Highly Scalable Algorithms for Robust String Barcoding

String barcoding is a recently introduced technique for genomic-based identification of microorganisms. In this paper we describe the engineering of highly scalable algorithms for robust string barcoding. Our methods enable distinguisher selection based on whole genomic sequences of hundreds of microorganisms of up to bacterial size on a well-equipped workstation, and can be easily parallelized to further extend the applicability range to thousands of bacterial size genomes. Experimental results on both randomly generated and NCBI genomic data show that whole-genome based selection results in a number of distinguishers nearly matching the information theoretic lower bounds for the problem

Heating and Cooling of Hot Accretion Flows by Non Local Radiation

We consider non-local effects which arise when radiation emitted at one radius of an accretion disk either heats or cools gas at other radii through Compton scattering. We discuss three situations: 1. Radiation from the inner regions of an advection-dominated flow Compton cooling gas at intermediate radii and Compton heating gas at large radii. 2. Soft radiation from an outer thin accretion disk Compton cooling a hot one- or two-temperature flow on the inside. 3. Soft radiation from an inner thin accretion disk Compton cooling hot gas in a surrounding one-temperature flow. We describe how previous results are modified by these non-local interactions. We find that Compton heating or cooling of the gas by the radiation emitted in the inner regions of a hot flow is not important. Likewise, Compton cooling by the soft photons from an outer thin disk is negligible when the transition from a cold to a hot flow occurs at a radius greater than some minimum $R_{tr,min}$. However, if the hot flow terminates at $R < R_{tr,min}$, non-local cooling is so strong that the hot gas is cooled to a thin disk configuration in a runaway process. In the case of a thin disk surrounded by a hot one-temperature flow, we find that Compton cooling by soft radiation dominates over local cooling in the hot gas for \dot{M} \gsim 10^{-3} \alpha \dot{M}_{Edd}, and R \lsim 10^4 R_{Schw}. As a result, the maximum accretion rate for which an advection-dominated one-temperature solution exists, decreases by a factor of $\sim 10$, compared to the value computed under an assumption of local energy balance.Comment: LaTeX aaspp.sty, 25 pages, and 6 figures; to appear in Ap

Осмысление особенности мышления психотического субъекта через понимание стратегии формирования мышления у ребенка

The article rises up a question about opportunity of understanding the peculiarities of thinking of a psychotic subject through an understanding of the strategy of thinking in a child relying on a psychodynamic approach (J. Lacan, Z. Freud) on the one hand, and the sociocultural approach (L.S. Vygotsky) on the other hand. Considering the differences in speech of an adult subject that based on abstract concepts and a child whose thinking has the character of pseudoconcepts, the authors came to the conclusion that such a feature of the child's thinking is related to the thinking of the psychotic subject, where, through the process of participation psychotic combines several different concepts on the basis of a primitive link as identical to each other. Therefore, we can say that the basis of thinking of both the child and the psychotic subject is common at the point where complex thinking is born, thanks to which the psychotic reduces words to the level of the thing.В статье поднимается вопрос возможности осмысления особенности мышления психотического субъекта через понимание стратегии формирования мышления у ребенка с опорой на психодинамический подход (Ж. Лакан, З. Фрейд) с одной стороны, и социокультурный подход (Л.С. Выготский) с другой стороны. Рассматривая различия речи взрослого субъекта, основанного на абстрактных понятиях и ребенка, мышление которого носит характер псевдопонятий, авторы приходят к заключению, что такая особенность мышления ребенка роднит его с мышлением психотического субъекта, где через процесс партиципации психотик объединяет на основе примитивной связи несколько разных понятий как тождественных друг другу. Таким образом, можно говорить о том, что основа мышления как ребенка, так и психотического субъекта оказывается общей в той точке, где рождается комплексное мышление, благодаря чему психотик сводит слова до уровня вещи

From discrete to continuum models of three-dimensional deformations in epithelial sheets

International audienceEpithelial tissue, in which cells adhere tightly to each other and to theunderlying substrate, is one of the four major tissue types in adultorganisms. In embryos, epithelial sheets serve as versatile substratesduring the formation of developing organs. Some aspects of epithelialmorphogenesis can be adequately described using vertex models, in which thetwo-dimensional arrangement of epithelial cells is approximated by apolygonal lattice with an energy that has contributions reflecting theproperties of individual cells and their interactions. Previous studieswith such models have largely focused on dynamics confined to two spatialdimensions and analyzed them numerically. We show how these models can beextended to account for three-dimensional deformations and studiedanalytically. Starting from the extended model, we derive a continuumplate description of cell sheets, in which the effective tissue properties,such as bending rigidity, are related explicitly to the parameters of thevertex model. To derive the continuum plate model, we duly take intoaccount a microscopic shift between the two sublattices of the hexagonalnetwork, which has been ignored in previous work. As an application of thecontinuum model, we analyze tissue buckling by a line tension applied alonga circular contour, a simplified set-up relevant to several situations inthe developmental context. The buckling thresholds predicted by thecontinuum description are in good agreement with the results of directstability calculations based on the vertex model. Our results establish adirect connection between discrete and continuum descriptions of cellsheets and can be used to probe a wide range of morphogenetic processes inepithelial tissues

Disks Surviving the Radiation Pressure of Radio Pulsars

The radiation pressure of a radio pulsar does not necessarily disrupt a surrounding disk. The position of the inner radius of a thin disk around a neutron star can be estimated by comparing the electromagnetic energy density generated by the neutron star with the kinetic energy density of the disk. Inside the light cylinder, the near zone electromagnetic field is essentially the dipole magnetic field, and the inner radius is the conventional Alfven radius. Far outside the light cylinder, in the radiation zone, $E=B$ and the electromagnetic energy density is $/c \propto 1/r^2$ where $S$ is the Poynting vector. Shvartsman (1970) argued that a stable equilibrium can not be found in the radiative zone because the electromagnetic energy density dominates over the kinetic energy density, with the relative strength of the electromagnetic stresses increasing with radius. In order to check whether this is true also near the light cylinder, we employ global electromagnetic field solutions for rotating oblique magnetic dipoles (Deutsch 1955). Near the light cylinder the electromagnetic energy density increases steeply enough with decreasing $r$ to balance the kinetic energy density at a stable equilibrium. The transition from the near zone to the radiation zone is broad. The radiation pressure of the pulsar can not disrupt the disk for values of the inner radius up to about twice the light cylinder radius if the rotation axis and the magnetic axis are orthogonal. This allowed range beyond the light cylinder extends much further for small inclination angles. We discuss implications of this result for accretion driven millisecond pulsars and young neutron stars with fallback disks.Comment: Accepted by Astrophysical Journal, final version with a minor correctio

Effect of Distributed Photovoltaic Generation on the Voltage Magnitude in a Self-Contained Power Supply System

A promising way to increase the technical and economic characteristics of standalone power supply systems is to incorporate renewable energy installations in their structure. This saves fuel and extends the operational life of diesel power stations. The most common option is a hybrid system with photovoltaic power stations incorporated into the local network of the diesel power station. This paper deals with the dependence of the deflection voltage and power losses in the electric power transmission line on the graphs of electrical loads, the parameters of elements of the power supply system, connection points and the capacity of distributed photovoltaic power stations. Research has been carried out on the common low-voltage power supply systems of the radial type (0.4 kV) with an installed capacity of up to 100 kW. The studies have been conducted by simulating the operating modes of hybrid power systems of various configurations. As a result of these studies recommendations to reduce losses and voltage variations in the network by selecting the power and photovoltaic power connection points have been put forward

Trans-sonic propeller stage

We follow the approach used by Davies and Pringle (1981) and discuss the trans-sonic substage of the propeller regime. This substage is intermediate between the supersonic and subsonic propeller substages. In the trans-sonic regime an envelope around a magnetosphere of a neutron star passes through a kind of a reorganization process. The envelope in this regime consists of two parts. In the bottom one turbulent motions are subsonic. Then at some distance $r_\mathrm{s}$ the turbulent velocity becomes equal to the sound velocity. During this substage the boundary $r_\mathrm{s}$ propagates outwards till it reaches the outer boundary, and so the subsonic regime starts. We found that the trans-sonic substage is unstable, so the transition between supersonic and subsonic substages proceeds on the dynamical time scale. For realistic parameters this time is in the range from weeks to years.Comment: 8 pages with figures, submitted to Astron. Astroph. Transaction

Adaptive Method for the Experimental Detection of Instabilities

Motivated by numerical bifurcation detection, we present a methodology for the direct location of bifurcation points in nonlinear dynamic laboratory experiments. The procedure involves active, adaptive use of the bifurcation parameter(s) as control variable(s), coupled with the on-line identification of low-order nonlinear dynamic models from experimental time-series data. Application of the procedure to such “hard” transitions as saddle-node and subcritical Hopf bifurcations is demonstrated through simulated experiments of lumped as well as spatially distributed systems

Maximum Mass-Radius Ratios for Charged Compact General Relativistic Objects

Upper limits for the mass-radius ratio and total charge are derived for stable charged general relativistic matter distributions. For charged compact objects the mass-radius ratio exceeds the value 4/9 corresponding to neutral stars. General restrictions for the redshift and total energy (including the gravitational contribution) are also obtained.Comment: 6 pages, 2 figures, RevTex. To appear in Europhys. Let