Limited Lifespan of Fragile Regions in Mammalian Evolution

An important question in genome evolution is whether there exist fragile regions (rearrangement hotspots) where chromosomal rearrangements are happening over and over again. Although nearly all recent studies supported the existence of fragile regions in mammalian genomes, the most comprehensive phylogenomic study of mammals (Ma et al. (2006) Genome Research 16, 1557-1565) raised some doubts about their existence. We demonstrate that fragile regions are subject to a "birth and death" process, implying that fragility has limited evolutionary lifespan. This finding implies that fragile regions migrate to different locations in different mammals, explaining why there exist only a few chromosomal breakpoints shared between different lineages. The birth and death of fragile regions phenomenon reinforces the hypothesis that rearrangements are promoted by matching segmental duplications and suggests putative locations of the currently active fragile regions in the human genome

Magnetic fluctuations in 2D metals close to the Stoner instability

We consider the effect of potential disorder on magnetic properties of a two-dimensional metallic system (with conductance $g\gg 1$) when interaction in the triplet channel is so strong that the system is close to the threshold of the Stoner instability. We show, that under these conditions there is an exponentially small probability for the system to form local spin droplets which are local regions with non zero spin density. Using a non-local version of the optimal fluctuation method we find analytically the probability distribution and the typical spin of a local spin droplet (LSD). In particular, we show that both the probability to form a LSD and its typical spin are independent of the size of the droplet (within the exponential accuracy). The LSDs manifest themselves in temperature dependence of observable quantities. We show, that below certain cross-over temperature the paramagnetic susceptibility acquires the Curie-like temperature dependence, while the dephasing time (extracted from magneto-resistance measurements) saturates.Comment: 15 pages, 4 figure

A multilingual SLU system based on semantic decoding of graphs of words

In this paper, we present a statistical approach to Language Understanding that allows to avoid the effort of obtaining new semantic models when changing the language. This way, it is not necessary to acquire and label new training corpora in the new language. Our approach consists of learning all the semantic models in a target language and to do the semantic decoding of the sentences pronounced in the source language after a translation process. In order to deal with the errors and the lack of coverage of the translations, a mechanism to generalize the result of several translators is proposed. The graph of words generated in this phase is the input to the semantic decoding algorithm specifically designed to combine statistical models and graphs of words. Some experiments that show the good behavior of the proposed approach are also presented.Calvo Lance, M.; Hurtado Oliver, LF.; García Granada, F.; Sanchís Arnal, E. (2012). A multilingual SLU system based on semantic decoding of graphs of words. En Advances in Speech and Language Technologies for Iberian Languages. Springer Verlag (Germany). 328:158-167. doi:10.1007/978-3-642-35292-8_17S158167328Hahn, S., Dinarelli, M., Raymond, C., Lefèvre, F., Lehnen, P., De Mori, R., Moschitti, A., Ney, H., Riccardi, G.: Comparing stochastic approaches to spoken language understanding in multiple languages. IEEE Transactions on Audio, Speech, and Language Processing 6(99), 1569–1583 (2010)Raymond, C., Riccardi, G.: Generative and discriminative algorithms for spoken language understanding. In: Proceedings of Interspeech 2007, pp. 1605–1608 (2007)Tur, G., Mori, R.D.: Spoken Language Understanding: Systems for Extracting Semantic Information from Speech, 1st edn. Wiley (2011)Maynard, H.B., Lefèvre, F.: Investigating Stochastic Speech Understanding. In: Proc. of IEEE Automatic Speech Recognition and Understanding Workshop, ASRU (2001)Segarra, E., Sanchis, E., Galiano, M., García, F., Hurtado, L.: Extracting Semantic Information Through Automatic Learning Techniques. IJPRAI 16(3), 301–307 (2002)He, Y., Young, S.: Spoken language understanding using the hidden vector state model. Speech Communication 48, 262–275 (2006)De Mori, R., Bechet, F., Hakkani-Tur, D., McTear, M., Riccardi, G., Tur, G.: Spoken language understanding: A survey. IEEE Signal Processing Magazine 25(3), 50–58 (2008)Hakkani-Tür, D., Béchet, F., Riccardi, G., Tur, G.: Beyond ASR 1-best: Using word confusion networks in spoken language understanding. Computer Speech & Language 20(4), 495–514 (2006)Tur, G., Wright, J., Gorin, A., Riccardi, G., Hakkani-Tür, D.: Improving spoken language understanding using word confusion networks. In: Proceedings of the ICSLP. Citeseer (2002)Tur, G., Hakkani-Tür, D., Schapire, R.E.: Combining active and semi-supervised learning for spoken language understanding. Speech Communication 45, 171–186 (2005)Ortega, L., Galiano, I., Hurtado, L.F., Sanchis, E., Segarra, E.: A statistical segment-based approach for spoken language understanding. In: Proc. of InterSpeech 2010, Makuhari, Chiba, Japan, pp. 1836–1839 (2010)Sim, K.C., Byrne, W.J., Gales, M.J.F., Sahbi, H., Woodland, P.C.: Consensus network decoding for statistical machine translation system combination. In: IEEE Int. Conference on Acoustics, Speech, and Signal Processing (2007)Bangalore, S., Bordel, G., Riccardi, G.: Computing Consensus Translation from Multiple Machine Translation Systems. In: Proceedings of IEEE Automatic Speech Recognition and Understanding Workshop, ASRU 2001, pp. 351–354 (2001)Larkin, M.A., Blackshields, G., Brown, N.P., Chenna, R., McGettigan, P.A., McWilliam, H., Valentin, F., Wallace, I.M., Wilm, A., Lopez, R., Thompson, J.D., Gibson, T.J., Higgins, D.G.: ClustalW and ClustalX version 2.0. Bioinformatics 23(21), 2947–2948 (2007)Benedí, J.M., Lleida, E., Varona, A., Castro, M.J., Galiano, I., Justo, R., López de Letona, I., Miguel, A.: Design and acquisition of a telephone spontaneous speech dialogue corpus in Spanish: DIHANA. In: Proceedings of LREC 2006, Genoa, Italy, pp. 1636–1639 (May 2006

Weak Charge Quantization on Superconducting Islands

We consider the Coulomb blockade on a superconductive quantum dot strongly coupled to a lead through a tunnelling barrier and/or normal diffusive metal. Andreev transport of the correlated pairs leads to quantum fluctuations of the charge on the dot. These fluctuations result in exponential renormalization of the effective charging energy. We employ two complimentary ways to approach the problem, leading to the coinciding results: the instanton and the functional RG treatment of the non-linear sigma model. We also derive the charging energy renormalization in terms of arbitrary transmission matrix of the multi-channel interface.Comment: 21 pages, 4 eps figures, RevTe

Vortex dissipation and level dynamics for the layered superconductors with impurities

We study parametric level statistics of the discretized excitation spectra inside a moving vortex core in layered superconductors with impurities. The universal conductivity is evaluated numerically for the various values of rescaled vortex velocities $\kappa$ from the clean case to the dirty limit case. The random matrix theoretical prediction is verified numerically in the large $\kappa$ regime. On the contrary in the low velocity regime, we observe $\sigma_{xx} \propto \kappa^{2/3}$ which is consistent with the theoretical result for the super-clean case, where the energy dissipation is due to the Landau-Zener transition which takes place at the points called ``avoided crossing''.Comment: 10 pages, 4 figures, REVTeX3.

Quantum Disorder and Quantum Chaos in Andreev Billiards

We investigate the crossover from the semiclassical to the quantum description of electron energy states in a chaotic metal grain connected to a superconductor. We consider the influence of scattering off point impurities (quantum disorder) and of quantum diffraction (quantum chaos) on the electron density of states. We show that both the quantum disorder and the quantum chaos open a gap near the Fermi energy. The size of the gap is determined by the mean free time in disordered systems and by the Ehrenfest time in clean chaotic systems. Particularly, if both times become infinitely large, the density of states is gapless, and if either of these times becomes shorter than the electron escape time, the density of states is described by random matrix theory. Using the Usadel equation, we also study the density of states in a grain connected to a superconductor by a diffusive contact.Comment: 20 pages, 10 figure

Magnetotransport in two-dimensional electron gas at large filling factors

We derive the quantum Boltzmann equation for the two-dimensional electron gas in a magnetic field such that the filling factor $\nu \gg 1$. This equation describes all of the effects of the external fields on the impurity collision integral including Shubnikov-de Haas oscillations, smooth part of the magnetoresistance, and non-linear transport. Furthemore, we obtain quantitative results for the effect of the external microwave radiation on the linear and non-linear $dc$ transport in the system. Our findings are relevant for the description of the oscillating resistivity discovered by Zudov {\em et al.}, zero-resistance state discovered by Mani {\em et al.} and Zudov {\em et al.}, and for the microscopic justification of the model of Andreev {\em et al.}. We also present semiclassical picture for the qualitative consideration of the effects of the applied field on the collision integral.Comment: 28 pages, 19 figures; The discussion of the role of the effect of the microwave field on the distribution function is revised (see also cond-mat/0310668). Accepted in Phys. Rev.

Quantum correction to the Kubo formula in closed mesoscopic systems

We study the energy dissipation rate in a mesoscopic system described by the parametrically-driven random-matrix Hamiltonian H[\phi(t)] for the case of linear bias \phi=vt. Evolution of the field \phi(t) causes interlevel transitions leading to energy pumping, and also smears the discrete spectrum of the Hamiltonian. For sufficiently fast perturbation this smearing exceeds the mean level spacing and the dissipation rate is given by the Kubo formula. We calculate the quantum correction to the Kubo result that reveals the original discreteness of the energy spectrum. The first correction to the system viscosity scales proportional to v^{-2/3} in the orthogonal case and vanishes in the unitary case.Comment: 4 pages, 3 eps figures, REVTeX

Flux-lattice melting in two-dimensional disordered superconductors

The flux line lattice melting transition in two-dimensional pure and disordered superconductors is studied by a Monte Carlo simulation using the lowest Landau level approximation and quasi-periodic boundary condition on a plane. The position of the melting line was determined from the diffraction pattern of the superconducting order parameter. In the clean case we confirmed the results from earlier studies which show the existence of a quasi-long range ordered vortex lattice at low temperatures. Adding frozen disorder to the system the melting transition line is shifted to slightly lower fields. The correlations of the order parameter for translational long range order of the vortex positions seem to decay slightly faster than a power law (in agreement with the theory of Carpentier and Le Doussal) although a simple power law decay cannot be excluded. The corresponding positional glass correlation function decays as a power law establishing the existence of a quasi-long range ordered positional glass formed by the vortices. The correlation function characterizing a phase coherent vortex glass decays however exponentially ruling out the possible existence of a phase coherent vortex glass phase.Comment: 12 pages, 21 figures, final version to appear in Phys. Rev.

The Crystallography of Color Superconductivity

We develop the Ginzburg-Landau approach to comparing different possible crystal structures for the crystalline color superconducting phase of QCD, the QCD incarnation of the Larkin-Ovchinnikov-Fulde-Ferrell phase. In this phase, quarks of different flavor with differing Fermi momenta form Cooper pairs with nonzero total momentum, yielding a condensate that varies in space like a sum of plane waves. We work at zero temperature, as is relevant for compact star physics. The Ginzburg-Landau approach predicts a strong first-order phase transition (as a function of the chemical potential difference between quarks) and for this reason is not under quantitative control. Nevertheless, by organizing the comparison between different possible arrangements of plane waves (i.e. different crystal structures) it provides considerable qualitative insight into what makes a crystal structure favorable. Together, the qualitative insights and the quantitative, but not controlled, calculations make a compelling case that the favored pairing pattern yields a condensate which is a sum of eight plane waves forming a face-centered cubic structure. They also predict that the phase is quite robust, with gaps comparable in magnitude to the BCS gap that would form if the Fermi momenta were degenerate. These predictions may be tested in ultracold gases made of fermionic atoms. In a QCD context, our results lay the foundation for a calculation of vortex pinning in a crystalline color superconductor, and thus for the analysis of pulsar glitches that may originate within the core of a compact star.Comment: 41 pages, 13 figures, 1 tabl