Soliton Resonances for MKP-II

Using the second flow - the Derivative Reaction-Diffusion system, and the third one of the dissipative SL(2,R) Kaup-Newell hierarchy, we show that the product of two functions, satisfying those systems is a solution of the modified Kadomtsev-Petviashvili equation in 2+1 dimension with negative dispersion (MKP-II). We construct Hirota's bilinear representation for both flows and combine them together as the bilinear system for MKP-II. Using this bilinear form we find one and two soliton solutions for the MKP-II. For special values of parameters our solution shows resonance behaviour with creation of four virtual solitons. Our approach allows one to interpret the resonance soliton as a composite object of two dissipative solitons in 1+1 dimensions.Comment: 11 pages, 2 figures, Talk on International Conference "Nonlinear Physics. Theory and Experiment. III", 24 June-3 July, 2004, Gallipoli(Lecce), Ital

RnaseIII and T4 Polynucleotide Kinase Sequence Biases and Solutions During RNA-Seq Library Construction

Background: RNA-seq is a next generation sequencing method with a wide range of applications including single nucleotide polymorphism (SNP) detection, splice junction identification, and gene expression level measurement. However, the RNA-seq sequence data can be biased during library constructions resulting in incorrect data for SNP, splice junction, and gene expression studies. Here, we developed new library preparation methods to limit such biases. Results: A whole transcriptome library prepared for the SOLiD system displayed numerous read duplications (pile-ups) and gaps in known exons. The pile-ups and gaps of the whole transcriptome library caused a loss of SNP and splice junction information and reduced the quality of gene expression results. Further, we found clear sequence biases for both 5' and 3' end reads in the whole transcriptome library. To remove this bias, RNaseIII fragmentation was replaced with heat fragmentation. For adaptor ligation, T4 Polynucleotide Kinase (T4PNK) was used following heat fragmentation. However, its kinase and phosphatase activities introduced additional sequence biases. To minimize them, we used OptiKinase before T4PNK. Our study further revealed the specific target sequences of RNaseIII and T4PNK. Conclusions: Our results suggest that the heat fragmentation removed the RNaseIII sequence bias and significantly reduced the pile-ups and gaps. OptiKinase minimized the T4PNK sequence biases and removed most of the remaining pile-ups and gaps, thus maximizing the quality of RNA-seq data.National Institute on Alcohol Abuse and Alcoholism (NIAAA) AA12404, AA019382, AA020926, AA016648National Institutes of Health (NIH) R01 GM088344Waggoner Center for Alcohol and Addiction Researc

Prediction of force coefficients for labyrinth seals

The development of a linear model for the prediction of labyrinth seal forces and on its comparison to available stiffness data is presented. A discussion of the relevance of fluid damping forces and the preliminary stages of a program to obtain data on these forces are examined. Fluid-dynamic forces arising from nonuniform pressure patterns in labyrinth seal glands are known to be potentially destablizing in high power turbomachinery. A well documented case in point is that of the space Shuttle Main Engine turbopumps. Seal forces are also an important factor for the stability of shrouded turbines, acting in that case in conjunction with the effects of blade-tip clearance variations

DLCQ of Fivebranes, Large N Screening, and L^2 Harmonic Forms on Calabi Manifolds

We find one explicit L^2 harmonic form for every Calabi manifold. Calabi manifolds are known to arise in low energy dynamics of solitons in Yang-Mills theories, and the L^2 harmonic form corresponds to the supersymmetric ground state. As the normalizable ground state of a single U(N) instanton, it is related to the bound state of a single D0 to multiple coincident D4's in the non-commutative setting, or equivalently a unit Kaluza-Klein mode in DLCQ of fivebrane worldvolume theory. As the ground state of nonabelian massless monopoles realized around a monopole-``anti''-monopole pair, it shows how the long range force between the pair is screened in a manner reminiscent of large N behavior of quark-anti-quark potential found in AdS/CFT correspondence.Comment: LaTeX, 23 page

Three-dimensional MgB2_{2}-type superconductivity in hole-doped diamond

We substantiate by calculations that the recently discovered superconductivity below 4 K in 3% boron-doped diamond is caused by electron-phonon coupling of the same type as in MgB$_2$, albeit in 3 dimensions. Holes at the top of the zone-centered, degenerate $\sigma$-bonding valence band couple strongly to the optical bond-stretching modes. The increase from 2 to 3 dimensions reduces the mode-softening crucial for $T_{c}$ reaching 40 K in MgB$_{2}.$ Even if diamond had the same \emph{bare} coupling constant as MgB$_{2},$ which could be achieved with 10% doping, $T_{c}$ would only be 25 K. Superconductivity above 1 K in Si (Ge) requires hole-doping beyond 5% (10%).Comment: revised version, accepted by PR

Reconstructing Three-dimensional Structure of Underlying Triaxial Dark Halos From Xray and Sunyaev-Zel'dovich Effect Observations of Galaxy Clusters

While the use of galaxy clusters as {\it tools} to probe cosmology is established, their conventional description still relies on the spherical and/or isothermal models that were proposed more than 20 years ago. We present, instead, a deprojection method to extract their intrinsic properties from X-ray and Sunyaev--Zel'dovich effect observations in order to improve our understanding of cluster physics. First we develop a theoretical model for the intra-cluster gas in hydrostatic equilibrium in a triaxial dark matter halo with a constant axis ratio. In this theoretical model, the gas density profiles are expressed in terms of the intrinsic properties of the dark matter halos. Then, we incorporate the projection effect into the gas profiles, and show that the gas surface brightness profiles are expressed in terms of the eccentricities and the orientation angles of the dark halos. For the practical purpose of our theoretical model, we provide several empirical fitting formulae for the gas density and temperature profiles, and also for the surface brightness profiles relevant to X-ray and Sunyaev--Zel'dovich effect observations. Finally, we construct a numerical algorithm to determine the halo eccentricities and orientation angles using our model, and demonstrate that it is possible in principle to reconstruct the 3D structures of the dark halos from the X-ray and/or Sunyaev-Zel'dovich effect cluster data alone without requiring priors such as weak lensing informations and without relying on such restrictive assumptions as the halo axial symmetry about the line-of-sight.Comment: Accepted version, new discussions added, typos and minor mistakes corrected, ApJ in press (2004, Feb. 1 scheduled, Vol. 601, No. 2 issue),26 pages, 7 postscript figure

Theory of Ostwald ripening in a two-component system

When a two-component system is cooled below the minimum temperature for its stability, it separates into two or more immiscible phases. The initial nucleation produces grains (if solid) or droplets (if liquid) of one of the phases dispersed in the other. The dynamics by which these nuclei proceed toward equilibrium is called Ostwald ripening. The dynamics of growth of the droplets depends upon the following factors: (1) The solubility of the droplet depends upon its radius and the interfacial energy between it and the surrounding (continuous) phase. There is a critical radius determined by the supersaturation in the continuous phase. Droplets with radii smaller than critical dissolve, while droplets with radii larger grow. (2) The droplets concentrate one component and reject the other. The rate at which this occurs is assumed to be determined by the interdiffusion of the two components in the continuous phase. (3) The Ostwald ripening is constrained by conservation of mass; e.g., the amount of materials in the droplet phase plus the remaining supersaturation in the continuous phase must equal the supersaturation available at the start. (4) There is a distribution of droplet sizes associated with a mean droplet radius, which grows continuously with time. This distribution function satisfies a continuity equation, which is solved asymptotically by a similarity transformation method

Measurement of spontaneous emission from a two-dimensional photonic band gap defined microcavity at near-infrared wavelengths

An active, photonic band gap-based microcavity emitter in the near infrared is demonstrated. We present direct measurement of the spontaneous emission power and spectrum from a microcavity formed using a two-dimensional photonic band gap structure in a half wavelength thick slab waveguide. The appearance of cavity resonance peaks in the spectrum correspond to the photonic band gap energy. For detuned band gaps, no resonances are observed. For devices with correctly tuned band gaps, a two-time enhancement of the extraction efficiency was demonstrated compared to detuned band gaps and unpatterned material

Photonic bandgap disk laser

A two-dimensional photonic crystal defined hexagonal disk laser which relies on Bragg reflection rather than the total internal reflection as in traditional microdisk lasers is described. The devices are fabricated using a selective etch to form free standing membranes suspended in air. Room temperature lasing at 1650nm for a 150nm thick, ~15μm wide cavity fabricated in InP/GaAsP is demonstrated with pulsed optical pumping

Half Semimetallic Antiferromagnetism in the Sr2_2CrTO6_6 System, T=Os, Ru

Double perovskite Sr$_2$CrOsO$_6$ is (or is very close to) a realization of a spin-asymmetric semimetallic compensated ferrimagnet, according to first principles calculations. This type of near-half metallic antiferromagnet is an unusual occurrence, and more so in this compound because the zero gap is accidental rather than being symmetry determined. The large spin-orbit coupling (SOC) of osmium upsets the spin balance (no net spin moment without SOC): it reduces the Os spin moment by 0.27 $\mu_B$ and induces an Os orbital moment of 0.17 $\mu_B$ in the opposite direction. The effects combine (with small oxygen contributions) to give a net total moment of 0.54 $\mu_B$ per cell in \scoo, reflecting a large impact of SOC in this compound. This value is in moderately good agreement with the measured saturation moment of 0.75 $\mu_B$. The value of the net moment on the Os ion obtained from neutron diffraction (0.73 $\mu_B$ at low temperature) differs from the calculated value (1.14 $\mu_B$). Rather surprisingly, in isovalent Sr$_2$CrRuO$_6$ the smaller SOC-induced spin changes and orbital moments (mostly on Ru) almost exactly cancel. This makes Sr$_2$CrRuO$_6$ a "half (semi)metallic antiferromagnet" (practically vanishing net total moment) even when SOC is included, with the metallic channel being a small-band-overlap semimetal. Fixed spin moment (FSM) calculations are presented for each compound, illustrating how they provide different information than in the case of a nonmagnetic material. These FSM results indicate that the Cr moment is an order of magnitude stiffer against longitudinal fluctuations than is the Os moment.Comment: 6 page