Multi-layer model for the web graph

This paper studies stochastic graph models of the WebGraph. We present a new model that describes the WebGraph as an ensemble of different regions generated by independent stochastic processes (in the spirit of a recent paper by Dill et al. [VLDB 2001]). Models such as the Copying Model [17] and Evolving Networks Model [3] are simulated and compared on several relevant measures such as degree and clique distribution

Temperature dependent transient surface photovoltage spectroscopy of a Cu1.95Zn1.1Sn0.96Se4 kesterite single phase powder

An off-stoichiometric but single phase Cu1.95Zn1.1Sn0.96Se4 kesterite powder was investigated by temperature dependent transient surface photovoltage (SPV) spectroscopy. SPV signals excited at different wavelengths were transformed into SPV spectra that depended on the response time of measurement. Shallow electronic states and states with transition energies at 0.83 eV or 0.78… 0.9 eV were distinguished. The temperature dependence of the band gap of Cu1.95Zn1.1Sn0.96Se4 was obtained. Results were discussed on the basis of defects in Cu-poor and Zn-rich kesterite

Real-time monitoring of protein conformational changes using a nano-mechanical sensor.

Proteins can switch between different conformations in response to stimuli, such as pH or temperature variations, or to the binding of ligands. Such plasticity and its kinetics can have a crucial functional role, and their characterization has taken center stage in protein research. As an example, Topoisomerases are particularly interesting enzymes capable of managing tangled and supercoiled double-stranded DNA, thus facilitating many physiological processes. In this work, we describe the use of a cantilever-based nanomotion sensor to characterize the dynamics of human topoisomerase II (Topo II) enzymes and their response to different kinds of ligands, such as ATP, which enhance the conformational dynamics. The sensitivity and time resolution of this sensor allow determining quantitatively the correlation between the ATP concentration and the rate of Topo II conformational changes. Furthermore, we show how to rationalize the experimental results in a comprehensive model that takes into account both the physics of the cantilever and the dynamics of the ATPase cycle of the enzyme, shedding light on the kinetics of the process. Finally, we study the effect of aclarubicin, an anticancer drug, demonstrating that it affects directly the Topo II molecule inhibiting its conformational changes. These results pave the way to a new way of studying the intrinsic dynamics of proteins and of protein complexes allowing new applications ranging from fundamental proteomics to drug discovery and development and possibly to clinical practice

Solvent-induced micelle formation in a hydrophobic interaction model

We investigate the aggregation of amphiphilic molecules by adapting the two-state Muller-Lee-Graziano model for water, in which a solvent-induced hydrophobic interaction is included implicitly. We study the formation of various types of micelle as a function of the distribution of hydrophobic regions at the molecular surface. Successive substitution of non-polar surfaces by polar ones demonstrates the influence of hydrophobicity on the upper and lower critical solution temperatures. Aggregates of lipid molecules, described by a refinement of the model in which a hydrophobic tail of variable length interacts with different numbers of water molecules, are stabilized as the length of the tail increases. We demonstrate that the essential features of micelle formation are primarily solvent-induced, and are explained within a model which focuses only on the alteration of water structure in the vicinity of the hydrophobic surface regions of amphiphiles in solution.Comment: 11 pages, 10 figures; some rearrangement of introduction and discussion sections, streamlining of formalism and general compression; to appear in Phys. Rev.

Two Galaxy Clusters: A3565 and A3560

We report 102 new redshifts and magnitudes for a sample of galaxies to RF ~ 15.5 mag in a 2.17 deg x 2.17 deg region centered on the galaxy IC 4296, the most luminous member of the A3565 cluster. Up to the limiting magnitude we find 29 cluster members, and measure a velocity dispersion of 228 km/s. The estimated total mass for this system is ~ 3.0 x h**-1 10**13 Msun (where h = H0/100 km/s/Mpc), and its dynamical properties are quite typical of poor clusters presenting X-ray emission. We also find that galaxies with absorption lines are more concentrated towards the center of the cluster, while systems with emission lines are mainly located in the outer parts. The small velocity dispersion of the cluster, coupled to the known presence of an interacting pair of galaxies, and the large extent of the brightest cluster galaxy, could indicate that galaxy formation through mergers may still be underway in this system. The surveyed region also contains galaxies belonging to the Shapley Concentration cluster A3560. Within 30 arc min of the cluster center, we detect 32 galaxies, for which we measure a velocity dispersion of 588 km/s and a mass of ~2 x h**-1 10**14 Msun. However, because our sample is restricted to galaxies brighter than M*, these values should be considered only as rough estimates.Comment: 33 pages, including 6 tables and 9 postscript figures. Uses AAS Latex macros. Postscript file and ASCII versions of Tables 4 and 6 are available at http://www.dan.on.br/other_surveys/a3565.html. Scheduled for September 1999 issue of The Astronomical Journa

Scale-free random branching tree in supercritical phase

We study the size and the lifetime distributions of scale-free random branching tree in which $k$ branches are generated from a node at each time step with probability $q_k\sim k^{-\gamma}$. In particular, we focus on finite-size trees in a supercritical phase, where the mean branching number $C=\sum_k k q_k$ is larger than 1. The tree-size distribution $p(s)$ exhibits a crossover behavior when $2 < \gamma < 3$; A characteristic tree size $s_c$ exists such that for $s \ll s_c$, $p(s)\sim s^{-\gamma/(\gamma-1)}$ and for $s \gg s_c$, $p(s)\sim s^{-3/2}\exp(-s/s_c)$, where $s_c$ scales as $\sim (C-1)^{-(\gamma-1)/(\gamma-2)}$. For $\gamma > 3$, it follows the conventional mean-field solution, $p(s)\sim s^{-3/2}\exp(-s/s_c)$ with $s_c\sim (C-1)^{-2}$. The lifetime distribution is also derived. It behaves as $\ell(t)\sim t^{-(\gamma-1)/(\gamma-2)}$ for $2 < \gamma < 3$, and $\sim t^{-2}$ for $\gamma > 3$ when branching step $t \ll t_c \sim (C-1)^{-1}$, and $\ell(t)\sim \exp(-t/t_c)$ for all $\gamma > 2$ when $t \gg t_c$. The analytic solutions are corroborated by numerical results.Comment: 6 pages, 6 figure

Semiclassical Evolution of Dissipative Markovian Systems

A semiclassical approximation for an evolving density operator, driven by a "closed" hamiltonian operator and "open" markovian Lindblad operators, is obtained. The theory is based on the chord function, i.e. the Fourier transform of the Wigner function. It reduces to an exact solution of the Lindblad master equation if the hamiltonian operator is a quadratic function and the Lindblad operators are linear functions of positions and momenta. Initially, the semiclassical formulae for the case of hermitian Lindblad operators are reinterpreted in terms of a (real) double phase space, generated by an appropriate classical double Hamiltonian. An extra "open" term is added to the double Hamiltonian by the non-hermitian part of the Lindblad operators in the general case of dissipative markovian evolution. The particular case of generic hamiltonian operators, but linear dissipative Lindblad operators, is studied in more detail. A Liouville-type equivariance still holds for the corresponding classical evolution in double phase, but the centre subspace, which supports the Wigner function, is compressed, along with expansion of its conjugate subspace, which supports the chord function. Decoherence narrows the relevant region of double phase space to the neighborhood of a caustic for both the Wigner function and the chord function. This difficulty is avoided by a propagator in a mixed representation, so that a further "small-chord" approximation leads to a simple generalization of the quadratic theory for evolving Wigner functions.Comment: 33 pages - accepted to J. Phys.

Identification of a surrogate to validate irradiation processing of selected spices

Onion powder and talc were inoculated with one of three groups of Salmonella enterica or a putative surrogate, Enterococcus faecium NRRL B-2354, and the radiation sensitivity of S. enterica was compared to E. faecium. For both inoculated onion powder and inoculated talc, D10-values were greater for E. faecium than any of the three groups of S. enterica. The survival of E. faecium in irradiated talc was used to estimate the potential survival of S. enterica in irradiated spices. Onion powder, dried oregano, whole cumin seeds or peppercorns were mixed with talc inoculated with either S. enterica (previously associated with a foodborne disease outbreak) or E. faecium and irradiated. The D10-values were calculated for each bacterial group and compared between E. faecium and S. enterica within each spice. For each spice, the D10-value for E. faecium was either not statistically different from (P \u3c 0.05) S. entericaor greater than that of S. enterica (onion powder). Quadratic and linear models were developed to allow the estimation of potential surviving populations, and potential decimal reductions of S. enterica, based on surviving populations and decimal reductions determined with E. faecium. The use of E. faecium and these mathematical models would allow a processor to validate an irradiation process by estimating the reduction in S. enterica, based on the population reductions of E. faecium

Thermodynamical limit of general gl(N) spin chains: vacuum state and densities

We study the vacuum state of spin chains where each site carry an arbitrary representation. We prove that the string hypothesis, usually used to solve the Bethe ansatz equations, is valid for representations characterized by rectangular Young tableaux. In these cases, we obtain the density of the center of the strings for the vacuum. We work out different examples and, in particular, the spin chains with periodic array of impurities.Comment: Latex file, 27 pages, 5 figures (.eps) A more detailed study of the representations allowing string hypothesis has added. A simpler formula for the densities is given. References added and misprint correcte