Spectral analysis of a class of hermitian Jacobi matrices in a critical (double root) hyperbolic case

We consider a class of Jacobi matrices with periodically modulated diagonal in a critical hyperbolic ("double root") situation. For the model with "non-smooth" matrix entries we obtain the asymptotics of generalized eigenvectors and analyze the spectrum. In addition, we reformulate a very helpful theorem from a paper of Janas and Moszynski in its full generality in order to serve the needs of our method

Genome-Wide Mycobacterium tuberculosis Variation (GMTV) Database: A New Tool for Integrating Sequence Variations and Epidemiology

Background Tuberculosis (TB) poses a worldwide threat due to advancing multidrug-resistant strains and deadly co-infections with Human immunodeficiency virus. Today large amounts of Mycobacterium tuberculosis whole genome sequencing data are being assessed broadly and yet there exists no comprehensive online resource that connects M. tuberculosis genome variants with geographic origin, with drug resistance or with clinical outcome. Description Here we describe a broadly inclusive unifying Genome-wide Mycobacterium tuberculosis Variation (GMTV) database, (http://mtb.dobzhanskycenter.org) that catalogues genome variations of M. tuberculosis strains collected across Russia. GMTV contains a broad spectrum of data derived from different sources and related to M. tuberculosis molecular biology, epidemiology, TB clinical outcome, year and place of isolation, drug resistance profiles and displays the variants across the genome using a dedicated genome browser. GMTV database, which includes 1084 genomes and over 69,000 SNP or Indel variants, can be queried about M. tuberculosis genome variation and putative associations with drug resistance, geographical origin, and clinical stages and outcomes. Conclusions Implementation of GMTV tracks the pattern of changes of M. tuberculosis strains in different geographical areas, facilitates disease gene discoveries associated with drug resistance or different clinical sequelae, and automates comparative genomic analyses among M. tuberculosis strains

Genome-wide sequence analyses of ethnic populations across Russia

The Russian Federation is the largest and one of the most ethnically diverse countries in the world, however no centralized reference database of genetic variation exists to date. Such data are crucial for medical genetics and essential for studying population history. The Genome Russia Project aims at filling this gap by performing whole genome sequencing and analysis of peoples of the Russian Federation. Here we report the characterization of genome-wide variation of 264 healthy adults, including 60 newly sequenced samples. People of Russia carry known and novel genetic variants of adaptive, clinical and functional consequence that in many cases show allele frequency divergence from neighboring populations. Population genetics analyses revealed six phylogeographic partitions among indigenous ethnicities corresponding to their geographic locales. This study presents a characterization of population-specific genomic variation in Russia with results important for medical genetics and for understanding the dynamic population history of the world's largest country

Zeroes of the spectral density of the periodic Schrödinger operator with Wigner–von Neumann potential

We consider the Schrödinger operator ? on the half-line with a periodic background potential and the Wigner–von Neumann potential of Coulomb type: csin(2?x + ?)/(x + 1). It is known that the continuous spectrum of the operator ? has the same band-gap structure as the free periodic operator, whereas in each band of the absolutely continuous spectrum there exist two points (so-called critical or resonance) where the operator ? has a subordinate solution, which can be either an eigenvalue or a “half-bound” state. The phenomenon of an embedded eigenvalue is unstable under the change of the boundary condition as well as under the local change of the potential, in other words, it is not generic. We prove that in the general case the spectral density of the operator ? has power-like zeroes at critical points (i.e., the absolutely continuous spectrum has pseudogaps). This phenomenon is stable in the above-mentioned sense

Browser for a Genome

(translated from Russian) In the article describe opportunities give to researchers by a computer tools called Genome browsers. The tools implement visualization of genome sequences and genetic elements inside genome. An observe of approaches for a set of genome browsers includes. A open source tool – Gbrowse is describe as an example. Detail description of an opportunities and short instruction to use includes as well as a link to web page for support the article

Annotated features of domestic cat – Felis catus genome

Background. Domestic cats enjoy an extensive veterinary medical surveillance which has described nearly 250 genetic diseases analogous to human disorders. Feline infectious agents offer powerful natural models of deadly human diseases, which include feline immunodeficiency virus, feline sarcoma virus and feline leukemia virus. A rich veterinary literature of feline disease pathogenesis and the demonstration of a highly conserved ancestral mammal genome organization make the cat genome annotation a highly informative resource that facilitates multifaceted research endeavors./nFindings. Here we report a preliminary annotation of the whole genome sequence of Cinnamon, a domestic cat living in Columbia (MO, USA), bisulfite sequencing of Boris, a male cat from St. Petersburg (Russia), and light 30× sequencing of Sylvester, a European wildcat progenitor of cat domestication. The annotation includes 21,865 protein-coding genes identified by a comparative approach, 217 loci of endogenous retrovirus-like elements, repetitive elements which comprise about 55.7% of the whole genome, 99,494 new SNVs, 8,355 new indels, 743,326 evolutionary constrained elements, and 3,182 microRNA homologues. The methylation sites study shows that 10.5% of cat genome cytosines are methylated. An assisted assembly of a European wildcat, Felis silvestris silvestris, was performed; variants between F. silvestris and F. catus genomes were derived and compared to F. catus./nConclusions. The presented genome annotation extends beyond earlier ones by closing gaps of sequence that were unavoidable with previous low-coverage shotgun genome sequencing. The assembly and its annotation offer an important resource for connecting the rich veterinary and natural history of cats to genome discovery.This work was supported, in part, by Russian Ministry of Science Mega-grant no.11.G34.31.0068; Stephen J. O’Brien, Principal Investigator and ERC Starting Grant (260372) and MICINN (Spain) BFU2011-28549 grants to Tomas Marques-Bonet