the task of determining the so-called ‘seed blocks’ in three dimensions. Conformal blocks associated with 4-point functions of operators with arbitrary spins can now be determined from these seed blocks by using known differential operators.
Generating intrinsically disordered protein conformational ensembles from a Markov chain
Cukier, Robert I.
2018-03-01
Intrinsically disordered proteins (IDPs) sample a diverse conformational space. They are important to signaling and regulatory pathways in cells. An entropy penalty must be payed when an IDP becomes ordered upon interaction with another protein or a ligand. Thus, the degree of conformational disorder of an IDP is of interest. We create a dichotomic Markov model that can explore entropic features of an IDP. The Markov condition introduces local (neighbor residues in a protein sequence) rotamer dependences that arise from van der Waals and other chemical constraints. A protein sequence of length N is characterized by its (information) entropy and mutual information, MIMC, the latter providing a measure of the dependence among the random variables describing the rotamer probabilities of the residues that comprise the sequence. For a Markov chain, the MIMC is proportional to the pair mutual information MI which depends on the singlet and pair probabilities of neighbor residue rotamer sampling. All 2N sequence states are generated, along with their probabilities, and contrasted with the probabilities under the assumption of independent residues. An efficient method to generate realizations of the chain is also provided. The chain entropy, MIMC, and state probabilities provide the ingredients to distinguish different scenarios using the terminologies: MoRF (molecular recognition feature), not-MoRF, and not-IDP. A MoRF corresponds to large entropy and large MIMC (strong dependence among the residues' rotamer sampling), a not-MoRF corresponds to large entropy but small MIMC, and not-IDP corresponds to low entropy irrespective of the MIMC. We show that MorFs are most appropriate as descriptors of IDPs. They provide a reasonable number of high-population states that reflect the dependences between neighbor residues, thus classifying them as IDPs, yet without very large entropy that might lead to a too high entropy penalty.
International Nuclear Information System (INIS)
McVeety, B.D.; Pool, K.H.; Ligotke, M.W.; Clauss, T.W.; Lucke, R.B.; Sharma, A.K.; McCulloch, M.; Fruchter, J.S.; Goheen, S.C.
1995-05-01
This report describes inorganic and organic analyses results from in situ samples obtained from the tank headspace of the Hanford waste storage Tank 241-BY-105 (referred to as Tank BY-105). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds NH 3 , NO 2 , NO, HCN, and H 2 O. Sampling for sulfur oxides was not requested. Results of the inorganic samples were affected by sampling errors that led to an undefined uncertainty in sample volume. Consequently, tank-headspace concentrations are estimated only. Thirty-nine tentatively identified organic analytes were observed above the detection limit of (ca.) 10 ppbv, but standards for most of these were not available at the time of analysis, and their quantitation is beyond the scope of this study. In addition, we looked for the 41 standard TO-14 analytes. Of these, only a few were observed above the 2-ppbv detection limit. The 16 organic analytes with the highest estimated concentrations are listed. These 16 analytes account for approximately 68% of the total or organic components in Tank BY-105
International Nuclear Information System (INIS)
Pool, K.H.; Clauss, T.W.; McVeety, B.D.; Evans, J.C.; Thomas, B.L.; Olsen, K.B.; Fruchter, J.S.; Ligotke, M.W.
1995-11-01
This report describes the analytical results of vapor samples taken from the headspace of the waste storage tank 241-A-101 (Tank A-101) at the Hanford Site in Washington State. The results described in this report were obtained to characterize the vapors present in the tank headspace and to support safety evaluations and tank-farm operations. The results include air concentrations of selected inorganic and organic analytes and grouped compounds from samples obtained by Westinghouse Hanford Company (WHC) and provided for analysis to Pacific Northwest National Laboratory (PNL). Analyses were performed by the Vapor Analytical Laboratory (VAL) at PNL. Analyte concentrations were based on analytical results and, where appropriate, sample volumes provided by WHC. A summary of the results is listed in Table 1. Detailed descriptions of the analytical results appear in the text
DEFF Research Database (Denmark)
Gjerdrum Pedersen, Esben Rahbek; Neergaard, Peter; Thusgaard Pedersen, Janni
2013-01-01
This paper analyses how large Danish companies are responding to new governmental regulation which requires them to report on corporate social responsibility (CSR). The paper is based on an analysis of 142 company annual reports required by the new Danish regulation regarding CSR reporting, plus 10...... interviews with first-time reporting companies and six interviews with companies that failed to comply with the new law. It is concluded that coercive pressures from government have an impact on CSR reporting practices. Further, the analysis finds traces of mimetic isomorphism which inspires a homogenisation...... in CSR reporting practices. Finally, it is argued that non-conformance with the new regulatory requirements is not solely about conscious resistance but may also be caused by, for example, lack of awareness, resource limitations, misinterpretations, and practical difficulties....
Reflections on Conformal Spectra
CERN. Geneva
2015-01-01
We use modular invariance and crossing symmetry of conformal field theory to reveal approximate reflection symmetries in the spectral decompositions of the partition function in two dimensions in the limit of large central charge and of the four-point function in any dimension in the limit of large scaling dimensions Δ0 of external operators. We use these symmetries to motivate universal upper bounds on the spectrum and the operator product expansion coefficients, which we then derive by independent techniques. Some of the bounds for four-point functions are valid for finite Δ0 as well as for large Δ0. We discuss a similar symmetry in a large spacetime dimension limit. Finally, we comment on the analogue of the Cardy formula and sparse light spectrum condition for the four-point function. (based on 1510.08772 with Kim & Ooguri). This seminar will be given via videolink
International Nuclear Information System (INIS)
Ucar, Murat; Guryildirim, Melike; Tokgoz, Nil; Kilic, Koray; Borcek, Alp; Oner, Yusuf; Akkan, Koray; Tali, Turgut
2014-01-01
To compare the accuracy of diagnosing aqueductal patency and image quality between high spatial resolution three-dimensional (3D) high-sampling-efficiency technique (sampling perfection with application optimized contrast using different flip angle evolutions [SPACE]) and T2-weighted (T2W) two-dimensional (2D) turbo spin echo (TSE) at 3-T in patients with hydrocephalus. This retrospective study included 99 patients diagnosed with hydrocephalus. T2W 3D-SPACE was added to the routine sequences which consisted of T2W 2D-TSE, 3D-constructive interference steady state (CISS), and cine phase-contrast MRI (PC-MRI). Two radiologists evaluated independently the patency of cerebral aqueduct and image quality on the T2W 2D-TSE and T2W 3D-SPACE. PC-MRI and 3D-CISS were used as the reference for aqueductal patency and image quality, respectively. Inter-observer agreement was calculated using kappa statistics. The evaluation of the aqueductal patency by T2W 3D-SPACE and T2W 2D-TSE were in agreement with PC-MRI in 100% (99/99; sensitivity, 100% [83/83]; specificity, 100% [16/16]) and 83.8% (83/99; sensitivity, 100% [67/83]; specificity, 100% [16/16]), respectively (p < 0.001). No significant difference in image quality between T2W 2D-TSE and T2W 3D-SPACE (p = 0.056) occurred. The kappa values for inter-observer agreement were 0.714 for T2W 2D-TSE and 0.899 for T2W 3D-SPACE. Three-dimensional-SPACE is superior to 2D-TSE for the evaluation of aqueductal patency in hydrocephalus. T2W 3D-SPACE may hold promise as a highly accurate alternative treatment to PC-MRI for the physiological and morphological evaluation of aqueductal patency.
Energy Technology Data Exchange (ETDEWEB)
Ucar, Murat; Guryildirim, Melike; Tokgoz, Nil; Kilic, Koray; Borcek, Alp; Oner, Yusuf; Akkan, Koray; Tali, Turgut [School of Medicine, Gazi University, Ankara (Turkey)
2014-12-15
To compare the accuracy of diagnosing aqueductal patency and image quality between high spatial resolution three-dimensional (3D) high-sampling-efficiency technique (sampling perfection with application optimized contrast using different flip angle evolutions [SPACE]) and T2-weighted (T2W) two-dimensional (2D) turbo spin echo (TSE) at 3-T in patients with hydrocephalus. This retrospective study included 99 patients diagnosed with hydrocephalus. T2W 3D-SPACE was added to the routine sequences which consisted of T2W 2D-TSE, 3D-constructive interference steady state (CISS), and cine phase-contrast MRI (PC-MRI). Two radiologists evaluated independently the patency of cerebral aqueduct and image quality on the T2W 2D-TSE and T2W 3D-SPACE. PC-MRI and 3D-CISS were used as the reference for aqueductal patency and image quality, respectively. Inter-observer agreement was calculated using kappa statistics. The evaluation of the aqueductal patency by T2W 3D-SPACE and T2W 2D-TSE were in agreement with PC-MRI in 100% (99/99; sensitivity, 100% [83/83]; specificity, 100% [16/16]) and 83.8% (83/99; sensitivity, 100% [67/83]; specificity, 100% [16/16]), respectively (p < 0.001). No significant difference in image quality between T2W 2D-TSE and T2W 3D-SPACE (p = 0.056) occurred. The kappa values for inter-observer agreement were 0.714 for T2W 2D-TSE and 0.899 for T2W 3D-SPACE. Three-dimensional-SPACE is superior to 2D-TSE for the evaluation of aqueductal patency in hydrocephalus. T2W 3D-SPACE may hold promise as a highly accurate alternative treatment to PC-MRI for the physiological and morphological evaluation of aqueductal patency.
Trembach, Vera
2014-01-01
Space is an introduction to the mysteries of the Universe. Included are Task Cards for independent learning, Journal Word Cards for creative writing, and Hands-On Activities for reinforcing skills in Math and Language Arts. Space is a perfect introduction to further research of the Solar System.
Conformal boundary loop models
International Nuclear Information System (INIS)
Jacobsen, Jesper Lykke; Saleur, Hubert
2008-01-01
We study a model of densely packed self-avoiding loops on the annulus, related to the Temperley-Lieb algebra with an extra idempotent boundary generator. Four different weights are given to the loops, depending on their homotopy class and whether they touch the outer rim of the annulus. When the weight of a contractible bulk loop x≡q+q -1 element of (-2,2], this model is conformally invariant for any real weight of the remaining three parameters. We classify the conformal boundary conditions and give exact expressions for the corresponding boundary scaling dimensions. The amplitudes with which the sectors with any prescribed number and types of non-contractible loops appear in the full partition function Z are computed rigorously. Based on this, we write a number of identities involving Z which hold true for any finite size. When the weight of a contractible boundary loop y takes certain discrete values, y r ≡([r+1] q )/([r] q ) with r integer, other identities involving the standard characters K r,s of the Virasoro algebra are established. The connection with Dirichlet and Neumann boundary conditions in the O(n) model is discussed in detail, and new scaling dimensions are derived. When q is a root of unity and y=y r , exact connections with the A m type RSOS model are made. These involve precise relations between the spectra of the loop and RSOS model transfer matrices, valid in finite size. Finally, the results where y=y r are related to the theory of Temperley-Lieb cabling
Causality and symmetry in cosmology and the conformal group
International Nuclear Information System (INIS)
Segal, I.E.
1977-01-01
A new theoretic postulate in fundamental physics is considered which is called the chronometric principle because it deals primarily with the nature of time, or its dual or conjugate, energy. Conformality is equivalent to causality. Thus, the group of all local causality-preserving transformations in the vicinity of a point of Minkowski space is, as a local Lie group, identical with the conformal group. The same statement made globally on Minkowski space is: The set of all vector fields on Minkowski space which generate smooth local causality-preserving transformations is identical with the set of all conformal vector fields. The main validation for the chronometric principle is in cosmology or ultramacroscopic physics. Therefore this principle is illustrated along the lines of the red shift. This principle in combination with quantum field theory leads to a convergent and causal description of particle production in which nonlinearities are supplanted by more sophisticated and comprehensive actions for the fundamental symmetry groups. 11 references
Logarithmic conformal field theory through nilpotent conformal dimensions
International Nuclear Information System (INIS)
Moghimi-Araghi, S.; Rouhani, S.; Saadat, M.
2001-01-01
We study logarithmic conformal field theories (LCFTs) through the introduction of nilpotent conformal weights. Using this device, we derive the properties of LCFTs such as the transformation laws, singular vectors and the structure of correlation functions. We discuss the emergence of an extra energy momentum tensor, which is the logarithmic partner of the energy momentum tensor
Vapor space characterization of waste Tank 241-BY-108: Results from samples collected on 10/27/94
International Nuclear Information System (INIS)
McVeety, B.D.; Clauss, T.W.; Ligotke, M.W.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-BY-108 (referred to as Tank BY-108). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water vapor (H 2 O). Trends in NH 3 and H 2 O samples indicated a possible sampling problem. Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, the authors looked for the 40 TO-14 compounds plus an additional 15 analytes. Of these, 17 were observed above the 5-ppbv reporting cutoff. Also, eighty-one organic tentatively identified compounds (TICs) were observed above the reporting cutoff (ca.) 10 ppbv, and are reported with concentrations that are semiquantitative estimates based on internal standard response factors. The nine organic analytes with the highest estimated concentrations are listed in Summary Table 1 and account for approximately 48% of the total organic components in the headspace of Tank BY-108. Three permanent gases, hydrogen (H 2 ), carbon dioxide (CO 2 ), and nitrous oxide (N 2 O) were also detected. Tank BY-108 is on the Ferrocyanide Watch List
Replacement between conformity and counter-conformity in consumption decisions.
Chou, Ting-Jui; Chang, En-Chung; Dai, Qi; Wong, Veronica
2013-02-01
This study assessed, in a Chinese context, how self-esteem interacts with perceived similarity and uniqueness to yield cognitive dissonance, and whether the dissonance leads to self-reported conformity or counter-conformity behavior. Participants were 408 respondents from 4 major Chinese cities (M age = 33.0 yr., SD = 4.3; 48% men). Self-perceptions of uniqueness, similarity, cognitive dissonance, self-esteem and need to behave in conformity or counter-conformity were measured. A theoretical model was assessed in four situations, relating the ratings of self-esteem and perceived similarity/uniqueness to the way other people at a wedding were dressed, and the resultant cognitive dissonance and conformity/ counter-conformity behavior. Regardless of high or low self-esteem, all participants reported cognitive dissonance when they were told that they were dressed extremely similarly to or extremely differently from the other people attending the wedding. However, the conforming/counter-conforming strategies used by participants to resolve the cognitive dissonance differed. When encountering dissonance induced by the perceived extreme uniqueness of dress, participants with low self-esteem tended to say they would dress next time so as to conform with the way others were dressed, while those with high self-esteem indicated they would continue their counter-conformity in attire. When encountering dissonance induced by the perceived extreme similarity to others, both those with high and low self-esteem tended to say they would dress in an unorthodox manner to surprise other people in the future.
On Associative Conformal Algebras of Linear Growth
Retakh, Alexander
2000-01-01
Lie conformal algebras appear in the theory of vertex algebras. Their relation is similar to that of Lie algebras and their universal enveloping algebras. Associative conformal algebras play a role in conformal representation theory. We introduce the notions of conformal identity and unital associative conformal algebras and classify finitely generated simple unital associative conformal algebras of linear growth. These are precisely the complete algebras of conformal endomorphisms of finite ...
Directory of Open Access Journals (Sweden)
Carlos A. de B. Pereira
2017-12-01
Full Text Available The main objective of this paper is to find the relation between the adaptive significance level presented here and the sample size. We statisticians know of the inconsistency, or paradox, in the current classical tests of significance that are based on p-value statistics that are compared to the canonical significance levels (10%, 5%, and 1%: “Raise the sample to reject the null hypothesis” is the recommendation of some ill-advised scientists! This paper will show that it is possible to eliminate this problem of significance tests. We present here the beginning of a larger research project. The intention is to extend its use to more complex applications such as survival analysis, reliability tests, and other areas. The main tools used here are the Bayes factor and the extended Neyman–Pearson Lemma.
International Nuclear Information System (INIS)
McVeety, B.D.; Clauss, T.W.; Young, J.S.; Ligotke, M.W.; Goheen, S.C.; Lucke, R.B.; Pool, K.H.; McCulloch, M.; Fruchter, J.S.
1995-06-01
This document presents the details of the inorganic and organic analysis that was performed on samples from the headspace of Hanford waste tank 241-C-106. The results described were obtained to support the safety and toxicological evaluations. A summary of the results for the inorganic and organic analytes is included, as well as, a detailed description of the results which appears in the text
International Nuclear Information System (INIS)
Thomas, B.L.; Clauss, T.W.; Ligotke, M.W.; Pool, K.H.; McVeety, B.D.; Olsen, K.B.; Fruchter, J.S.; Goheen, S.C.
1995-10-01
This report describes inorganic and organic analyses results from in situ samples obtained from the headspace of the Hanford waste storage Tank 241-TX-118 (referred to as Tank TX-118). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), hydrogen cyanide (CHN), and water (H 2 O). Sampling for sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 13 analytes. Hexane, normally included in the additional analytes, was removed because a calibration standard was not available during analysis of Tank TX-118 SUMMA trademark canisters. Of these, 12 were observed above the 5-ppbv reporting cutoff. Fourteen tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 86% of the total organic components in Tank TX-118. Permanent gas analysis was not conducted on the tank-headspace samples. Tank TX-118 is on both the Ferrocyanide and Organic Watch List
Vapor space characterization of Waste Tank 241-TY-104: Results from samples collected on 4/27/95
International Nuclear Information System (INIS)
Klinger, G.S.; Olsen, K.B.; Clauss, T.W.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-TY-104 (referred to as Tank TY-104). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 8 were observed above the 5-ppbv reporting cutoff. Five tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 94% of the total organic components in Tank TY-104. Nitrous oxide (N 2 O) was the only permanent gas detected in the tank-headspace samples. Tank TY-104 is on the Ferrocyanide Watch List
Vapor space characterization of Waste Tank 241-U-105: Results from samples collected on 2/24/95
International Nuclear Information System (INIS)
Pool, K.H.; Clauss, T.W.; Ligotke, M.W.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-U-105 (referred to as Tank U-105). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, six were observed above the 5-ppbv reporting cutoff. Three tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. All nine of the organic analytes identified are listed in Table 1 and account for 100% of the total organic components in Tank U-105. Nitrous oxide (N 2 O) was the only permanent gas detected in the tank-headspace sample. Tank U-105 is on the Hydrogen Watch List
Vapor space characterization of Waste Tank 241-U-107: Results from samples collected on 2/17/95
International Nuclear Information System (INIS)
McVeety, B.D.; Clauss, T.W.; Ligotke, M.W.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-U-107 (referred to as Tank U-107). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 10 were observed above the 5-ppbv reporting cutoff. Sixteen organic tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv, and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 88% of the total organic components in Tank U-107. Nitrous oxide (N 2 O) was the only permanent gas detected in the tank-headspace samples. Tank U-107 is on the Organic and the Hydrogen Watch Lists
Vapor space characterization of waste Tank 241-SX-103: Results from samples collected on 3/23/95
International Nuclear Information System (INIS)
Ligotke, M.W.; Clauss, T.W.; Pool, K.H.; McVeety, B.D.; Klinger, G.S.; Olsen, K.B.; Bredt, O.P.; Fruchter, J.S.; Goheen, S.C.
1995-11-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage tank 241-SX-103 (referred to as Tank SX-103). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water vapor (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, two were observed above the 5-ppbv reporting cutoff. Two tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The four organic analytes identified are listed in Table 1 and account for approximately 100% of the total organic components in Tank SX-103. Carbon dioxide (CO 2 ) was the only permanent gas detected in the tank-headspace samples. Tank SX-103 is on the Hydrogen Watch List
International Nuclear Information System (INIS)
Ligotke, M.W.; Lucke, R.B.; Pool, K.H.
1995-10-01
This report describes inorganic and organic analyses results from in situ samples obtained from the headspace of the Hanford waste storage Tank 241-U-106 (referred to as Tank U-106). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not performed. In addition, the authors looked for the 39 TO-14 compounds plus an additional 14 target analytes. Of these, six were observed above the 5-ppbv reporting cutoff. Ten organic tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv in two or more of the three samples collected and are reported with concentrations that are semiquantitative estimates based on internal standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 89% of the total organic components in Tank U-106. Methyl isocyanate, a compound of possible concern in Tank U-106, was not detected. Tank U-106 is on the Organic Watch List
Conformal invariance in harmonic superspace
International Nuclear Information System (INIS)
Galperin, A.; Ivanov, E.; Ogievetsky, V.; Sokatchev, E.
1985-01-01
N=2 conformal supersymmetry is realized in harmonic superspace, its peculiarities are analyzed. The coordinate group and analytical prepotentials for N=2 conformal supergravity are found. A new version of the N=2 Einstein supergravity with infinite number of auxiliary fields is suggested. A hypermultiplet without central charges and constraints is used as a compensator
Counselor Identity: Conformity or Distinction?
McLaughlin, Jerry E.; Boettcher, Kathryn
2009-01-01
The authors explore 3 debates in other disciplines similar to counseling's identity debate in order to learn about common themes and outcomes. Conformity, distinction, and cohesion emerged as common themes. They conclude that counselors should retain their distinctive, humanistic approach rather than conforming to the dominant, medical approach.
Conformal algebra of Riemann surfaces
International Nuclear Information System (INIS)
Vafa, C.
1988-01-01
It has become clear over the last few years that 2-dimensional conformal field theories are a crucial ingredient of string theory. Conformal field theories correspond to vacuum solutions of strings; or more precisely we know how to compute string spectrum and scattering amplitudes by starting from a formal theory (with a proper value of central charge of the Virasoro algebra). Certain non-linear sigma models do give rise to conformal theories. A lot of progress has been made in the understanding of conformal theories. The author discusses a different view of conformal theories which was motivated by the development of operator formalism on Riemann surfaces. The author discusses an interesting recent work from this point of view
The logarithmic conformal field theories
International Nuclear Information System (INIS)
Rahimi Tabar, M.R.; Aghamohammadi, A.; Khorrami, M.
1997-01-01
We study the correlation functions of logarithmic conformal field theories. First, assuming conformal invariance, we explicitly calculate two- and three-point functions. This calculation is done for the general case of more than one logarithmic field in a block, and more than one set of logarithmic fields. Then we show that one can regard the logarithmic field as a formal derivative of the ordinary field with respect to its conformal weight. This enables one to calculate any n-point function containing the logarithmic field in terms of ordinary n-point functions. Finally, we calculate the operator product expansion (OPE) coefficients of a logarithmic conformal field theory, and show that these can be obtained from the corresponding coefficients of ordinary conformal theory by a simple derivation. (orig.)
Sampling-based exploration of folded state of a protein under kinematic and geometric constraints
Yao, Peggy
2011-10-04
Flexibility is critical for a folded protein to bind to other molecules (ligands) and achieve its functions. The conformational selection theory suggests that a folded protein deforms continuously and its ligand selects the most favorable conformations to bind to. Therefore, one of the best options to study protein-ligand binding is to sample conformations broadly distributed over the protein-folded state. This article presents a new sampler, called kino-geometric sampler (KGS). This sampler encodes dominant energy terms implicitly by simple kinematic and geometric constraints. Two key technical contributions of KGS are (1) a robotics-inspired Jacobian-based method to simultaneously deform a large number of interdependent kinematic cycles without any significant break-up of the closure constraints, and (2) a diffusive strategy to generate conformation distributions that diffuse quickly throughout the protein folded state. Experiments on four very different test proteins demonstrate that KGS can efficiently compute distributions containing conformations close to target (e.g., functional) conformations. These targets are not given to KGS, hence are not used to bias the sampling process. In particular, for a lysine-binding protein, KGS was able to sample conformations in both the intermediate and functional states without the ligand, while previous work using molecular dynamics simulation had required the ligand to be taken into account in the potential function. Overall, KGS demonstrates that kino-geometric constraints characterize the folded subset of a protein conformation space and that this subset is small enough to be approximated by a relatively small distribution of conformations. © 2011 Wiley Periodicals, Inc.
International Nuclear Information System (INIS)
Pool, K.H.; Clauss, T.W.; Ligotke, M.W.
1995-06-01
This report describes inorganic and organic analyses results from in situ samples obtained from the headspace of the Hanford waste storage Tank 241-BY-109 (referred to as Tank BY-109). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Summary Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. Organic compounds were also quantitatively determined. Twenty-three organic tentatively identified compounds (TICs) were observed above the detection limit of (ca.) 10 ppbv, but standards for most of these were not available at the time of analysis, and the reported concentrations are semiquantitative estimates. In addition, we looked for the 40 standard TO-14 analytes. We observed 38. Of these, only a few were observed above the 2-ppbv calibrated instrument detection limit. The ten organic analytes with the highest estimated concentrations are listed in Summary Table 1. The ten analytes account for approximately 84% of the total organic components in Tank BY-109
Vapor space characterization of waste tank 241-TY-103: Results from samples collected on 4/11/95
International Nuclear Information System (INIS)
Ligotke, M.W.; Clauss, T.W.; Pool, K.H.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-TY-103 (referred to as Tank TY-103). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 16 were observed above the 5-ppbv reporting cutoff. Sixteen tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 95% of the total organic components in Tank TY-103. Two permanent gases, carbon dioxide (CO 2 ) and nitrous oxide (N 2 O), were also detected
Vapor space characterization of Waste Tank 241-S-111: Results from samples collected on 3/21/95
International Nuclear Information System (INIS)
Klinger, G.S.; Clauss, T.W.; Ligotke, M.W.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-S-111 (referred to as Tank S-111). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, seven were observed above the 5-ppbv reporting cutoff. Five tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 98% of the total organic components in Tank S-111. Two permanent gases, hydrogen (H 2 ) and nitrous oxide (N 2 O), were also detected. Tank S-111 is on the Hydrogen Watch List
Vapor space characterization of waste Tank 241-U-103: Results from samples collected on 2/15/95
International Nuclear Information System (INIS)
Ligotke, M.W.; Pool, K.H.; Clauss, T.W.; McVeety, B.D.; Klinger, G.S.; Olsen, K.B.; Bredt, O.P.; Fruchter, J.S.; Goheen, S.C.
1995-11-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-U-103 (referred to as Tank U-103). The results described her were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water vapor (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 11 were observed above the 5-ppbv reporting cutoff. Eleven tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 90% of the total organic components in Tank U-103. Two permanent gases, hydrogen (H 2 ) and nitrous oxide (N 2 O), were also detected. Tank U-103 is on the Hydrogen Watch List
Vapor space characterization of waste Tank 241-SX-106: Results from samples collected on 3/24/95
International Nuclear Information System (INIS)
Klinger, G.S.; Clauss, T.W.; Litgotke, M.W.
1995-11-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-SX-106 (referred to as Tank SX-106). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 4 were observed above the 5-ppbv reporting cutoff. Three tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 7 organic analytes identified are listed in Table 1 and account for approximately 100% of the total organic components in Tank SX-106. Carbon dioxide (CO 2 ) was the only permanent gas detected. Tank SX-106 is on the Ferrocyanide Watch List
Vapor space characterization of waste tank 241-TX-118: Results from samples collected on 12/16/94
International Nuclear Information System (INIS)
Lucke, R.B.; Ligotke, M.W.; McVeety, B.D.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-TX-118 (referred to as Tank TX-118). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 3 were observed above the 5-ppbv reporting cutoff. Twenty three organic tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv, and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 84% of the total organic components in Tank TX-118. Two permanent gases, carbon dioxide (CO 2 ) and nitrous oxide (N 2 O), were also detected
Vapor space characterization of waste tank 241-S-102: Results from samples collected on 3/14/95
International Nuclear Information System (INIS)
Pool, K.H.; McVeety, B.D.; Clauss, T.W.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-S-102 (referred to as Tank S-102). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 11 were observed above the 5-ppbv reporting cutoff. Eleven tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 95% of the total organic components in Tank S-102. Two permanent gases, hydrogen (H 2 ) and nitrous oxide (N 2 O), were also detected
International Nuclear Information System (INIS)
Ligotke, M.W.; Pool, K.H.; Lucke, R.B.
1995-10-01
This report describes inorganic and organic analyses results from in situ samples obtained from the headspace of the Hanford waste storage Tank 241-TY-104 (referred to as Tank TY-104). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not performed. In addition, the authors looked for the 39 TO-14 compounds plus an additional 14 analytes. Of these, eight were observed above the 5-ppbv reporting cutoff. Twenty-four organic tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal standard response factors. The 10 organic analytes with the highest estimated concentrations are listed in Table 1 and account for approximately 86% of the total organic components in Tank TY-104. Tank TY-104 is on the Ferrocyanide Watch List
Vapor space characterization of waste Tank 241-TY-101: Results from samples collected on 4/6/95
International Nuclear Information System (INIS)
Klinger, G.S.; Clauss, T.W.; Ligotke, M.W.; Pool, K.H.; McVeety, B.D.; Olsen, K.B.; Bredt, O.P.; Fruchter, J.S.; Goheen, S.C.
1995-11-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-TY-101 (referred to as Tank TY-101). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water vapor (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SO x ) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Off these, 5 were observed above the 5-ppbv reporting cutoff. One tentatively identified compound (TIC) was observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The six organic analyses identified are listed in Table 1 and account for approximately 100% of the total organic components in Tank TY-101. Two permanent gases, carbon dioxide (CO 2 ) and nitrous oxide (N 2 O), were also detected. Tank TY-101 is on the Ferrocyanide Watch List
Vapor space characterization of waste tank 241-BX-104: Results from samples collected on 12/30/94
International Nuclear Information System (INIS)
Pool, K.H.; Ligotke, M.W.; McVeety, B.D.
1995-10-01
This report describes inorganic and organic analyses results from samples obtained from the headspace of the Hanford waste storage Tank 241-BX-104 (referred to as Tank BX-104). The results described here were obtained to support safety and toxicological evaluations. A summary of the results for inorganic and organic analytes is listed in Table 1. Detailed descriptions of the results appear in the text. Quantitative results were obtained. for the inorganic compounds ammonia (NH 3 ), nitrogen dioxide (NO 2 ), nitric oxide (NO), and water (H 2 O). Sampling for hydrogen cyanide (HCN) and sulfur oxides (SOx) was not requested. In addition, quantitative results were obtained for the 39 TO-14 compounds plus an additional 14 analytes. Of these, 13 were observed above the 5-ppbv reporting cutoff. Sixty-six organic tentatively identified compounds (TICs) were observed above the reporting cutoff of (ca.) 10 ppbv and are reported with concentrations that are semiquantitative estimates based on internal-standard response factors. The 10 organic analytes, with the highest estimated concentrations are listed in Table 1 and account for approximately 70% of the total organic components in Tank BX-104. Two permanent gases, carbon dioxide (CO 2 ) and nitrous oxide (N 2 O), were also detected
International Nuclear Information System (INIS)
Sharma, A.K.; Lucke, R.B.; Clauss, T.W.; McVeety, B.D.; Fruchter, J.S.; Goheen, S.C.
1995-06-01
This report describes organic results from vapors of the Hanford single-shell waste storage Tank 241-BY-107 (referred to as Tank BY-107). Samples for selected inorganic compounds were obtained but not anlayzed (Section 2.0). Quantitative results were obtained for several organic analytes, but quantities of analytes not listed in US Environmental Protection Agency (EPA) compendium Method TO-14 were estimated. Approximately 80 tentatively identified organic analytes were observed above the detection limit of (ca.) 10 ppbv, but standards for most of these were not available at the time of analysis, and their quantitative determination is beyond the scope of this study. The SUMMATM canister samples were also analyzed for the 41 organic compounds listed in EPA compendium Method TO-14. Of these, only a few were observed above the 2-ppbv detection limits. These are summarized in Table 3.1. Estimated quantities were determined of tentatively identified compounds (TICs). A summary of these results shows quantities of all TICs above the concentration of ca. 10 ppbv. This consists of more than 80 organic analytes. The 12 organic analytes with the highest estimated concentrations are shown
Dynamical realizations of l-conformal Newton–Hooke group
International Nuclear Information System (INIS)
Galajinsky, Anton; Masterov, Ivan
2013-01-01
The method of nonlinear realizations and the technique previously developed in [A. Galajinsky, I. Masterov, Nucl. Phys. B 866 (2013) 212, (arXiv:1208.1403)] are used to construct a dynamical system without higher derivative terms, which holds invariant under the l-conformal Newton–Hooke group. A configuration space of the model involves coordinates, which parametrize a particle moving in d spatial dimensions and a conformal mode, which gives rise to an effective external field. The dynamical system describes a generalized multi-dimensional oscillator, which undergoes accelerated/decelerated motion in an ellipse in accord with evolution of the conformal mode. Higher derivative formulations are discussed as well. It is demonstrated that the multi-dimensional Pais–Uhlenbeck oscillator enjoys the l=3/2 -conformal Newton–Hooke symmetry for a particular choice of its frequencies
In silico Exploration of the Conformational Universe of GPCRs.
Rodríguez-Espigares, Ismael; Kaczor, Agnieszka A; Selent, Jana
2016-07-01
The structural plasticity of G protein coupled receptors (GPCRs) leads to a conformational universe going from inactive to active receptor states with several intermediate states. Many of them have not been captured yet and their role for GPCR activation is not well understood. The study of this conformational space and the transition dynamics between different receptor populations is a major challenge in molecular biophysics. The rational design of effector molecules that target such receptor populations allows fine-tuning receptor signalling with higher specificity to produce drugs with safer therapeutic profiles. In this minireview, we outline highly conserved receptor regions which are considered determinant for the establishment of distinct receptor states. We then discuss in-silico approaches such as dimensionality reduction methods and Markov State Models to explore the GPCR conformational universe and exploit the obtained conformations through structure-based drug design. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.
Conformal symmetry breaking operators for differential forms on spheres
Kobayashi, Toshiyuki; Pevzner, Michael
2016-01-01
This work is the first systematic study of all possible conformally covariant differential operators transforming differential forms on a Riemannian manifold X into those on a submanifold Y with focus on the model space (X, Y) = (Sn, Sn-1). The authors give a complete classification of all such conformally covariant differential operators, and find their explicit formulæ in the flat coordinates in terms of basic operators in differential geometry and classical hypergeometric polynomials. Resulting families of operators are natural generalizations of the Rankin–Cohen brackets for modular forms and Juhl's operators from conformal holography. The matrix-valued factorization identities among all possible combinations of conformally covariant differential operators are also established. The main machinery of the proof relies on the "F-method" recently introduced and developed by the authors. It is a general method to construct intertwining operators between C∞-induced representations or to find singular vecto...
Intensity modulated conformal radiotherapy
International Nuclear Information System (INIS)
Noel, Georges; Moty-Monnereau, Celine; Meyer, Aurelia; David, Pauline; Pages, Frederique; Muller, Felix; Lee-Robin, Sun Hae; David, Denis Jean
2006-12-01
This publication reports the assessment of intensity-modulated conformal radiotherapy (IMCR). This assessment is based on a literature survey which focussed on indications, efficiency and safety on the short term, on the risk of radio-induced cancer on the long term, on the role in the therapeutic strategy, on the conditions of execution, on the impact on morbidity-mortality and life quality, on the impact on the health system and on public health policies and program. This assessment is also based on the opinion of a group of experts regarding the technical benefit of IMCR, its indications depending on the cancer type, safety in terms of radio-induced cancers, and conditions of execution. Before this assessment, the report thus indicates indications for which the use of IMCR can be considered as sufficient or not determined. It also proposes a technical description of IMCR and helical tomo-therapy, discusses the use of this technique for various pathologies or tumours, analyses the present situation of care in France, and comments the identification of this technique in foreign classifications
International Nuclear Information System (INIS)
Zotto, Michele Del; Heckman, Jonathan J.; Tomasiello, Alessandro; Vafa, Cumrun
2015-01-01
A single M5-brane probing G, an ADE-type singularity, leads to a system which has G×G global symmetry and can be viewed as “bifundamental” (G,G) matter. For the A N series, this leads to the usual notion of bifundamental matter. For the other cases it corresponds to a strongly interacting (1,0) superconformal system in six dimensions. Similarly, an ADE singularity intersecting the Hořava-Witten wall leads to a superconformal matter system with E 8 ×G global symmetry. Using the F-theory realization of these theories, we elucidate the Coulomb/tensor branch of (G,G ′ ) conformal matter. This leads to the notion of fractionalization of an M5-brane on an ADE singularity as well as fractionalization of the intersection point of the ADE singularity with the Hořava-Witten wall. Partial Higgsing of these theories leads to new 6d SCFTs in the infrared, which we also characterize. This generalizes the class of (1,0) theories which can be perturbatively realized by suspended branes in IIA string theory. By reducing on a circle, we arrive at novel duals for 5d affine quiver theories. Introducing many M5-branes leads to large N gravity duals.
Remarks on the quantization of conformal fields
International Nuclear Information System (INIS)
Bakas, I.
1988-01-01
The quantization of a general (b,c) system in two dimensions is formulated in terms of an infinite hierarchy of modules for the Virasoro algebra that interpolate between the space of classical conformal fields of weight j and the Dirac sea of semi-infinite forms. This provides a natural framework in which to study the relation between algebraic geometry and representations of the Virasoro algebra with central charge c j = -2(6j 2 -6j+1). The importance of the construction is discussed in the context of string theory. (orig.)
2D conformal field theories and holography
International Nuclear Information System (INIS)
Freidel, Laurent; Krasnov, Kirill
2004-01-01
It is known that the chiral part of any 2D conformal field theory defines a 3D topological quantum field theory: quantum states of this TQFT are the CFT conformal blocks. The main aim of this paper is to show that a similar CFT/TQFT relation exists also for the full CFT. The 3D topological theory that arises is a certain 'square' of the chiral TQFT. Such topological theories were studied by Turaev and Viro; they are related to 3D gravity. We establish an operator/state correspondence in which operators in the chiral TQFT correspond to states in the Turaev-Viro theory. We use this correspondence to interpret CFT correlation functions as particular quantum states of the Turaev-Viro theory. We compute the components of these states in the basis in the Turaev-Viro Hilbert space given by colored 3-valent graphs. The formula we obtain is a generalization of the Verlinde formula. The later is obtained from our expression for a zero colored graph. Our results give an interesting 'holographic' perspective on conformal field theories in two dimensions
Benchmarking Commercial Conformer Ensemble Generators.
Friedrich, Nils-Ole; de Bruyn Kops, Christina; Flachsenberg, Florian; Sommer, Kai; Rarey, Matthias; Kirchmair, Johannes
2017-11-27
We assess and compare the performance of eight commercial conformer ensemble generators (ConfGen, ConfGenX, cxcalc, iCon, MOE LowModeMD, MOE Stochastic, MOE Conformation Import, and OMEGA) and one leading free algorithm, the distance geometry algorithm implemented in RDKit. The comparative study is based on a new version of the Platinum Diverse Dataset, a high-quality benchmarking dataset of 2859 protein-bound ligand conformations extracted from the PDB. Differences in the performance of commercial algorithms are much smaller than those observed for free algorithms in our previous study (J. Chem. Inf. 2017, 57, 529-539). For commercial algorithms, the median minimum root-mean-square deviations measured between protein-bound ligand conformations and ensembles of a maximum of 250 conformers are between 0.46 and 0.61 Å. Commercial conformer ensemble generators are characterized by their high robustness, with at least 99% of all input molecules successfully processed and few or even no substantial geometrical errors detectable in their output conformations. The RDKit distance geometry algorithm (with minimization enabled) appears to be a good free alternative since its performance is comparable to that of the midranked commercial algorithms. Based on a statistical analysis, we elaborate on which algorithms to use and how to parametrize them for best performance in different application scenarios.
SU-F-J-158: Respiratory Motion Resolved, Self-Gated 4D-MRI Using Rotating Cartesian K-Space Sampling
Energy Technology Data Exchange (ETDEWEB)
Han, F; Zhou, Z; Yang, Y; Sheng, K; Hu, P [UCLA School of Medicine, Los Angeles, CA (United States)
2016-06-15
Purpose: Dynamic MRI has been used to quantify respiratory motion of abdominal organs in radiation treatment planning. Many existing 4D-MRI methods based on 2D acquisitions suffer from limited slice resolution and additional stitching artifacts when evaluated in 3D{sup 1}. To address these issues, we developed a 4D-MRI (3D dynamic) technique with true 3D k-space encoding and respiratory motion self-gating. Methods: The 3D k-space was acquired using a Rotating Cartesian K-space (ROCK) pattern, where the Cartesian grid was reordered in a quasi-spiral fashion with each spiral arm rotated using golden angle{sup 2}. Each quasi-spiral arm started with the k-space center-line, which were used as self-gating{sup 3} signal for respiratory motion estimation. The acquired k-space data was then binned into 8 respiratory phases and the golden angle ensures a near-uniform k-space sampling in each phase. Finally, dynamic 3D images were reconstructed using the ESPIRiT technique{sup 4}. 4D-MRI was performed on 6 healthy volunteers, using the following parameters (bSSFP, Fat-Sat, TE/TR=2ms/4ms, matrix size=500×350×120, resolution=1×1×1.2mm, TA=5min, 8 respiratory phases). Supplemental 2D real-time images were acquired in 9 different planes. Dynamic locations of the diaphragm dome and left kidney were measured from both 4D and 2D images. The same protocol was also performed on a MRI-compatible motion phantom where the motion was programmed with different amplitude (10–30mm) and frequency (3–10/min). Results: High resolution 4D-MRI were obtained successfully in 5 minutes. Quantitative motion measurements from 4D-MRI agree with the ones from 2D CINE (<5% error). The 4D images are free of the stitching artifacts and their near-isotropic resolution facilitates 3D visualization and segmentation of abdominal organs such as the liver, kidney and pancreas. Conclusion: Our preliminary studies demonstrated a novel ROCK 4D-MRI technique with true 3D k-space encoding and respiratory
Equilibrium sampling by reweighting nonequilibrium simulation trajectories.
Yang, Cheng; Wan, Biao; Xu, Shun; Wang, Yanting; Zhou, Xin
2016-03-01
Based on equilibrium molecular simulations, it is usually difficult to efficiently visit the whole conformational space of complex systems, which are separated into some metastable regions by high free energy barriers. Nonequilibrium simulations could enhance transitions among these metastable regions and then be applied to sample equilibrium distributions in complex systems, since the associated nonequilibrium effects can be removed by employing the Jarzynski equality (JE). Here we present such a systematical method, named reweighted nonequilibrium ensemble dynamics (RNED), to efficiently sample equilibrium conformations. The RNED is a combination of the JE and our previous reweighted ensemble dynamics (RED) method. The original JE reproduces equilibrium from lots of nonequilibrium trajectories but requires that the initial distribution of these trajectories is equilibrium. The RED reweights many equilibrium trajectories from an arbitrary initial distribution to get the equilibrium distribution, whereas the RNED has both advantages of the two methods, reproducing equilibrium from lots of nonequilibrium simulation trajectories with an arbitrary initial conformational distribution. We illustrated the application of the RNED in a toy model and in a Lennard-Jones fluid to detect its liquid-solid phase coexistence. The results indicate that the RNED sufficiently extends the application of both the original JE and the RED in equilibrium sampling of complex systems.
International Nuclear Information System (INIS)
Clauss, T.W.; Ligotke, M.W.; Pool, K.H.; Lucke, R.B.; McVeety, B.D.; Sharma, A.K.; McCulloch, M.; Fruchter, J.S.; Goheen, S.C.
1995-10-01
This report describes organic analyses results from in situ samples obtained from the headspace of the Hanford waste storage Tank 241-C-109 (referred to as Tank C-109). The results described here were obtained to support safety and toxicological evaluations. Organic compounds were quantitatively determined. Thirteen organic tentatively identified compounds (TICs) were observed above the detection limit of (ca.) 10 ppbv, but standards for most of these were not available at the time of analysis, and the reported concentrations are semiquantitative estimates. In addition, the authors looked for the 40 standard TO-14 analytes. Of these, only one was observed above the 2-ppbv calibrated instrumental detection limit. However, it is believed, even though the values for dichlorodifluoromethane and trichlorofluoromethane are below the instrumental detection limit, they are accurate at these low concentrations. The six analytes account for approximately 100% of the total organic components in Tank C-109. These six organic analytes with the highest estimated concentrations are listed in Summary Table 1. Detailed descriptions of the results appear in the text
Conformal invariance in harmonic superspace
International Nuclear Information System (INIS)
Galperin, A.; Ivanov, E.; Ogievetsky, V.; Sokatchev, E.
1987-01-01
In the present paper we show how the N = 2 superconformal group is realised in harmonic superspace and examine conformal invariance of N = 2 off-shell theories. We believe that the example of N = O self-dual Yang-Mills equations can serve as an instructive introduction to the subject of harmonic superspace and this is examined. The rigid N = 2 conformal supersymmetry and its local version, i.e. N = 2 conformal supergravity is also discussed. The paper is a contribution to the book commemorating the sixtieth birthday of E.S. Fradkin. (author)
Harmony of spinning conformal blocks
Energy Technology Data Exchange (ETDEWEB)
Schomerus, Volker [Deutsches Elektronen-Synchrotron (DESY), Hamburg (Germany). Theory Group; Sobko, Evgeny [Stockholm Univ. (Sweden); Nordita, Stockholm (Sweden); Isachenkov, Mikhail [Weizmann Institute of Science, Rehovoth (Israel). Dept. of Particle Physics and Astrophysics
2016-12-07
Conformal blocks for correlation functions of tensor operators play an increasingly important role for the conformal bootstrap programme. We develop a universal approach to such spinning blocks through the harmonic analysis of certain bundles over a coset of the conformal group. The resulting Casimir equations are given by a matrix version of the Calogero-Sutherland Hamiltonian that describes the scattering of interacting spinning particles in a 1-dimensional external potential. The approach is illustrated in several examples including fermionic seed blocks in 3D CFT where they take a very simple form.
Harmony of spinning conformal blocks
Energy Technology Data Exchange (ETDEWEB)
Schomerus, Volker [DESY Hamburg, Theory Group,Notkestraße 85, 22607 Hamburg (Germany); Sobko, Evgeny [Nordita and Stockholm University,Roslagstullsbacken 23, SE-106 91 Stockholm (Sweden); Isachenkov, Mikhail [Department of Particle Physics and Astrophysics, Weizmann Institute of Science,Rehovot 7610001 (Israel)
2017-03-15
Conformal blocks for correlation functions of tensor operators play an increasingly important role for the conformal bootstrap programme. We develop a universal approach to such spinning blocks through the harmonic analysis of certain bundles over a coset of the conformal group. The resulting Casimir equations are given by a matrix version of the Calogero-Sutherland Hamiltonian that describes the scattering of interacting spinning particles in a 1-dimensional external potential. The approach is illustrated in several examples including fermionic seed blocks in 3D CFT where they take a very simple form.
Mass generation within conformal invariant theories
International Nuclear Information System (INIS)
Flato, M.; Guenin, M.
1981-01-01
The massless Yang-Mills theory is strongly conformally invariant and renormalizable; however, when masses are introduced the theory becomes nonrenormalizable and weakly conformally invariant. Conditions which recover strong conformal invariance are discussed in the letter. (author)
Fischer, Marcus; Coleman, Ryan G.; Fraser, James S.; Shoichet, Brian K.
2014-07-01
Proteins fluctuate between alternative conformations, which presents a challenge for ligand discovery because such flexibility is difficult to treat computationally owing to problems with conformational sampling and energy weighting. Here we describe a flexible docking method that samples and weights protein conformations using experimentally derived conformations as a guide. The crystallographically refined occupancies of these conformations, which are observable in an apo receptor structure, define energy penalties for docking. In a large prospective library screen, we identified new ligands that target specific receptor conformations of a cavity in cytochrome c peroxidase, and we confirm both ligand pose and associated receptor conformation predictions by crystallography. The inclusion of receptor flexibility led to ligands with new chemotypes and physical properties. By exploiting experimental measures of loop and side-chain flexibility, this method can be extended to the discovery of new ligands for hundreds of targets in the Protein Data Bank for which similar experimental information is available.
Fayad, Laura M; Mugera, Charles; Soldatos, Theodoros; Flammang, Aaron; del Grande, Filippo
2013-07-01
We demonstrate the clinical use of an MR angiography sequence performed with sparse k-space sampling (MRA), as a method for dynamic contrast-enhanced (DCE)-MRI, and apply it to the assessment of sarcomas for treatment response. Three subjects with sarcomas (2 with osteosarcoma, 1 with high-grade soft tissue sarcomas) underwent MRI after neoadjuvant therapy/prior to surgery, with conventional MRI (T1-weighted, fluid-sensitive, static post-contrast T1-weighted sequences) and DCE-MRI (MRA, time resolution = 7-10 s, TR/TE 2.4/0.9 ms, FOV 40 cm(2)). Images were reviewed by two observers in consensus who recorded image quality (1 = diagnostic, no significant artifacts, 2 = diagnostic, 75 % with good response, >75 % with poor response). DCE-MRI findings were concordant with histological response (arterial enhancement with poor response, no arterial enhancement with good response). Unlike conventional DCE-MRI sequences, an MRA sequence with sparse k-space sampling is easily integrated into a routine musculoskeletal tumor MRI protocol, with high diagnostic quality. In this preliminary work, tumor enhancement characteristics by DCE-MRI were used to assess treatment response.
International Nuclear Information System (INIS)
Fayad, Laura M.; Mugera, Charles; Grande, Filippo del; Soldatos, Theodoros; Flammang, Aaron
2013-01-01
We demonstrate the clinical use of an MR angiography sequence performed with sparse k-space sampling (MRA), as a method for dynamic contrast-enhanced (DCE)-MRI, and apply it to the assessment of sarcomas for treatment response. Three subjects with sarcomas (2 with osteosarcoma, 1 with high-grade soft tissue sarcomas) underwent MRI after neoadjuvant therapy/prior to surgery, with conventional MRI (T1-weighted, fluid-sensitive, static post-contrast T1-weighted sequences) and DCE-MRI (MRA, time resolution = 7-10 s, TR/TE 2.4/0.9 ms, FOV 40 cm 2 ). Images were reviewed by two observers in consensus who recorded image quality (1 = diagnostic, no significant artifacts, 2 = diagnostic, 75 % with good response, >75 % with poor response). DCE-MRI findings were concordant with histological response (arterial enhancement with poor response, no arterial enhancement with good response). Unlike conventional DCE-MRI sequences, an MRA sequence with sparse k-space sampling is easily integrated into a routine musculoskeletal tumor MRI protocol, with high diagnostic quality. In this preliminary work, tumor enhancement characteristics by DCE-MRI were used to assess treatment response. (orig.)
Li, Zhihui; Liu, Hanwei; Zhang, Yongshun; Guo, Yiduo
2017-10-01
The performance of space-time adaptive processing (STAP) may degrade significantly when some of the training samples are contaminated by the signal-like components (outliers) in nonhomogeneous clutter environments. To remove the training samples contaminated by outliers in nonhomogeneous clutter environments, a robust nonhomogeneous training samples detection method using the sparse-recovery (SR) with knowledge-aided (KA) is proposed. First, the reduced-dimension (RD) overcomplete spatial-temporal steering dictionary is designed with the prior knowledge of system parameters and the possible target region. Then, the clutter covariance matrix (CCM) of cell under test is efficiently estimated using a modified focal underdetermined system solver (FOCUSS) algorithm, where a RD overcomplete spatial-temporal steering dictionary is applied. Third, the proposed statistics are formed by combining the estimated CCM with the generalized inner products (GIP) method, and the contaminated training samples can be detected and removed. Finally, several simulation results validate the effectiveness of the proposed KA-SR-GIP method.
Higher-derivative generalization of conformal mechanics
Baranovsky, Oleg
2017-08-01
Higher-derivative analogs of multidimensional conformal particle and many-body conformal mechanics are constructed. Their Newton-Hooke counterparts are derived by applying appropriate coordinate transformations.
Naturality in conformal field theory
International Nuclear Information System (INIS)
Moore, G.; Seiberg, N.
1989-01-01
We discuss constraints on the operator product coefficients in diagonal and nondiagonal rational conformal field theories. Nondiagonal modular invariants always arise from automorphisms of the fusion rule algebra or from extensions of the chiral algebra. Moreover, when the chiral algebra has been maximally extended a strong form of the naturality principle of field theory can be proven for rational conformal field theory: operator product coefficients vanish if and only if the corresponding fusion rules vanish; that is, if and only if the vanishing can be understood in terms of a symmetry. We illustrate these ideas with several examples. We also generalize our ideas about rational conformal field theories to a larger class of theories: 'quasi-rational conformal field theories' and we explore some of their properties. (orig.)
Steady states in conformal theories
CERN. Geneva
2015-01-01
A novel conjecture regarding the steady state behavior of conformal field theories placed between two heat baths will be presented. Some verification of the conjecture will be provided in the context of fluid dynamics and holography.
National Automated Conformity Inspection Process -
Department of Transportation — The National Automated Conformity Inspection Process (NACIP) Application is intended to expedite the workflow process as it pertains to the FAA Form 81 0-10 Request...
Aspect of the conformal invariance
International Nuclear Information System (INIS)
Bauer, M.
1990-11-01
This thesis is about the study of several physical and mathematical aspects of critical phenomena at two dimensions. These phenomena have remarkable symmetry properties in the coordonnates changes keeping the angles. They are named conformal theories
Some Progress in Conformal Geometry
Directory of Open Access Journals (Sweden)
Sun-Yung A. Chang
2007-12-01
Full Text Available This is a survey paper of our current research on the theory of partial differential equations in conformal geometry. Our intention is to describe some of our current works in a rather brief and expository fashion. We are not giving a comprehensive survey on the subject and references cited here are not intended to be complete. We introduce a bubble tree structure to study the degeneration of a class of Yamabe metrics on Bach flat manifolds satisfying some global conformal bounds on compact manifolds of dimension 4. As applications, we establish a gap theorem, a finiteness theorem for diffeomorphism type for this class, and diameter bound of the $sigma_2$-metrics in a class of conformal 4-manifolds. For conformally compact Einstein metrics we introduce an eigenfunction compactification. As a consequence we obtain some topological constraints in terms of renormalized volumes.
Conformity Adequacy Review: Region 5
Resources are for air quality and transportation government and community leaders. Information on the conformity SIP adequacy/inadequacy of state implementation plans (SIPs) in EPA Region 5 (IL, IN, MI, OH, WI) is provided here.
Energy Technology Data Exchange (ETDEWEB)
Arizono, Shigeki [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: arizono@kuhp.kyoto-u.ac.jp; Isoda, Hiroyoshi [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: sayuki@kuhp.kyoto-u.ac.jp; Maetani, Yoji S. [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: mbo@kuhp.kyoto-u.ac.jp; Hirokawa, Yuusuke [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: yuusuke@kuhp.kyoto-u.ac.jp; Shimada, Kotaro [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: kotaro@kuhp.kyoto-u.ac.jp; Nakamoto, Yuji [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: ynakamo1@kuhp.kyoto-u.ac.jp; Shibata, Toshiya [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: ksj@kuhp.kyoto-u.ac.jp; Togashi, Kaori [Department of Diagnostic Imaging and Nuclear Medicine, Kyoto University Graduate School of Medicine, 54 Shogoin Kawahara-cho, Sakyo-ku, Kyoto 606-8507 (Japan)], E-mail: ktogashi@kuhp.kyoto-u.ac.jp
2010-01-15
Purpose: The aim of this study was to evaluate image quality of 3D MR cholangiography (MRC) using high sampling efficiency technique (SPACE) at 3 T compared with 1.5 T. Methods and materials: An IRB approved prospective study was performed with 17 healthy volunteers using both 3 and 1.5 T MR scanners. MRC images were obtained with free-breathing navigator-triggered 3D T2-weighted turbo spin-echo sequence with SPACE (TR, >2700 ms; TE, 780 ms at 3 T and 801 ms at 1.5 T; echo-train length, 121; voxel size, 1.1 mm x 1.0 mm x 0.84 mm). The common bile duct (CBD) to liver contrast-to-noise ratios (CNRs) were compared between 3 and 1.5 T. A five-point scale was used to compare overall image quality and visualization of the third branches of bile duct (B2, B6, and B8). The depiction of cystic duct insertion and the highest order of bile duct visible were also compared. The results were compared using the Wilcoxon signed-ranks test. Results: CNR between the CBD and liver was significantly higher at 3 T than 1.5 T (p = 0.0006). MRC at 3 T showed a significantly higher overall image quality (p = 0.0215) and clearer visualization of B2 (p = 0.0183) and B6 (p = 0.0106) than at 1.5 T. In all analyses of duct visibility, 3 T showed higher scores than 1.5 T. Conclusion: 3 T MRC using SPACE offered better image quality than 1.5 T. SPACE technique facilitated high-resolution 3D MRC with excellent image quality at 3 T.
Fluctuation Flooding Method (FFM) for accelerating conformational transitions of proteins
Harada, Ryuhei; Takano, Yu; Shigeta, Yasuteru
2014-03-01
A powerful conformational sampling method for accelerating structural transitions of proteins, "Fluctuation Flooding Method (FFM)," is proposed. In FFM, cycles of the following steps enhance the transitions: (i) extractions of largely fluctuating snapshots along anisotropic modes obtained from trajectories of multiple independent molecular dynamics (MD) simulations and (ii) conformational re-sampling of the snapshots via re-generations of initial velocities when re-starting MD simulations. In an application to bacteriophage T4 lysozyme, FFM successfully accelerated the open-closed transition with the 6 ns simulation starting solely from the open state, although the 1-μs canonical MD simulation failed to sample such a rare event.
Conformal radiotherapy: principles and classification
International Nuclear Information System (INIS)
Rosenwald, J.C.; Gaboriaud, G.; Pontvert, D.
1999-01-01
'Conformal radiotherapy' is the name fixed by usage and given to a new form of radiotherapy resulting from the technological improvements observed during the last ten years. While this terminology is now widely used, no precise definition can be found in the literature. Conformal radiotherapy refers to an approach in which the dose distribution is more closely 'conformed' or adapted to the actual shape of the target volume. However, the achievement of a consensus on a more specific definition is hampered by various difficulties, namely in characterizing the degree of 'conformality'. We have therefore suggested a classification scheme be established on the basis of the tools and the procedures actually used for all steps of the process, i.e., from prescription to treatment completion. Our classification consists of four levels: schematically, at level 0, there is no conformation (rectangular fields); at level 1, a simple conformation takes place, on the basis of conventional 2D imaging; at level 2, a 3D reconstruction of the structures is used for a more accurate conformation; and level 3 includes research and advanced dynamic techniques. We have used our personal experience, contacts with colleagues and data from the literature to analyze all the steps of the planning process, and to define the tools and procedures relevant to a given level. The corresponding tables have been discussed and approved at the European level within the Dynarad concerted action. It is proposed that the term 'conformal radiotherapy' be restricted to procedures where all steps are at least at level 2. (author)
Conformal Cosmology and Supernova Data
Behnke, Danilo; Blaschke, David; Pervushin, Victor; Proskurin, Denis
2000-01-01
We define the cosmological parameters $H_{c,0}$, $\\Omega_{m,c}$ and $\\Omega_{\\Lambda, c}$ within the Conformal Cosmology as obtained by the homogeneous approximation to the conformal-invariant generalization of Einstein's General Relativity theory. We present the definitions of the age of the universe and of the luminosity distance in the context of this approach. A possible explanation of the recent data from distant supernovae Ia without a cosmological constant is presented.
Scalar perturbations and conformal transformation
International Nuclear Information System (INIS)
Fabris, J.C.; Tossa, J.
1995-11-01
The non-minimal coupling of gravity to a scalar field can be transformed into a minimal coupling through a conformal transformation. We show how to connect the results of a perturbation calculation, performed around a Friedman-Robertson-Walker background solution, before and after the conformal transformation. We work in the synchronous gauge, but we discuss the implications of employing other frames. (author). 16 refs
Conformal Phase Diagram of Complete Asymptotically Free Theories
DEFF Research Database (Denmark)
Pica, Claudio; Ryttov, Thomas A.; Sannino, Francesco
2017-01-01
function. We provide the general conditions that the beta function coefficients must abide for the theory to be completely asymptotically free while simultaneously possessing an infrared stable fixed point. We also uncover special trajectories in coupling space along which some couplings are both...... asymptotically safe and infrared conformal....
New unified field theory based on the conformal group
Energy Technology Data Exchange (ETDEWEB)
Pessa, E [Rome Univ. (Italy). Ist. di Matematica
1980-10-01
Based on a six-dimensional generalization of Maxwell's equations, a new unified theory of the electromagnetic and gravitational field is developed. Additional space-time coordinates are interpreted only as mathematical tools in order to obtain a linear realization of the four-dimensional conformal group.
Conformally flat tilted Bianchi Type-V cosmological models in ...
Indian Academy of Sciences (India)
the complete determination of these quantities, we assume two extra conditions. First we assume that the space-time is conformally flat which leads to. 1008 .... Discussions. The model starts expanding with a big-bang at М = 0 and the expansion in the model stops at М = ∞ and = -2(Т + 2)¬. The model in general represents.
Conformal coupling of gravitational wave field to curvature
International Nuclear Information System (INIS)
Grishchuk, L.P.; Yudin, V.
1980-01-01
Conformal properties of the equations for weak gravitational waves in a curved space--time are investigated. The basic equations are derived in the linear approximation from Einstein's equations. They represent, in fact, the equations for the second-rank tensor field h/sub alphabeta/, restricted by the auxiliary conditions h/sub α//sup β//sub ;/α =0, hequivalentγ/sub alphabeta/h/sup alphabeta/=0, and embedded into the background space--time with the metric tensor γ/sub alphabeta/. It is shown that the equations for h/sub alphabeta/ are not conformally invariant under the transformations gamma-circumflex/sub alphabeta/ =e/sup 2sigma/γ/sub alphabeta/ and h/sub alphabeta/ =e/sup sigma/h/sub alphabeta/, except for those metric rescalings which transform the Ricci scalar R of the original background space--time into e/sup -2sigma/R, where R is the Ricci scalar of the conformally related background space--time. The general form of the equations for h/sub alphabeta/ which are conformally invariant have been deduced. It is shown that these equations cannot be derived in the linear approximation from any tensor equations which generalize the Einstein equations
QCD-instantons and conformal inversion symmetry
International Nuclear Information System (INIS)
Klammer, D.
2006-07-01
Instantons are an essential and non-perturbative part of Quantum Chromodynamics, the theory of strong interactions. One of the most relevant quantities in the instanton calculus is the instanton-size distribution, which can be described on the one hand within the framework of instanton perturbation theory and on the other hand investigated numerically by means of lattice computations. A rapid onset of a drastic discrepancy between these respective results indicates that the underlying physics is not yet well understood. In this work we investigate the appealing possibility of a symmetry under conformal inversion of space-time leading to this deviation. The motivation being that the lattice data seem to be invariant under an inversion of the instanton size. Since the instanton solution of a given size turns into an anti-instanton solution having an inverted size under conformal inversion of space-time, we ask in a first investigation, whether this property is transferred to the quantum level. In order to introduce a new scale, which is indicated by the lattice data and corresponds to the average instanton size as inversion radius, we project the instanton calculus onto the four-dimensional surface of a five-dimensional sphere via stereographic projection. The radius of this sphere is associated with the average instanton size. The result for the instanton size-distribution projected onto the sphere agrees surprisingly well with the lattice data at qualitative level. The resulting symmetry under an inversion of the instanton size is almost perfect. (orig.)
QCD-instantons and conformal inversion symmetry
Energy Technology Data Exchange (ETDEWEB)
Klammer, D.
2006-07-15
Instantons are an essential and non-perturbative part of Quantum Chromodynamics, the theory of strong interactions. One of the most relevant quantities in the instanton calculus is the instanton-size distribution, which can be described on the one hand within the framework of instanton perturbation theory and on the other hand investigated numerically by means of lattice computations. A rapid onset of a drastic discrepancy between these respective results indicates that the underlying physics is not yet well understood. In this work we investigate the appealing possibility of a symmetry under conformal inversion of space-time leading to this deviation. The motivation being that the lattice data seem to be invariant under an inversion of the instanton size. Since the instanton solution of a given size turns into an anti-instanton solution having an inverted size under conformal inversion of space-time, we ask in a first investigation, whether this property is transferred to the quantum level. In order to introduce a new scale, which is indicated by the lattice data and corresponds to the average instanton size as inversion radius, we project the instanton calculus onto the four-dimensional surface of a five-dimensional sphere via stereographic projection. The radius of this sphere is associated with the average instanton size. The result for the instanton size-distribution projected onto the sphere agrees surprisingly well with the lattice data at qualitative level. The resulting symmetry under an inversion of the instanton size is almost perfect. (orig.)
The solutions of affine and conformal affine Toda field theory
International Nuclear Information System (INIS)
Papadopoulos, G.; Spence, B.
1994-02-01
We give new formulations of the solutions of the field equations of the affine Toda and conformal affine Toda theories on a cylinder and two-dimensional Minkowski space-time. These solutions are parameterised in terms of initial data and the resulting covariant phase spaces are diffeomorphic to the Hamiltonian ones. We derive the fundamental Poisson brackets of the parameters of the solutions and give the general static solutions for the affine theory. (authors). 10 refs
Increased conformity offers diminishing returns for reducing total knee replacement wear.
Fregly, Benjamin J; Marquez-Barrientos, Carlos; Banks, Scott A; DesJardins, John D
2010-02-01
Wear remains a significant problem limiting the lifespan of total knee replacements (TKRs). Though increased conformity between TKR components has the potential to decrease wear, the optimal amount and planes of conformity have not been investigated. Furthermore, differing conformities in the medial and lateral compartments may provide designers the opportunity to address both wear and kinematic design goals simultaneously. This study used a computational model of a Stanmore knee simulator machine and a previously validated wear model to investigate this issue for simulated gait. TKR geometries with different amounts and planes of conformity on the medial and lateral sides were created and tested in two phases. The first phase utilized a wide range of sagittal and coronal conformity combinations to blanket a physically realistic design space. The second phase performed a focused investigation of the conformity conditions from the first phase to which predicted wear volume was sensitive. For the first phase, sagittal but not coronal conformity was found to have a significant effect on predicted wear volume. For the second phase, increased sagittal conformity was found to decrease predicted wear volume in a nonlinear fashion, with reductions gradually diminishing as conformity increased. These results suggest that TKR geometric design efforts aimed at minimizing wear should focus on sagittal rather than coronal conformity and that at least moderate sagittal conformity is desirable in both compartments.
Quantum Conformal Algebras and Closed Conformal Field Theory
Anselmi, D
1999-01-01
We investigate the quantum conformal algebras of N=2 and N=1 supersymmetric gauge theories. Phenomena occurring at strong coupling are analysed using the Nachtmann theorem and very general, model-independent, arguments. The results lead us to introduce a novel class of conformal field theories, identified by a closed quantum conformal algebra. We conjecture that they are the exact solution to the strongly coupled large-N_c limit of the open conformal field theories. We study the basic properties of closed conformal field theory and work out the operator product expansion of the conserved current multiplet T. The OPE structure is uniquely determined by two central charges, c and a. The multiplet T does not contain just the stress-tensor, but also R-currents and finite mass operators. For this reason, the ratio c/a is different from 1. On the other hand, an open algebra contains an infinite tower of non-conserved currents, organized in pairs and singlets with respect to renormalization mixing. T mixes with a se...
Conformation-dependent DNA attraction
Li, Weifeng; Nordenskiöld, Lars; Zhou, Ruhong; Mu, Yuguang
2014-05-01
Understanding how DNA molecules interact with other biomolecules is related to how they utilize their functions and is therefore critical for understanding their structure-function relationships. For a long time, the existence of Z-form DNA (a left-handed double helical version of DNA, instead of the common right-handed B-form) has puzzled the scientists, and the definitive biological significance of Z-DNA has not yet been clarified. In this study, the effects of DNA conformation in DNA-DNA interactions are explored by molecular dynamics simulations. Using umbrella sampling, we find that for both B- and Z-form DNA, surrounding Mg2+ ions always exert themselves to screen the Coulomb repulsion between DNA phosphates, resulting in very weak attractive force. On the contrary, a tight and stable bound state is discovered for Z-DNA in the presence of Mg2+ or Na+, benefiting from their hydrophobic nature. Based on the contact surface and a dewetting process analysis, a two-stage binding process of Z-DNA is outlined: two Z-DNA first attract each other through charge screening and Mg2+ bridges to phosphate groups in the same way as that of B-DNA, after which hydrophobic contacts of the deoxyribose groups are formed via a dewetting effect, resulting in stable attraction between two Z-DNA molecules. The highlighted hydrophobic nature of Z-DNA interaction from the current study may help to understand the biological functions of Z-DNA in gene transcription.Understanding how DNA molecules interact with other biomolecules is related to how they utilize their functions and is therefore critical for understanding their structure-function relationships. For a long time, the existence of Z-form DNA (a left-handed double helical version of DNA, instead of the common right-handed B-form) has puzzled the scientists, and the definitive biological significance of Z-DNA has not yet been clarified. In this study, the effects of DNA conformation in DNA-DNA interactions are explored by
Adolph, Karen E.; Robinson, Scott R.
2011-01-01
Research in developmental psychology requires sampling at different time points. Accurate depictions of developmental change provide a foundation for further empirical studies and theories about developmental mechanisms. However, overreliance on widely spaced sampling intervals in cross-sectional and longitudinal designs threatens the validity of…
Conformation-dependent DNA attraction.
Li, Weifeng; Nordenskiöld, Lars; Zhou, Ruhong; Mu, Yuguang
2014-06-21
Understanding how DNA molecules interact with other biomolecules is related to how they utilize their functions and is therefore critical for understanding their structure-function relationships. For a long time, the existence of Z-form DNA (a left-handed double helical version of DNA, instead of the common right-handed B-form) has puzzled the scientists, and the definitive biological significance of Z-DNA has not yet been clarified. In this study, the effects of DNA conformation in DNA-DNA interactions are explored by molecular dynamics simulations. Using umbrella sampling, we find that for both B- and Z-form DNA, surrounding Mg(2+) ions always exert themselves to screen the Coulomb repulsion between DNA phosphates, resulting in very weak attractive force. On the contrary, a tight and stable bound state is discovered for Z-DNA in the presence of Mg(2+) or Na(+), benefiting from their hydrophobic nature. Based on the contact surface and a dewetting process analysis, a two-stage binding process of Z-DNA is outlined: two Z-DNA first attract each other through charge screening and Mg(2+) bridges to phosphate groups in the same way as that of B-DNA, after which hydrophobic contacts of the deoxyribose groups are formed via a dewetting effect, resulting in stable attraction between two Z-DNA molecules. The highlighted hydrophobic nature of Z-DNA interaction from the current study may help to understand the biological functions of Z-DNA in gene transcription.
Gauge fixing problem in the conformal QED
International Nuclear Information System (INIS)
Ichinose, Shoichi
1986-01-01
The gauge fixing problem in the conformal (spinor and scalar) QED is examined. For the analysis, we generalize Dirac's manifestly conformal-covariant formalism. It is shown that the (vector and matter) fields must obey a certain mixed (conformal and gauge) type of transformation law in order to fix the local gauge symmetry preserving the conformal invariance in the Lagrangian. (orig.)
40 CFR 93.154 - Conformity analysis.
2010-07-01
... 40 Protection of Environment 20 2010-07-01 2010-07-01 false Conformity analysis. 93.154 Section 93...) DETERMINING CONFORMITY OF FEDERAL ACTIONS TO STATE OR FEDERAL IMPLEMENTATION PLANS Determining Conformity of General Federal Actions to State or Federal Implementation Plans § 93.154 Conformity analysis. Any Federal...
International Nuclear Information System (INIS)
Herman, G.T.; Roberts, D.; Axel, L.
1992-01-01
An algorithm is proposed for rapid and accurate reconstruction from data collected in Fourier space at points arranged on a grid of concentric cubes. The whole process has computational complexity of the same order as required for the 3D fast Fourier transform and so (for medically relevant sizes of the data set) it is faster than backprojection into the same size rectangular grid. The design of the algorithm ensures that no interpolations are needed, in contrast to methods involving backprojection with their unavoidable interpolations. As an application, a 3D data collection method for MRI has been designed which directly samples the Fourier transform of the object to be reconstructed on concentric cubes as needed for the algorithm. (author)
International Nuclear Information System (INIS)
Salle, Beatrice; Cremers, David A.; Maurice, Sylvestre; Wiens, Roger C.
2005-01-01
Recently, there has been an increasing interest in the laser-induced breakdown spectroscopy (LIBS) technique for stand-off detection of geological samples for use on landers and rovers to Mars, and for other space applications. For space missions, LIBS analysis capabilities must be investigated and instrumental development is required to take into account constraints such as size, weight, power and the effect of environmental atmosphere (pressure and ambient gas) on flight instrument performance. In this paper, we study the in-situ LIBS method at reduced pressure (7 Torr CO 2 to simulate the Martian atmosphere) and near vacuum (50 mTorr in air to begin to simulate the Moon or asteroids' pressure) as well as at atmospheric pressure in air (for Earth conditions and comparison). Here in-situ corresponds to distances on the order of 150 mm in contrast to stand-off analysis at distance of many meters. We show the influence of the ambient pressure on the calibration curves prepared from certified soil and clay pellets. In order to detect simultaneously all the elements commonly observed in terrestrial soils, we used an Echelle spectrograph. The results are discussed in terms of calibration curves, measurement precision, plasma light collection system efficiency and matrix effects
International Nuclear Information System (INIS)
Nagel, Armin Michael
2009-01-01
A 3D radial k-space acquisition technique with homogenous distribution of the sampling density (DA-3D-RAD) is presented. This technique enables short echo times (TE 23 Na-MRI, and provides a high SNR-efficiency. The gradients of the DA-3D-RAD-sequence are designed such that the average sampling density in each spherical shell of k-space is constant. The DA-3D-RAD-sequence provides 34% more SNR than a conventional 3D radial sequence (3D-RAD) if T 2 * -decay is neglected. This SNR-gain is enhanced if T 2 * -decay is present, so a 1.5 to 1.8 fold higher SNR is measured in brain tissue with the DA-3D-RAD-sequence. Simulations and experimental measurements show that the DA-3D-RAD sequence yields a better resolution in the presence of T 2 * -decay and less image artefacts when B 0 -inhomogeneities exist. Using the developed sequence, T 1 -, T 2 * - and Inversion-Recovery- 23 Na-image contrasts were acquired for several organs and 23 Na-relaxation times were measured (brain tissue: T 1 =29.0±0.3 ms; T 2s * ∼4 ms; T 2l * ∼31 ms; cerebrospinal fluid: T 1 =58.1±0.6 ms; T 2 * =55±3 ms (B 0 =3 T)). T 1 - und T 2 * -relaxation times of cerebrospinal fluid are independent of the selected magnetic field strength (B0 = 3T/7 T), whereas the relaxation times of brain tissue increase with field strength. Furthermore, 23 Na-signals of oedemata were suppressed in patients and thus signals from different tissue compartments were selectively measured. (orig.)
Conformational Clusters of Phosphorylated Tyrosine.
Abdelrasoul, Maha; Ponniah, Komala; Mao, Alice; Warden, Meghan S; Elhefnawy, Wessam; Li, Yaohang; Pascal, Steven M
2017-12-06
Tyrosine phosphorylation plays an important role in many cellular and intercellular processes including signal transduction, subcellular localization, and regulation of enzymatic activity. In 1999, Blom et al., using the limited number of protein data bank (PDB) structures available at that time, reported that the side chain structures of phosphorylated tyrosine (pY) are partitioned into two conserved conformational clusters ( Blom, N.; Gammeltoft, S.; Brunak, S. J. Mol. Biol. 1999 , 294 , 1351 - 1362 ). We have used the spectral clustering algorithm to cluster the increasingly growing number of protein structures with pY sites, and have found that the pY residues cluster into three distinct side chain conformations. Two of these pY conformational clusters associate strongly with a narrow range of tyrosine backbone conformation. The novel cluster also highly correlates with the identity of the n + 1 residue, and is strongly associated with a sequential pYpY conformation which places two adjacent pY side chains in a specific relative orientation. Further analysis shows that the three pY clusters are associated with distinct distributions of cognate protein kinases.
The quantum symmetry of rational conformal field theories
Directory of Open Access Journals (Sweden)
César Gómez
1991-04-01
Full Text Available The quantum group symmetry of the c ˇ1 Rational Conformal Field Theory, in its Coulomb gas version, is formulated in terms of a new type of screened vertex operators, which define the representation spaces of a quantum group Q. The conformal properties of these operators show a deep interplay between the quantum group Q and the Virasoro algebra.The R-matrix, the comultiplication rules and the quantum Clebsch-Gordan coefficients of Q are obtained using contour deformation techniques. Finally, the relation between the chiral vertex operators and the quantum Clebsch-Gordan coefficients is shown.
Energy Technology Data Exchange (ETDEWEB)
Lopes Jesus, A. J. [CQC, Department of Chemistry, University of Coimbra, 3004-535 Coimbra (Portugal); CQC, Faculty of Pharmacy, University of Coimbra, 3004-295 Coimbra (Portugal); Reva, I., E-mail: reva@qui.uc.pt; Fausto, R. [CQC, Department of Chemistry, University of Coimbra, 3004-535 Coimbra (Portugal); Araujo-Andrade, C. [CQC, Department of Chemistry, University of Coimbra, 3004-535 Coimbra (Portugal); Unidad Académica de Física de la Universidad Autónoma de Zacatecas, Zacatecas (Mexico); ICFO–The Institute of Photonic Sciences, 08860 Castelldefels (Barcelona) (Spain)
2016-03-28
Conformational changes induced thermally or upon infrared excitation of matrix-isolated 6-methoxyindole were investigated. Narrowband near-infrared excitation of the first overtone of the N–H stretching vibration of each one of the two identified conformers is found to induce a selective large-scale conversion of the pumped conformer into the other one. This easily controllable bidirectional process consists in the intramolecular reorientation of the methoxy group and allowed a full assignment of the infrared spectra of the two conformers. Matrices with different conformational compositions prepared by narrow-band irradiations were subsequently used to investigate the effects of both thermal and broadband infrared excitations on the conformational mixtures. Particular attention is given to the influence of the matrix medium (Ar vs. Xe) and conformational effects of exposition of the sample to the spectrometer light source during the measurements.
A conformal gauge invariant functional for Weyl structures and the first variation formula
Ichiyama, Toshiyuki; Furuhata, Hitoshi; Urakawa, Hajime
1999-01-01
We consider a new conformal gauge invariant functional which is a natural curvature functional on the space of Weyl structures. We derive the first variation formula of its functional and characterize its critical points.
Conformational analysis of six- and twelve-membered ring compounds by molecular dynamics
DEFF Research Database (Denmark)
Christensen, I T; Jørgensen, Flemming Steen
1997-01-01
. A series of methyl-substituted 1,3-dioxanes were investigated at 1000 K, and the number of chair-chair interconversions could be quantitatively correlated to the experimentally determined ring inversion barrier. Similarly, the distribution of sampled minimum-energy conformations correlated with the energy......-derived Boltzmann distribution. The macrocyclic ring system cyclododecane was subjected to an MD simulation at 1000 K and 71 different conformations could be sampled. These conformations were compared with the results of previously reported conformational analyses using stochastic search methods, and the MD method...
The Role of Conserved Waters in Conformational Transitions of Q61H K-ras
Prakash, Priyanka; Sayyed-Ahmad, Abdallah; Gorfe, Alemayehu A.
2012-01-01
To investigate the stability and functional role of long-residence water molecules in the Q61H variant of the signaling protein K-ras, we analyzed all available Ras crystal structures and conformers derived from a series of independent explicit solvent molecular dynamics (MD) simulations totaling 1.76 µs. We show that the protein samples a different region of phase space in the presence and absence of several crystallographically conserved and buried water molecules. The dynamics of these waters is coupled with the local as well as the global motions of the protein, in contrast to less buried waters whose exchange with bulk is only loosely coupled with the motion of loops in their vicinity. Aided by two novel reaction coordinates involving the distance (d) between the Cα atoms of G60 at switch 2 and G10 at the P-loop and the N-Cα-C-O dihedral (ξ) of G60, we further show that three water molecules located in lobe1, at the interface between the lobes and at lobe2, are involved in the relative motion of residues at the two lobes of Q61H K-ras. Moreover, a d/ξ plot classifies the available Ras x-ray structures and MD-derived K-ras conformers into active GTP-, intermediate GTP-, inactive GDP-bound, and nucleotide-free conformational states. The population of these states and the transition between them is modulated by water-mediated correlated motions involving the functionally critical switch 2, P-loop and helix 3. These results suggest that water molecules act as allosteric ligands to induce a population shift among distinct switch 2 conformations that differ in effector recognition. PMID:22359497
Logarithmic conformal field theory: beyond an introduction
International Nuclear Information System (INIS)
Creutzig, Thomas; Ridout, David
2013-01-01
studied here by first determining its irreducible spectrum, which turns out to be continuous, as well as a selection of natural reducible, but indecomposable, modules. This is followed by a detailed description of how to obtain character formulae for each irreducible, a derivation of the action of the modular group on the characters, and an application of the Verlinde formula to compute the Grothendieck fusion rules. In each case, the (genuine) fusion rules are known, so comparisons can be made and favourable conclusions drawn. In addition, each example admits an infinite set of simple currents, hence extended symmetry algebras may be constructed and a series of bulk modular invariants computed. The spectrum of such an extended theory is typically discrete and this is how the triplet model W(1,2) arises, for example. Moreover, simple current technology admits a derivation of the extended algebra fusion rules from those of its continuous parent theory. Finally, each example is concluded by a brief description of the computation of some bulk correlators, a discussion of the structure of the bulk state space, and remarks concerning more advanced developments and generalizations. The final part gives a very short account of the theory of staggered modules, the (simplest class of) representations that are responsible for the logarithmic singularities that distinguish logarithmic theories from their rational cousins. These modules are discussed in a generality suitable to encompass all the examples met in this review and some of the very basic structure theory is proven. Then, the important quantities known as logarithmic couplings are reviewed for Virasoro staggered modules and their role as fundamentally important parameters, akin to the three-point constants of rational conformal field theory, is discussed. An appendix is also provided in order to introduce some of the necessary, but perhaps unfamiliar, language of homological algebra. (review)
Bootstrapping conformal field theories with the extremal functional method.
El-Showk, Sheer; Paulos, Miguel F
2013-12-13
The existence of a positive linear functional acting on the space of (differences between) conformal blocks has been shown to rule out regions in the parameter space of conformal field theories (CFTs). We argue that at the boundary of the allowed region the extremal functional contains, in principle, enough information to determine the dimensions and operator product expansion (OPE) coefficients of an infinite number of operators appearing in the correlator under analysis. Based on this idea we develop the extremal functional method (EFM), a numerical procedure for deriving the spectrum and OPE coefficients of CFTs lying on the boundary (of solution space). We test the EFM by using it to rederive the low lying spectrum and OPE coefficients of the two-dimensional Ising model based solely on the dimension of a single scalar quasiprimary--no Virasoro algebra required. Our work serves as a benchmark for applications to more interesting, less known CFTs in the near future.
Renyi entropy and conformal defects
Energy Technology Data Exchange (ETDEWEB)
Bianchi, Lorenzo [Humboldt-Univ. Berlin (Germany). Inst. fuer Physik; Hamburg Univ. (Germany). II. Inst. fuer Theoretische Physik; Meineri, Marco [Scuola Normale Superiore, Pisa (Italy); Perimeter Institute for Theoretical Physics, Waterloo, ON (Canada); Istituto Nazionale di Fisica Nucleare, Pisa (Italy); Myers, Robert C. [Perimeter Institute for Theoretical Physics, Waterloo, ON (Canada); Smolkin, Michael [California Univ., Berkely, CA (United States). Center for Theoretical Physics and Department of Physics
2016-04-18
We propose a field theoretic framework for calculating the dependence of Renyi entropies on the shape of the entangling surface in a conformal field theory. Our approach rests on regarding the corresponding twist operator as a conformal defect and in particular, we define the displacement operator which implements small local deformations of the entangling surface. We identify a simple constraint between the coefficient defining the two-point function of the displacement operator and the conformal weight of the twist operator, which consolidates a number of distinct conjectures on the shape dependence of the Renyi entropy. As an example, using this approach, we examine a conjecture regarding the universal coefficient associated with a conical singularity in the entangling surface for CFTs in any number of spacetime dimensions. We also provide a general formula for the second order variation of the Renyi entropy arising from small deformations of a spherical entangling surface, extending Mezei's results for the entanglement entropy.
Elementary introduction to conformal invariance
International Nuclear Information System (INIS)
Grandati, Y.
1992-01-01
These notes constitute an elementary introduction to the concept of conformal invariance and its applications to the study of bidimensional critical phenomena. The aim is to give an access as pedestrian as possible to this vast subject. After a brief account of the general properties of conformal transformation in D dimensions, we study more specifically the case D = 2. The center of the discussion is then the consequences of the action of this symmetry group on bidimensional field theories, and in particular the links between the representations of the Virasoro algebra and the structure of the correlation functions of conformal field theories. Finally after showing how the Ising model reduces to a Majorana fermionic field theory, we see how the general formalism previously discussed can be applied to the Ising case at the critical point. (orig.)
Conformal geometry and quasiregular mappings
Vuorinen, Matti
1988-01-01
This book is an introduction to the theory of spatial quasiregular mappings intended for the uninitiated reader. At the same time the book also addresses specialists in classical analysis and, in particular, geometric function theory. The text leads the reader to the frontier of current research and covers some most recent developments in the subject, previously scatterd through the literature. A major role in this monograph is played by certain conformal invariants which are solutions of extremal problems related to extremal lengths of curve families. These invariants are then applied to prove sharp distortion theorems for quasiregular mappings. One of these extremal problems of conformal geometry generalizes a classical two-dimensional problem of O. Teichmüller. The novel feature of the exposition is the way in which conformal invariants are applied and the sharp results obtained should be of considerable interest even in the two-dimensional particular case. This book combines the features of a textbook an...
Renyi entropy and conformal defects
International Nuclear Information System (INIS)
Bianchi, Lorenzo; Myers, Robert C.; Smolkin, Michael
2016-01-01
We propose a field theoretic framework for calculating the dependence of Renyi entropies on the shape of the entangling surface in a conformal field theory. Our approach rests on regarding the corresponding twist operator as a conformal defect and in particular, we define the displacement operator which implements small local deformations of the entangling surface. We identify a simple constraint between the coefficient defining the two-point function of the displacement operator and the conformal weight of the twist operator, which consolidates a number of distinct conjectures on the shape dependence of the Renyi entropy. As an example, using this approach, we examine a conjecture regarding the universal coefficient associated with a conical singularity in the entangling surface for CFTs in any number of spacetime dimensions. We also provide a general formula for the second order variation of the Renyi entropy arising from small deformations of a spherical entangling surface, extending Mezei's results for the entanglement entropy.
Geodesic deviation and Minikowski space
International Nuclear Information System (INIS)
Barraco, D.; Kozameh, C.; Newman, E.T.; Tod, P.
1990-01-01
The authors study the properties of the solution space of local surface-forming null sub-congruences in the neighborhood of a given null geodesic in a pseudo-Riemannian space-time. This solution space is a three-dimensional manifold, naturally endowed with a conformal Minkowski metric
International Nuclear Information System (INIS)
Hu, Lingzhi; Traughber, Melanie; Su, Kuan-Hao; Pereira, Gisele C.; Grover, Anu; Traughber, Bryan; Muzic, Raymond F. Jr.
2014-01-01
Purpose: The ultrashort echo-time (UTE) sequence is a promising MR pulse sequence for imaging cortical bone which is otherwise difficult to image using conventional MR sequences and also poses strong attenuation for photons in radiation therapy and PET imaging. The authors report here a systematic characterization of cortical bone signal decay and a scanning time optimization strategy for the UTE sequence through k-space undersampling, which can result in up to a 75% reduction in acquisition time. Using the undersampled UTE imaging sequence, the authors also attempted to quantitatively investigate the MR properties of cortical bone in healthy volunteers, thus demonstrating the feasibility of using such a technique for generating bone-enhanced images which can be used for radiation therapy planning and attenuation correction with PET/MR. Methods: An angularly undersampled, radially encoded UTE sequence was used for scanning the brains of healthy volunteers. Quantitative MR characterization of tissue properties, including water fraction and R2 ∗ = 1/T2 ∗ , was performed by analyzing the UTE images acquired at multiple echo times. The impact of different sampling rates was evaluated through systematic comparison of the MR image quality, bone-enhanced image quality, image noise, water fraction, and R2 ∗ of cortical bone. Results: A reduced angular sampling rate of the UTE trajectory achieves acquisition durations in proportion to the sampling rate and in as short as 25% of the time required for full sampling using a standard Cartesian acquisition, while preserving unique MR contrast within the skull at the cost of a minimal increase in noise level. The R2 ∗ of human skull was measured as 0.2–0.3 ms −1 depending on the specific region, which is more than ten times greater than the R2 ∗ of soft tissue. The water fraction in human skull was measured to be 60%–80%, which is significantly less than the >90% water fraction in brain. High-quality, bone
Light-cone AdS/CFT-adapted approach to AdS fields/currents, shadows, and conformal fields
Energy Technology Data Exchange (ETDEWEB)
Metsaev, R.R. [Department of Theoretical Physics, P.N. Lebedev Physical Institute, Leninsky prospect 53, Moscow 119991 (Russian Federation)
2015-10-16
Light-cone gauge formulation of fields in AdS space and conformal field theory in flat space adapted for the study of AdS/CFT correspondence is developed. Arbitrary spin mixed-symmetry fields in AdS space and arbitrary spin mixed-symmetry currents, shadows, and conformal fields in flat space are considered on an equal footing. For the massless and massive fields in AdS and the conformal fields in flat space, simple light-cone gauge actions leading to decoupled equations of motion are found. For the currents and shadows, simple expressions for all 2-point functions are also found. We demonstrate that representation of conformal algebra generators on space of currents, shadows, and conformal fields can be built in terms of spin operators entering the light-cone gauge formulation of AdS fields. This considerably simplifies the study of AdS/CFT correspondence. Light-cone gauge actions for totally symmetric arbitrary spin long conformal fields in flat space are presented. We apply our approach to the study of totally antisymmetric (one-column) and mixed-symmetry (two-column) fields in AdS space and currents, shadows, and conformal fields in flat space.
Conformal quantum field theory: From Haag-Kastler nets to Wightman fields
International Nuclear Information System (INIS)
Joerss, M.
1996-07-01
Starting from a chiral conformal Haag-Kastler net of local observables on two-dimensional Minkowski space-time, we construct associated pointlike localizable charged fields which intertwine between the superselection sectors with finite statistics of the theory. This amounts to a proof of the spin-statistics theorem, the PCT theorem, the Bisognano-Wichmann identification of modular operators, Haag duality in the vacuum sector, and the existence of operator product expansions. Our method consists of the explicit use of the representation theory of the universal covering group of SL(2,R). A central role is played by a ''conformal cluster theorem'' for conformal two-point functions in algebraic quantum field theory. Generalizing this ''conformal cluster theorem'' to the n-point functions of Haag-Kastler theories, we can finally construct from a chiral conformal net of algebras a compelte set of conformal n-point functions fulfilling the Wightman axioms. (orig.)
SUSY Unparticle and Conformal Sequestering
Energy Technology Data Exchange (ETDEWEB)
Nakayama, Yu; Nakayama, Yu
2007-07-17
We investigate unparticle physics with supersymmetry (SUSY). The SUSY breaking effects due to the gravity mediation induce soft masses for the SUSY unparticles and hence break the conformal invariance. The unparticle physics observable in near future experiments is only consistent if the SUSY breakingeffects from the hidden sector to the standard model sector are dominated by the gauge mediation, or if the SUSY breaking effects to the unparticle sector are sufficiently sequestered. We argue that the natural realization of the latter possibility is the conformal sequestering scenario.
Epigenetic dominance of prion conformers.
Directory of Open Access Journals (Sweden)
Eri Saijo
2013-10-01
Full Text Available Although they share certain biological properties with nucleic acid based infectious agents, prions, the causative agents of invariably fatal, transmissible neurodegenerative disorders such as bovine spongiform encephalopathy, sheep scrapie, and human Creutzfeldt Jakob disease, propagate by conformational templating of host encoded proteins. Once thought to be unique to these diseases, this mechanism is now recognized as a ubiquitous means of information transfer in biological systems, including other protein misfolding disorders such as those causing Alzheimer's and Parkinson's diseases. To address the poorly understood mechanism by which host prion protein (PrP primary structures interact with distinct prion conformations to influence pathogenesis, we produced transgenic (Tg mice expressing different sheep scrapie susceptibility alleles, varying only at a single amino acid at PrP residue 136. Tg mice expressing ovine PrP with alanine (A at (OvPrP-A136 infected with SSBP/1 scrapie prions propagated a relatively stable (S prion conformation, which accumulated as punctate aggregates in the brain, and produced prolonged incubation times. In contrast, Tg mice expressing OvPrP with valine (V at 136 (OvPrP-V136 infected with the same prions developed disease rapidly, and the converted prion was comprised of an unstable (U, diffusely distributed conformer. Infected Tg mice co-expressing both alleles manifested properties consistent with the U conformer, suggesting a dominant effect resulting from exclusive conversion of OvPrP-V136 but not OvPrP-A136. Surprisingly, however, studies with monoclonal antibody (mAb PRC5, which discriminates OvPrP-A136 from OvPrP-V136, revealed substantial conversion of OvPrP-A136. Moreover, the resulting OvPrP-A136 prion acquired the characteristics of the U conformer. These results, substantiated by in vitro analyses, indicated that co-expression of OvPrP-V136 altered the conversion potential of OvPrP-A136 from the S to
Topics in conformal field theory
International Nuclear Information System (INIS)
Kiritsis, E.B.
1988-01-01
In this work two major topics in Conformal Field Theory are discussed. First a detailed investigation of N = 2 Superconformal theories is presented. The structure of the representations of the N = 2 superconformal algebras is investigated and the character formulae are calculated. The general structure of N = 2 superconformal theories is elucidated and the operator algebra of the minimal models is derived. The first minimal system is discussed in more detail. Second, applications of the conformal techniques are studied in the Ashkin-Teller model. The c = 1 as well as the c = 1/2 critical lines are discussed in detail
Borba, Ana; Gómez-Zavaglia, Andrea; Fausto, Rui
2014-10-01
The conformational space of α-phenylglycine (PG) have been investigated theoretically at both the DFT/B3LYP/6-311++G(d,p) and MP2/6-311++G(d,p) levels of approximation. Seventeen different minima were found on the investigated potential energy surfaces, which are characterized by different dominant intramolecular interactions: type I conformers are stabilized by hydrogen bonds of the type N-H...O=C, type II by a strong O-H...N hydrogen bond, type III by weak N-H...O-H hydrogen bonds, and type IV by a C=O...H-C contact. The calculations indicate also that entropic effects are relevant in determining the equilibrium populations of the conformers of PG in the gas phase, in particular in the case of conformers of type II, where the strong intramolecular O-H...N hydrogen bond considerably diminishes entropy by reducing the conformational mobility of the molecule. In consonance with the relative energies of the conformers and barriers for conformational interconversion, only 3 conformers of PG were observed for the compound isolated in cryogenic Ar, Xe, and N2 matrices: the conformational ground state (ICa), and forms ICc and IITa. All other significantly populated conformers existing in the gas phase prior to deposition convert either to conformer ICa or to conformer ICc during matrix deposition. The experimental observation of ICc had never been achieved hitherto. Narrowband near-IR irradiation of the first overtone of νOH vibrational mode of ICa and ICc in nitrogen matrices (at 6910 and 6930 cm-1, respectively) led to selective generation of two additional conformers of high-energy, ITc and ITa, respectively, which were also observed experimentally for the first time. In addition, these experiments also provided the key information for the detailed vibrational characterization of the 3 conformers initially present in the matrices. On the other hand, UV irradiation (λ = 255 nm) of PG isolated in a xenon matrix revealed that PG undergoes facile photofragmentation
International Nuclear Information System (INIS)
Borba, Ana; Fausto, Rui; Gómez-Zavaglia, Andrea
2014-01-01
The conformational space of α-phenylglycine (PG) have been investigated theoretically at both the DFT/B3LYP/6-311++G(d,p) and MP2/6-311++G(d,p) levels of approximation. Seventeen different minima were found on the investigated potential energy surfaces, which are characterized by different dominant intramolecular interactions: type I conformers are stabilized by hydrogen bonds of the type N–H···O=C, type II by a strong O–H···N hydrogen bond, type III by weak N–H···O–H hydrogen bonds, and type IV by a C=O···H–C contact. The calculations indicate also that entropic effects are relevant in determining the equilibrium populations of the conformers of PG in the gas phase, in particular in the case of conformers of type II, where the strong intramolecular O–H···N hydrogen bond considerably diminishes entropy by reducing the conformational mobility of the molecule. In consonance with the relative energies of the conformers and barriers for conformational interconversion, only 3 conformers of PG were observed for the compound isolated in cryogenic Ar, Xe, and N 2 matrices: the conformational ground state (ICa), and forms ICc and IITa. All other significantly populated conformers existing in the gas phase prior to deposition convert either to conformer ICa or to conformer ICc during matrix deposition. The experimental observation of ICc had never been achieved hitherto. Narrowband near-IR irradiation of the first overtone of νOH vibrational mode of ICa and ICc in nitrogen matrices (at 6910 and 6930 cm −1 , respectively) led to selective generation of two additional conformers of high-energy, ITc and ITa, respectively, which were also observed experimentally for the first time. In addition, these experiments also provided the key information for the detailed vibrational characterization of the 3 conformers initially present in the matrices. On the other hand, UV irradiation (λ = 255 nm) of PG isolated in a xenon matrix revealed that PG
Renormalization, conformal ward identities and the origin of a conformal anomaly pole
Corianò, Claudio; Maglio, Matteo Maria
2018-06-01
We investigate the emergence of a conformal anomaly pole in conformal field theories in the case of the TJJ correlator. We show how it comes to be generated in dimensional renormalization, using a basis of 13 form factors (the F-basis), where only one of them requires renormalization (F13), extending previous studies. We then combine recent results on the structure of the non-perturbative solutions of the conformal Ward identities (CWI's) for the TJJ in momentum space, expressed in terms of a minimal set of 4 form factors (A-basis), with the properties of the F-basis, and show how the singular behaviour of the corresponding form factors in both basis can be related. The result proves the centrality of such massless effective interactions induced by the anomaly, which have recently found realization in solid state, in the theory of topological insulators and of Weyl semimetals. This pattern is confirmed in massless abelian and nonabelian theories (QED and QCD) investigated at one-loop.
Riniker, Sereina; Christ, Clara D; Hansen, Halvor S; Hünenberger, Philippe H; Oostenbrink, Chris; Steiner, Denise; van Gunsteren, Wilfred F
2011-11-24
The calculation of the relative free energies of ligand-protein binding, of solvation for different compounds, and of different conformational states of a polypeptide is of considerable interest in the design or selection of potential enzyme inhibitors. Since such processes in aqueous solution generally comprise energetic and entropic contributions from many molecular configurations, adequate sampling of the relevant parts of configurational space is required and can be achieved through molecular dynamics simulations. Various techniques to obtain converged ensemble averages and their implementation in the GROMOS software for biomolecular simulation are discussed, and examples of their application to biomolecules in aqueous solution are given. © 2011 American Chemical Society
Dynamics of the conformal factor in 4D gravity
International Nuclear Information System (INIS)
Antoniadis, I.
1993-01-01
We argue that 4D gravity is drastically modified at distances larger than the horizon scale, due to the large infrared quantum fluctuations of the conformal part of the metric. The infrared dynamics of the conformal factor is generated by an effective action, induced by the trace anomaly of matter in curved space, analogous to the Polyakov action in two dimensions. The resulting effective scalar theory is renormalizable, and possesses a non-trivial, infrared stable fixed point, characterized by an anomalous scaling dimension of the conformal factor. We argue that this theory describes a large distance scale invariant phase of 4D gravity and provides a framework for a dynamical solution of the cosmological constant problem (author). 12 refs
Hernandez-Romieu, Alfonso C; Sullivan, Patrick S; Sanchez, Travis H; Kelley, Colleen F; Peterson, John L; Del Rio, Carlos; Salazar, Laura F; Frew, Paula M; Rosenberg, Eli S
2014-07-17
Recruiting valid samples of men who have sex with men (MSM) is a key component of the US human immunodeficiency virus (HIV) surveillance and of research studies seeking to improve HIV prevention for MSM. Social media, such as Facebook, may present an opportunity to reach broad samples of MSM, but the extent to which those samples are comparable with men recruited from venue-based, time-space sampling (VBTS) is unknown. The objective of this study was to assess the comparability of MSM recruited via VBTS and Facebook. HIV-negative and HIV-positive black and white MSM were recruited from June 2010 to December 2012 using VBTS and Facebook in Atlanta, GA. We compared the self-reported venue attendance, demographic characteristics, sexual and risk behaviors, history of HIV-testing, and HIV and sexually transmitted infection (STI) prevalence between Facebook- and VTBS-recruited MSM overall and by race. Multivariate logistic and negative binomial models estimated age/race adjusted ratios. The Kaplan-Meier method was used to assess 24-month retention. We recruited 803 MSM, of whom 110 (34/110, 30.9% black MSM, 76/110, 69.1% white MSM) were recruited via Facebook and 693 (420/693, 60.6% black MSM, 273/693, 39.4% white MSM) were recruited through VTBS. Facebook recruits had high rates of venue attendance in the previous month (26/34, 77% among black and 71/76, 93% among white MSM; between-race P=.01). MSM recruited on Facebook were generally older, with significant age differences among black MSM (P=.02), but not white MSM (P=.14). In adjusted multivariate models, VBTS-recruited MSM had fewer total partners (risk ratio [RR]=0.78, 95% CI 0.64-0.95; P=.01) and unprotected anal intercourse (UAI) partners (RR=0.54, 95% CI 0.40-0.72; PFacebook, to 77% for black and 78% for white MSM recruited at venues. There was no statistically significant differences in retention between the four groups (log-rank P=.64). VBTS and Facebook recruitment methods yielded similar samples of MSM in
Conformal field theory between supersymmetry and indecomposable structures
Energy Technology Data Exchange (ETDEWEB)
Eberle, H.
2006-07-15
This thesis considers conformal field theory in its supersymmetric extension as well as in its relaxation to logarithmic conformal field theory. This thesis is concerned with the subspace of K3 compactifications which is not well known yet. In particular, we inspect the intersection point of the Z{sub 2} and Z{sub 4} orbifold subvarieties within the K3 moduli space, explicitly identify the two corresponding points on the subvarieties geometrically, and give an explicit isomorphism of the three conformal field theory models located at that point, a specific Z{sub 2} and Z{sub 4} orbifold model as well as the Gepner model (2){sup 4}. We also prove the orthogonality of the two subvarieties at the intersection point. This is the starting point for the programme to investigate generic points in K3 moduli space. We use the coordinate identification at the intersection point in order to relate the coordinates of both subvarieties and to explicitly calculate a geometric geodesic between the two subvarieties as well as its generator. A generic point in K3 moduli space can be reached by such a geodesic originating at a known model. We also present advances on the conformal field theoretic side of deformations along such a geodesic using conformal deformation theory. Moreover, we regard a relaxation of conformal field theory to logarithmic conformal field theory. In particular, we study general augmented c{sub p,q} minimal models which generalise the well-known (augmented) c{sub p,1} model series. We calculate logarithmic nullvectors in both types of models. But most importantly, we investigate the low lying Virasoro representation content and fusion algebra of two general augmented c{sub p,q} models, the augmented c{sub 2,3}=0 model as well as the augmented Yang-Lee model at c{sub 2,5}=-22/5. In particular, the true vacuum representation is rather given by a rank 1 indecomposable but not irreducible subrepresentation of a rank 2 representation. We generalise these generic
Conformal field theory between supersymmetry and indecomposable structures
International Nuclear Information System (INIS)
Eberle, H.
2006-07-01
This thesis considers conformal field theory in its supersymmetric extension as well as in its relaxation to logarithmic conformal field theory. This thesis is concerned with the subspace of K3 compactifications which is not well known yet. In particular, we inspect the intersection point of the Z 2 and Z 4 orbifold subvarieties within the K3 moduli space, explicitly identify the two corresponding points on the subvarieties geometrically, and give an explicit isomorphism of the three conformal field theory models located at that point, a specific Z 2 and Z 4 orbifold model as well as the Gepner model (2) 4 . We also prove the orthogonality of the two subvarieties at the intersection point. This is the starting point for the programme to investigate generic points in K3 moduli space. We use the coordinate identification at the intersection point in order to relate the coordinates of both subvarieties and to explicitly calculate a geometric geodesic between the two subvarieties as well as its generator. A generic point in K3 moduli space can be reached by such a geodesic originating at a known model. We also present advances on the conformal field theoretic side of deformations along such a geodesic using conformal deformation theory. Moreover, we regard a relaxation of conformal field theory to logarithmic conformal field theory. In particular, we study general augmented c p,q minimal models which generalise the well-known (augmented) c p,1 model series. We calculate logarithmic nullvectors in both types of models. But most importantly, we investigate the low lying Virasoro representation content and fusion algebra of two general augmented c p,q models, the augmented c 2,3 =0 model as well as the augmented Yang-Lee model at c 2,5 =-22/5. In particular, the true vacuum representation is rather given by a rank 1 indecomposable but not irreducible subrepresentation of a rank 2 representation. We generalise these generic examples to give the representation content and
Fast, clash-free RNA conformational morphing using molecular junctions.
Héliou, Amélie; Budday, Dominik; Fonseca, Rasmus; van den Bedem, Henry
2017-07-15
Non-coding ribonucleic acids (ncRNA) are functional RNA molecules that are not translated into protein. They are extremely dynamic, adopting diverse conformational substates, which enables them to modulate their interaction with a large number of other molecules. The flexibility of ncRNA provides a challenge for probing their complex 3D conformational landscape, both experimentally and computationally. Despite their conformational diversity, ncRNAs mostly preserve their secondary structure throughout the dynamic ensemble. Here we present a kinematics-based procedure to morph an RNA molecule between conformational substates, while avoiding inter-atomic clashes. We represent an RNA as a kinematic linkage, with fixed groups of atoms as rigid bodies and rotatable bonds as degrees of freedom. Our procedure maintains RNA secondary structure by treating hydrogen bonds between base pairs as constraints. The constraints define a lower-dimensional, secondary-structure constraint manifold in conformation space, where motions are largely governed by molecular junctions of unpaired nucleotides. On a large benchmark set, we show that our morphing procedure compares favorably to peer algorithms, and can approach goal conformations to within a low all-atom RMSD by directing fewer than 1% of its atoms. Our results suggest that molecular junctions can modulate 3D structural rearrangements, while secondary structure elements guide large parts of the molecule along the transition to the correct final conformation. The source code, binaries and data are available at https://simtk.org/home/kgs . amelie.heliou@polytechnique.edu or vdbedem@stanford.edu. Supplementary data are available at Bioinformatics online. © The Author (2017). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com
Spin-4 extended conformal algebras
International Nuclear Information System (INIS)
Kakas, A.C.
1988-01-01
We construct spin-4 extended conformal algebras using the second hamiltonian structure of the KdV hierarchy. In the presence of a U(1) current a family of spin-4 algebras exists but the additional requirement that the spin-1 and spin-4 currents commute fixes the algebra uniquely. (orig.)
Defects in conformal field theory
International Nuclear Information System (INIS)
Billò, Marco; Gonçalves, Vasco; Lauria, Edoardo; Meineri, Marco
2016-01-01
We discuss consequences of the breaking of conformal symmetry by a flat or spherical extended operator. We adapt the embedding formalism to the study of correlation functions of symmetric traceless tensors in the presence of the defect. Two-point functions of a bulk and a defect primary are fixed by conformal invariance up to a set of OPE coefficients, and we identify the allowed tensor structures. A correlator of two bulk primaries depends on two cross-ratios, and we study its conformal block decomposition in the case of external scalars. The Casimir equation in the defect channel reduces to a hypergeometric equation, while the bulk channel blocks are recursively determined in the light-cone limit. In the special case of a defect of codimension two, we map the Casimir equation in the bulk channel to the one of a four-point function without defect. Finally, we analyze the contact terms of the stress-tensor with the extended operator, and we deduce constraints on the CFT data. In two dimensions, we relate the displacement operator, which appears among the contact terms, to the reflection coefficient of a conformal interface, and we find unitarity bounds for the latter.
Conformal symmetry and holographic cosmology
Bzowski, A.W.
2013-01-01
This thesis presents a novel approach to cosmology using gauge/gravity duality. Analysis of the implications of conformal invariance in field theories leads to quantitative cosmological predictions which are in agreement with current data. Furthermore, holographic cosmology extends the theory of
Checking behavioral conformance of artifacts
Fahland, D.; Leoni, de M.; Dongen, van B.F.; Aalst, van der W.M.P.
2011-01-01
The usefulness of process models (e.g., for analysis, improvement, or execution) strongly depends on their ability to describe reality. Conformance checking is a technique to validate how good a given process model describes recorded executions of the actual process. Recently, artifacts have been
Conformation analysis of oligomeric flavanoids
Jan P. Steynberg; E. Vincent Brandt; Daneel Ferreira; Carin A. Helfer; Wayne L. Mattice; Dominika Gornik; Richard W. Hemingway
1995-01-01
The profisetinidins are the most important polyflavanoids of commerce, making up the major constituents of wattle and quebracho tannins. Within the dimeric profisetinidins, substantial complexity exists because of stereo-, regio, rotational and conformational isomers. Definition of the stereochemistry of the upper and lower flavan units, the location of the...
Conformational analysis of oligomeric flavanoids
Jan P. Steynberg; E. Vincent Brandt; Daneel Ferreira; Carin A. Helfer; Wayne L. Mattice; Dominika Gornik; Richard W. Hemingway
1995-01-01
The profisetinidins are the most important polyflavanoids of commerce, making up the major constituents of wattle and quebracho tannins. Even within the dimeric profisetinidins, substantial complexity exists because of stereo-, regio-, rotational and conformational isomers. Definition of the stereochemistry of the upper and lower flavan units, the location of the...
Defects in conformal field theory
Energy Technology Data Exchange (ETDEWEB)
Billò, Marco [Dipartimento di Fisica, Università di Torino, and Istituto Nazionale di Fisica Nucleare - sezione di Torino,Via P. Giuria 1 I-10125 Torino (Italy); Gonçalves, Vasco [Centro de Física do Porto,Departamento de Física e Astronomia Faculdade de Ciências da Universidade do Porto, Rua do Campo Alegre 687, 4169-007 Porto (Portugal); ICTP South American Institute for Fundamental Research Instituto de Física Teórica,UNESP - University Estadual Paulista,Rua Dr. Bento T. Ferraz 271, 01140-070, São Paulo, SP (Brazil); Lauria, Edoardo [Institute for Theoretical Physics, KU Leuven, Celestijnenlaan 200D, B-3001 Leuven (Belgium); Meineri, Marco [Perimeter Institute for Theoretical Physics,Waterloo, Ontario, N2L 2Y5 (Canada); Scuola Normale Superiore, and Istituto Nazionale di Fisica Nucleare - sezione di Pisa,Piazza dei Cavalieri 7 I-56126 Pisa (Italy)
2016-04-15
We discuss consequences of the breaking of conformal symmetry by a flat or spherical extended operator. We adapt the embedding formalism to the study of correlation functions of symmetric traceless tensors in the presence of the defect. Two-point functions of a bulk and a defect primary are fixed by conformal invariance up to a set of OPE coefficients, and we identify the allowed tensor structures. A correlator of two bulk primaries depends on two cross-ratios, and we study its conformal block decomposition in the case of external scalars. The Casimir equation in the defect channel reduces to a hypergeometric equation, while the bulk channel blocks are recursively determined in the light-cone limit. In the special case of a defect of codimension two, we map the Casimir equation in the bulk channel to the one of a four-point function without defect. Finally, we analyze the contact terms of the stress-tensor with the extended operator, and we deduce constraints on the CFT data. In two dimensions, we relate the displacement operator, which appears among the contact terms, to the reflection coefficient of a conformal interface, and we find unitarity bounds for the latter.
Conformal symmetry and string theories
International Nuclear Information System (INIS)
Kumar, A.
1987-01-01
This thesis is devoted to the study of various aspects of the 2-dimensional conformal field theory and its applications to strings. We make a short review of the conformal field theory and its supersymmetric extension, called superconformal field theory. We present an elegant superspace formulation of these theories and solve the condition for the closure of the superconformal algebra. The we go on to classify the superconformal field theories according to these solutions. We prove that N ≥ 5 superconformal algebra, with N being the number of supersymmetries, does not have central charge. We find the primary representations of all the interesting superconformal algebra. We study the quantization of the superconformal theories and derive the constraints on the central charge of the algebra that has to be satisfied for a consistent quantum theory. This quantization process also determines the ground state energy of the system and the spectrum of the model. We study the global aspects of the conformal symmetry and its role in the construction of consistent heterotic string theories. We prove the uniqueness of heterotic superstring theories in 10 dimensions in the fermionic constructions. We show how the vertex operators are closely associated with the primary field representation of the conformal algebra. We utilize these vertex operator constructions to obtain tree amplitudes in the 10-dimensional heterotic string theory. We show by explicit calculation at the 3-point level that the scattering amplitudes derived from the heterotic superstring are same as the ones obtained from 10-dimensional supergravity theories
Exceptional and Spinorial Conformal Windows
DEFF Research Database (Denmark)
Mojaza, Matin; Pica, Claudio; Ryttov, Thomas
2012-01-01
We study the conformal window of gauge theories containing fermionic matter fields, where the gauge group is any of the exceptional groups with the fermions transforming according to the fundamental and adjoint representations and the orthogonal groups where the fermions transform according...
Anomalous Dimensions of Conformal Baryons
DEFF Research Database (Denmark)
Pica, Claudio; Sannino, Francesco
2016-01-01
We determine the anomalous dimensions of baryon operators for the three color theory as function of the number of massless flavours within the conformal window to the maximum known order in perturbation theory. We show that the anomalous dimension of the baryon is controllably small, within...
Duality and modular invariance in rational conformal field theories
International Nuclear Information System (INIS)
Li Miao.
1990-03-01
We investigate the polynomial equations which should be satisfied by the duality data for a rational conformal field theory. We show that by these duality data we can construct some vector spaces which are isomorphic to the spaces of conformal blocks. One can construct explicitly the inner product for the former if one deals with a unitary theory. These vector spaces endowed with an inner product are the algebraic reminiscences of the Hilbert spaces in a Chern-Simons theory. As by-products, we show that the polynomial equations involving the modular transformations for the one-point blocks on the torus are not independent. And along the way, we discuss the reconstruction of the quantum group in a rational conformal theory. Finally, we discuss the solution of structure constants for a physical theory. Making some assumption, we obtain a neat solution. And this solution in turn implies that the quantum groups of the left sector and of the right sector must be the same, although the chiral algebras need not to be the same. Some examples are given. (orig.)