Maximum Parsimony Phylogenetic Inference Using Simulated Annealing

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A Bottom-Up Implementation of Path-Relinking for Phylogenetic Reconstruction Applied to Maximum Parsimony

In this article we describe a bottom-up implementation of Path-Relinking for Phylogenetic Trees in the context of the resolution of the Maximum Parsimony problem with Fitch optimality criterion. This bottom-up implementation is compared to two versions of an existing top-down implementation. We show that our implementation is more efficient, more interesting to compare trees and to give an estimation of the distance between two trees in terms of the number of transformation

Investigation into the effect of Si doping on the performance of SrFeO3-δ SOFC electrode materials

In this paper we report the successful incorporation of silicon into SrFeO3-δ perovskite materials for potential applications as electrode materials for solid oxide fuel cells. It is observed that Si doping leads to a change from a tetragonal cell (with partial ordering of oxygen vacancies) to a cubic one (with the oxygen vacancies disordered). Annealing experiments in 5% H2/95% N2 (up to 800 °C) also showed the stabilization of the cubic form for the Si-doped samples under reducing conditions, suggesting that they may be suitable for both cathode and anode applications. In contrast to the cubic cell of the reduced Si doped system, reduction of undoped SrFeO3-δ leads to the formation of a brownmillerite structure with ordered oxide ion vacancies. SrFe 0.90Si0.10O3-δ and SrFe 0.85Si0.15O3-δ were analysed by neutron powder diffraction, and the data confirmed the cubic cell, with no long range oxygen vacancy ordering. Mössbauer spectroscopy data were also recorded for SrFe0.90Si0.10O3-δ, and indicated the presence of only Fe3+ and Fe5+ (i.e. disproportionation of Fe4+ to Fe3+ and Fe5+) for such doped samples. Conductivity measurements showed an improvement in the conductivity on Si doping. Composite electrodes with 50% Ce0.9Gd0.1O 1.95 were therefore examined on dense Ce0.9Gd 0.1O1.95 pellets in two different atmospheres: air and 5% H2/95% N2. In both atmospheres an improvement in the area specific resistance (ASR) values is observed for the Si-doped samples. Thus the results show that silicon can be incorporated into SrFeO3-δ- based materials and can have a beneficial effect on the performance, making them potentially suitable for use as cathode and anode materials in symmetrical SOFCs. © 2013 The Royal Society of Chemistry.Peer Reviewe

A unified approach to nuclei : the BPS Skyrme Model.

We present a concrete model of a low energy effective field theory of QCD, the well-known Skyrme Model. Specifically, we will work with the BPS submodel in order to describe the binding energies of nuclei. This BPS Skyrme model is characterized by having a saturated bound for the energy proportional to the baryon number of the nuclei. After presenting this classical result, we will proceed with a semi-classical quantization of the coordinates of spin and isospin. Then, with the further inclusion of the Coulomb interaction as well as a small explicit breaking of the isospin symmetry, we finally calculate the binding energies of nuclei, where an excellent agreement has been found for the nuclei with high baryon number. Besides this, we also apply this model to the study of some thermodynamic properties and to neutron stars

Structure of a large social network

We study a social network consisting of over $10^4$ individuals, with a degree distribution exhibiting two power scaling regimes separated by a critical degree $k_{\rm crit}$, and a power law relation between degree and local clustering. We introduce a growing random model based on a local interaction mechanism that reproduces all of the observed scaling features and their exponents. Our results lend strong support to the idea that several very different networks are simultenously present in the human social network, and these need to be taken into account for successful modeling.Comment: 5 pages, 5 figure

Reconstructing the primordial power spectrum from the CMB

We propose a straightforward and model independent methodology for characterizing the sensitivity of CMB and other experiments to wiggles, irregularities, and features in the primordial power spectrum. Assuming that the primordial cosmological perturbations are adiabatic, we present a function space generalization of the usual Fisher matrix formalism, applied to a CMB experiment resembling Planck with and without ancillary data. This work is closely related to other work on recovering the inflationary potential and exploring specific models of non-minimal, or perhaps baroque, primordial power spectra. The approach adopted here, however, most directly expresses what the data is really telling us. We explore in detail the structure of the available information and quantify exactly what features can be reconstructed and at what statistical significance.Comment: 43 pages Revtex, 23 figure

Multifractal characterization of pore size distributions measured by mercury intrusion porosimetry

The aim of this work was to assess the multifractal characteristics of pore size distributions measured by mercury injection porosimetry (MIP). Two pairs of soil samples were collected in plots with different topographic position and soil use, with each pair differentiated by distinct proportion of fine particles and organic matter contents. Macropore volume was higher on samples with higher clay and organic matter content. Mass exponent function, singularity spectra and generalized dimension spectra showed that multifractal distribution was a suitable model for mercury injection curves. Multifractal parameters extracted from singularity spectra and generalized dimension spectra reflected the main characteristics of the pore size distributions (PSDs). Therefore, it was concluded that multifractal analysis is useful for distinguishing between different patterns of pore size distributions obtained by Hg injection