Magnetic and axial-vector transitions of the baryon antidecuplet

We report the recent results of the magnetic transitions and axial-vector transitions of the baryon antidecuplet within the framework of the chiral quark-soliton model. The dynamical model parameters are fixed by experimental data for the magnetic moments of the baryon octet, for the hyperon semileptonic decay constants, and for the singlet axial-vector constant. The transition magnetic moments $\mu_{\Lambda\Sigma}$ and $\mu_{N\Delta}$ are well reproduced and other octet-decuplet and octet-antidecuplet transitions are predicted. In particular, the present calculation of $\mu_{\Sigma\Sigma^*}$ is found to be below the upper bound $0.82\mu_N$ that the SELEX collaboration measured very recently. The results explains consistently the recent findings of a new $N^*$ resonance from the GRAAL and Tohoku LNS group. We also obtain the transition axial-vector constants for the $\Theta^+\to KN$ from which the decay width of the $\Theta^{+}$ pentaquark baryon is determined as a function of the pion-nucleon sigma term $\Sigma_{\pi N}$. We investigate the dependence of the decay width of the $\Theta^{+}$ on the $g_{A}^{(0)}$, with the $g_{A}^{(0)}$ varied within the range of the experimental uncertainty. We show that a small decay width of the $\Theta^{+}\to KN$, i.e. $\Gamma_{\Theta KN} \leq 1$ MeV, is compatible with the values of all known semileptonic decays with the generally accepted value of $g_{A}^{(0)} \approx 0.3$ for the proton.Comment: 8 pages, 5 figures, Talk given at the Yukawa International Seminar (YKIS) 2006, "New frontiers in QCD", Kyoto, Japan, 20 Nov. - 8 Dec. 200

Protein Docking by the Underestimation of Free Energy Funnels in the Space of Encounter Complexes

Similarly to protein folding, the association of two proteins is driven by a free energy funnel, determined by favorable interactions in some neighborhood of the native state. We describe a docking method based on stochastic global minimization of funnel-shaped energy functions in the space of rigid body motions (SE(3)) while accounting for flexibility of the interface side chains. The method, called semi-definite programming-based underestimation (SDU), employs a general quadratic function to underestimate a set of local energy minima and uses the resulting underestimator to bias further sampling. While SDU effectively minimizes functions with funnel-shaped basins, its application to docking in the rotational and translational space SE(3) is not straightforward due to the geometry of that space. We introduce a strategy that uses separate independent variables for side-chain optimization, center-to-center distance of the two proteins, and five angular descriptors of the relative orientations of the molecules. The removal of the center-to-center distance turns out to vastly improve the efficiency of the search, because the five-dimensional space now exhibits a well-behaved energy surface suitable for underestimation. This algorithm explores the free energy surface spanned by encounter complexes that correspond to local free energy minima and shows similarity to the model of macromolecular association that proceeds through a series of collisions. Results for standard protein docking benchmarks establish that in this space the free energy landscape is a funnel in a reasonably broad neighborhood of the native state and that the SDU strategy can generate docking predictions with less than 5 � ligand interface Ca root-mean-square deviation while achieving an approximately 20-fold efficiency gain compared to Monte Carlo methods

Subtractive renormalization of the NN scattering amplitude at leading order in chiral effective theory

The leading-order nucleon-nucleon (NN) potential derived from chiral perturbation theory consists of one-pion exchange plus a short-distance contact interaction. We show that in the 1S0 and 3S1-3D1 channels renormalization of the Lippmann-Schwinger equation for this potential can be achieved by performing one subtraction. This subtraction requires as its only input knowledge of the NN scattering lengths. This procedure leads to a set of integral equations for the partial-wave NN t-matrix which give cutoff-independent results for the corresponding NN phase shifts. This reformulation of the NN scattering equation offers practical advantages, because only observable quantities appear in the integral equation. The scattering equation may then be analytically continued to negative energies, where information on bound-state energies and wave functions can be extracted.Comment: 16 pages, 11 figure

Subtractive renormalization of the NN interaction in chiral effective theory up to next-to-next-to-leading order: S waves

We extend our subtractive-renormalization method in order to evaluate the 1S0 and 3S1-3D1 NN scattering phase shifts up to next-to-next-to-leading order (NNLO) in chiral effective theory. We show that, if energy-dependent contact terms are employed in the NN potential, the 1S0 phase shift can be obtained by carrying out two subtractions on the Lippmann-Schwinger equation. These subtractions use knowledge of the the scattering length and the 1S0 phase shift at a specific energy to eliminate the low-energy constants in the contact interaction from the scattering equation. For the J=1 coupled channel, a similar renormalization can be achieved by three subtractions that employ knowledge of the 3S1 scattering length, the 3S1 phase shift at a specific energy and the 3S1-3D1 generalized scattering length. In both channels a similar method can be applied to a potential with momentum-dependent contact terms, except that in that case one of the subtractions must be replaced by a fit to one piece of experimental data. This method allows the use of arbitrarily high cutoffs in the Lippmann-Schwinger equation. We examine the NNLO S-wave phase shifts for cutoffs as large as 5 GeV and show that the presence of linear energy dependence in the NN potential creates spurious poles in the scattering amplitude. In consequence the results are in conflict with empirical data over appreciable portions of the considered cutoff range. We also identify problems with the use of cutoffs greater than 1 GeV when momentum-dependent contact interactions are employed. These problems are ameliorated, but not eliminated, by the use of spectral-function regularization for the two-pion exchange part of the NN potentialComment: 40 pages, 21 figure

Magnetic moments of exotic pentaquark baryons

In this talk, we present our recent investigation on the magnetic moments of the exotic pentaquark states, based on the chiral quark-soliton model, all relevant intrinsic parameters being fixed by using empirical data.Comment: 5 pages, 1 figure, a talk presented at the 10th International Conference on Baryons (Baryons04), Palaiseau, October 25-29, 200

Generalized Pseudopotentials for the Anisotropic Fractional Quantum Hall Effect

We generalize the notion of Haldane pseudopotentials to anisotropic fractional quantum Hall (FQH) systems that are physically realized, e.g., in tilted magnetic field experiments or anisotropic band structures. This formalism allows us to expand any translation-invariant interaction over a complete basis, and directly reveals the intrinsic metric of incompressible FQH fluids. We show that purely anisotropic pseudopotentials give rise to new types of bound states for small particle clusters in the infinite plane, and can be used as a diagnostic of FQH nematic order. We also demonstrate that generalized pseudopotentials quantify the anisotropic contribution to the effective interaction potential, which can be particularly large in models of fractional Chern insulators

Operator entanglement of two-qubit joint unitary operations revisited: Schmidt number approach

Operator entanglement of two-qubit joint unitary operations is revisited. Schmidt number is an important attribute of a two-qubit unitary operation, and may have connection with the entanglement measure of the unitary operator. We found the entanglement measure of two-qubit unitary operators is classified by the Schmidt number of the unitary operators. The exact relation between the operator entanglement and the parameters of the unitary operator is clarified too.Comment: To appear in the Brazilian Journal of Physic

An RNA-Seq bioinformatics pipeline for data processing of Arabidopsis thaliana datasets

Floral transition is a crucial event in the reproductive cycle of a flowering plant during which many genes are expressed that govern the transition phase and regulate the expression and functions of several other genes involved in the process. Identification of additional genes connected to flowering genes is vital since they may regulate flowering genes and vice versa. Through our study, expression values of these additional genes has been found similar to flowering genes FLC and LFY in the transition phase. The presented approach plays a crucial role in this discovery. An RNA-Seq computational pipeline was developed for identification of novel genes involved in floral transition from A. thaliana apical shoot meristem time-series data. By intersecting differentially expressed genes from Cuffdiff, DESeq and edgeR methods, 690 genes were identified. Using FDR cutoff of 0.05, we identified 30 genes involved in glucosinolate and glycosinolate biosynthetic processes as principle regulators in the transition phase which provide protection to plants from herbivores and pathogens during flowering. Additionally, expression profiles of highly connected genes in protein-protein interaction network analysis revealed 76 genes with non-functional association and high correlation to flowering genes FLC and LFY which suggests their potential and principal role in floral regulation not identified previously in any studies