Dissipative Dynamics of Matter Wave Soliton in Nonlinear Optical Lattice

Dynamics and stability of solitons in two-dimensional (2D) Bose-Einstein condensates (BEC), with low-dimensional (1D) conservative plus dissipative nonlinear optical lattices are investigated. In the case of focusing media (with attractive atomic systems) the collapse of the wave packet is arrested by the dissipative periodic nonlinearity. The adiabatic variation of the background scattering length leads to metastable matter-wave solitons. When the atom feeding mechanism is used, a dissipative soliton can exist in focusing 2D media with 1D periodic nonlinearity. In the defocusing media (repulsive BEC case) with harmonic trap in one dimension and one dimensional nonlinear optical lattice in other direction, the stable soliton can exist. This prediction of variational approach is confirmed by the full numerical simulation of 2D Gross-Pitaevskii equation.Comment: 9 pages, 8 figure

Modelling segmental duplications in the human genome

Background: Segmental duplications (SDs) are long DNA sequences that are repeated in a genome and have high sequence identity. In contrast to repetitive elements they are often unique and only sometimes have multiple copies in a genome. There are several well-studied mechanisms responsible for segmental duplications: non-allelic homologous recombination, non-homologous end joining and replication slippage. Such duplications play an important role in evolution, however, we do not have a full understanding of the dynamic properties of the duplication process. Results: We study segmental duplications through a graph representation where nodes represent genomic regions and edges represent duplications between them. The resulting network (the SD network) is quite complex and has distinct features which allow us to make inference on the evolution of segmantal duplications. We come up with the network growth model that explains features of the SD network thus giving us insights on dynamics of segmental duplications in the human genome. Based on our analysis of genomes of other species the network growth model seems to be applicable for multiple mammalian genomes. Conclusions: Our analysis suggests that duplication rates of genomic loci grow linearly with the number of copies of a duplicated region. Several scenarios explaining such a preferential duplication rates were suggested

Adiabatic Compression of Soliton Matter Waves

The evolution of atomic solitary waves in Bose-Einstein condensate (BEC) under adiabatic changes of the atomic scattering length is investigated. The variations of amplitude, width, and velocity of soliton are found for both spatial and time adiabatic variations. The possibility to use these variations to compress solitons up to very high local matter densities is shown both in absence and in presence of a parabolic confining potential.Comment: to appear in J.Phys.

Stable two-dimensional dispersion-managed soliton

The existence of a dispersion-managed soliton in two-dimensional nonlinear Schr\"odinger equation with periodically varying dispersion has been explored. The averaged equations for the soliton width and chirp are obtained which successfully describe the long time evolution of the soliton. The slow dynamics of the soliton around the fixed points for the width and chirp are investigated and the corresponding frequencies are calculated. Analytical predictions are confirmed by direct PDE and ODE simulations. Application to a Bose-Einstein condensate in optical lattice is discussed. The existence of a dispersion-managed matter-wave soliton in such system is shown.Comment: 4 pages, 3 figures, Submitted to Phys. Rev.

Pulse confinement in optical fibers with random dispersion

Short range correlated uniform noise in the dispersion coefficient, inherent in many types of optical fibers, broadens and eventually destroys all initially ultra-short pulses. However, under the constraint that the integral of the random component of the dispersion coefficient is set to zero, or pinned, periodically or quasi-periodically along the fiber, the nature of the pulse propagation changes dramatically. For the case that randomness is added to constant positive dispersion, the pinning restriction significantly reduces pulse broadening. If the randomness is added to piecewise constant periodic dispersion, the pinning may even provide probability distributions of pulse parameters that are numerically indistinguishable from the statistically steady case. The pinning method can be used to both manufacture better fibers and upgrade existing fiber links.Comment: 4 pages, 2 figure

Faraday waves in quasi-one-dimensional superfluid Fermi-Bose mixtures

Generation of Faraday waves in superfluid Fermi-Bose mixtures in elongated traps is investigated. The generation of waves is achieved by periodically changing a parameter of the system in time. Two types of modulations of parameters are considered, first a variation of the fermion-bosons scattering length, and secondly the boson-boson scattering length. We predict the properties of the generated Faraday patterns and study the parameter regions where they can be excited.Comment: Final published versio