Local rewiring rules for evolving complex networks

ERC is grateful for the nancial support of the EPSRC

Integral Field Spectroscopy of a peculiar Supernova Remnant MF16 in NGC6946

We present a study of a peculiar Supernova Remnant MF16, associated with the Ultraluminous X-ray Source (ULX) NGC6946 ULX-1. Observations were taken with the MultiPupil Fiber Spectrograph (MPFS) with 6-m telescope on January 2005. The nebula is found to be highly asymmetric, one of the parts being much denser and colder. The two-component structure of the emission lines and radial velocity gradient argue for a non-spherical nebula, expanding with a velocity of about 100 km/s. Neither shock models nor the X-ray emission can adequately explain the actual emission line spectrum of MF16, so we suggest an additional ultraviolet source with a luminosity of about 10E40 erg/s. We confirm coincidence of the ULX with the central star, and identify radio emission observed by VLA with the most dense part of the nebula.Comment: Proceedings of the ESO and Euro3D Workshop "Science Perspectives for 3D Spectroscopy", Garching (Germany), October 10-14, 2005. M. Kissler-Patig, M.M. Roth and J.R. Walsh (eds.

Synthesis and characterisation of new Bi(iii)-containing apatite-type oxide ion conductors: the influence of lone pairs

Lone-pair cations are known to enhance oxide ion conductivity in fluorite- and Aurivillius-type materials. Among the apatite-type phases, the opposite trend is found for the more widely studied silicate oxide ion conductors, which exhibit a dramatic decrease in conductivity on Bi(III) incorporation. In this work, the influence of lone-pair cations on the properties of apatite-type germanate oxide ion conductors has been investigated by preparing and characterising seven related compositions with varying Bi(III) content, by X-ray and neutron powder diffraction and impedance spectroscopy. All materials are very good oxide ion conductors (with conductivities of up to 1.29 × 10−2 S cm−1 at 775 °C). Increasing Bi(III) content leads to increases in conductivity by up to an order of magnitude, suggesting significant differences in the oxide-ion conduction mechanisms between lone-pair-containing apatite-type germanate and silicate solid electrolytes

Complex scale-free networks with tunable power-law exponent and clustering

This article is made available through the Brunel Open Access Publishing Fund. It is distributed under a Creative Commons License (http://creativecommons.org/licenses/by/3.0/). Copyright @ 2013 Elsevier B.V.We introduce a network evolution process motivated by the network of citations in the scientific literature. In each iteration of the process a node is born and directed links are created from the new node to a set of target nodes already in the network. This set includes mm “ambassador” nodes and ll of each ambassador’s descendants where mm and ll are random variables selected from any choice of distributions plpl and qmqm. The process mimics the tendency of authors to cite varying numbers of papers included in the bibliographies of the other papers they cite. We show that the degree distributions of the networks generated after a large number of iterations are scale-free and derive an expression for the power-law exponent. In a particular case of the model where the number of ambassadors is always the constant mm and the number of selected descendants from each ambassador is the constant ll, the power-law exponent is (2l+1)/l(2l+1)/l. For this example we derive expressions for the degree distribution and clustering coefficient in terms of ll and mm. We conclude that the proposed model can be tuned to have the same power law exponent and clustering coefficient of a broad range of the scale-free distributions that have been studied empirically.EPSR

Localization dynamics in a binary two-dimensional cellular automaton: the Diffusion Rule

We study a two-dimensional cellular automaton (CA), called Diffusion Rule (DR), which exhibits diffusion-like dynamics of propagating patterns. In computational experiments we discover a wide range of mobile and stationary localizations (gliders, oscillators, glider guns, puffer trains, etc), analyze spatio-temporal dynamics of collisions between localizations, and discuss possible applications in unconventional computing.Comment: Accepted to Journal of Cellular Automat

An analytic model for a cooperative ballistic deposition in one dimension

We formulate a model for a cooperative ballistic deposition (CBD) process whereby the incoming particles are correlated with the ones already adsorbed via attractive force. The strength of the correlation is controlled by a tunable parameter $a$ that interpolates the classical car parking problem at $a=0$, the ballistic deposition at $a=1$ and the CBD model at $a>1$. The effects of the correlation in the CBD model are as follows. The jamming coverage $q(a)$ increases with the strength of attraction $a$ due to an ever increasing tendency of cluster formation. The system almost reaches the closest packing structure as $a\to\infty$ but never forms a percolating cluster which is typical to 1D system. In the large $a$ regime, the mean cluster size $k$ increases as $a^{1/2}$. Furthermore, the asymptotic approach towards the closest packing is purely algebraic both with $a$ as $q(\infty)-q(a) \sim a^{-1/2}$ and with $k$ as $q(\infty)-q(k) \sim k^{-1}$ where $q(\infty)\simeq 1$.Comment: 9 pages (in Revtex4), 9 eps figures; Submitted to publicatio

Identification of high energy gamma-ray sources and source populations in the era of deep all-sky coverage

A large fraction of the anticipated source detections by the Gamma-ray Large Area Space Telescope (GLAST-LAT) will initially be unidentified. We argue that traditional approaches to identify individuals and/or populations of gamma ray sources will encounter procedural limitations. Those limitations are discussed on the background of source identifications from EGRET observations. Generally, our ability to classify (faint) source populations in the anticipated GLAST dataset with the required degree of statistical confidence will be hampered by sheer source wealth. A new paradigm for achieving the classification of gamma ray source populations is discussed.Comment: Comments: 6 pages, 2 figures, Accepted for publication in Astrophysics and Space Science, Proc. of "The Multi-Messenger Approach to High-Energy Gamma-ray Sources (Third Workshop on the Nature of Unidentified High-Energy Sources)", Barcelona, July 4-7, 200

Exploiting transient protein states for the design of small-molecule stabilizers of mutant p53

The destabilizing p53 cancer mutation Y220C creates an extended crevice on the surface of the protein that can be targeted by small-molecule stabilizers. Here, we identify different classes of small molecules that bind to this crevice and determine their binding modes by X-ray crystallography. These structures reveal two major conformational states of the pocket and a cryptic, transiently open hydrophobic subpocket that is modulated by Cys220. In one instance, specifically targeting this transient protein state by a pyrrole moiety resulted in a 40-fold increase in binding affinity. Molecular dynamics simulations showed that both open and closed states of this subsite were populated at comparable frequencies along the trajectories. Our data extend the framework for the design of high-affinity Y220C mutant binders for use in personalized anticancer therapy and, more generally, highlight the importance of implementing protein dynamics and hydration patterns in the drug-discovery process

Engineering Pathways in Central Carbon Metabolism Help to Increase Glycan Production and Improve N-Type Glycosylation of Recombinant Proteins in E. coli.

Escherichia coli strains have been modified in a variety of ways to enhance the production of different recombinant proteins, targeting membrane protein expression, proteins with disulphide bonds, and more recently, proteins which require N-linked glycosylation. The addition of glycans to proteins remains a relatively inefficient process and here we aimed to combine genetic modifications within central carbon metabolic pathways in order to increase glycan precursor pools, prior to transfer onto polypeptide backbones. Using a lectin screen that detects cell surface representation of glycans, together with Western blot analyses using an O-antigen ligase mutant strain, the enhanced uptake and phosphorylation of sugars (ptsA) from the media combined with conservation of carbon through the glyoxylate shunt (icl) improved glycosylation efficiency of a bacterial protein AcrA by 69% and over 100% in an engineered human protein IFN-α2b. Unexpectedly, overexpression of a gene involved in the production of DXP from pyruvate (dxs), which was previously seen to have a positive impact on glycosylation, was detrimental to process efficiency and the possible reasons for this are discussed