Ab-initio shell model with a core

We construct effective 2- and 3-body Hamiltonians for the p-shell by performing 12\hbar\Omega ab initio no-core shell model (NCSM) calculations for A=6 and 7 nuclei and explicitly projecting the many-body Hamiltonians onto the 0\hbar\Omega space. We then separate these effective Hamiltonians into 0-, 1- and 2-body contributions (also 3-body for A=7) and analyze the systematic behavior of these different parts as a function of the mass number A and size of the NCSM basis space. The role of effective 3- and higher-body interactions for A>6 is investigated and discussed

Effective operators from exact many-body renormalization

We construct effective two-body Hamiltonians and E2 operators for the p-shell by performing $16\hbar\Omega$ ab initio no-core shell model (NCSM) calculations for A=5 and A=6 nuclei and explicitly projecting the many-body Hamiltonians and E2 operator onto the $0\hbar\Omega$ space. We then separate the effective E2 operator into one-body and two-body contributions employing the two-body valence cluster approximation. We analyze the convergence of proton and neutron valence one-body contributions with increasing model space size and explore the role of valence two-body contributions. We show that the constructed effective E2 operator can be parametrized in terms of one-body effective charges giving a good estimate of the NCSM result for heavier p-shell nuclei.Comment: 9 pages, 8 figure

A stochastic model of Min oscillations in Escherichia coli and Min protein segregation during cell division

The Min system in Escherichia coli directs division to the centre of the cell through pole-to-pole oscillations of the MinCDE proteins. We present a one dimensional stochastic model of these oscillations which incorporates membrane polymerisation of MinD into linear chains. This model reproduces much of the observed phenomenology of the Min system, including pole-to-pole oscillations of the Min proteins. We then apply this model to investigate the Min system during cell division. Oscillations continue initially unaffected by the closing septum, before cutting off rapidly. The fractions of Min proteins in the daughter cells vary widely, from 50%-50% up to 85%-15% of the total from the parent cell, suggesting that there may be another mechanism for regulating these levels in vivo.Comment: 19 pages, 12 figures (25 figure files); published at http://www.iop.org/EJ/journal/physbi

The non-Gaussian tail of cosmic-shear statistics

Due to gravitational instability, an initially Gaussian density field develops non-Gaussian features as the Universe evolves. The most prominent non-Gaussian features are massive haloes, visible as clusters of galaxies. The distortion of high-redshift galaxy images due to the tidal gravitational field of the large-scale matter distribution, called cosmic shear, can be used to investigate the statistical properties of the LSS. In particular, non-Gaussian properties of the LSS will lead to a non-Gaussian distribution of cosmic-shear statistics. The aperture mass ($M_{\rm ap}$) statistics, recently introduced as a measure for cosmic shear, is particularly well suited for measuring these non-Gaussian properties. In this paper we calculate the highly non-Gaussian tail of the aperture mass probability distribution, assuming Press-Schechter theory for the halo abundance and the `universal' density profile of haloes as obtained from numerical simulations. We find that for values of $M_{\rm ap}$ much larger than its dispersion, this probability distribution is closely approximated by an exponential, rather than a Gaussian. We determine the amplitude and shape of this exponential for various cosmological models and aperture sizes, and show that wide-field imaging surveys can be used to distinguish between some of the currently most popular cosmogonies. Our study here is complementary to earlier cosmic-shear investigations which focussed more on two-point statistical properties.Comment: 9 pages, 5 figures, submitted to MNRA

Stress Generation and Filament Turnover during Actin Ring Constriction

We present a physical analysis of the dynamics and mechanics of contractile actin rings. In particular, we analyze the dynamics of ring contraction during cytokinesis in the Caenorhabditis elegans embryo. We present a general analysis of force balances and material exchange and estimate the relevant parameter values. We show that on a microscopic level contractile stresses can result from both the action of motor proteins, which cross-link filaments, and from the polymerization and depolymerization of filaments in the presence of end-tracking cross-linkers

Coarse-grained model of entropic allostery

Many signaling functions in molecular biology require proteins to bind to substrates such as DNA in response to environmental signals such as the simultaneous binding to a small molecule. Examples are repressor proteins which may transmit information via a conformational change in response to the ligand binding. An alternative entropic mechanism of "allostery" suggests that the inducer ligand changes the intramolecular vibrational entropy, not just the mean static structure. We present a quantitative, coarse-grained model of entropic allostery, which suggests design rules for internal cohesive potentials in proteins employing this effect. It also addresses the issue of how the signal information to bind or unbind is transmitted through the protein. The model may be applicable to a wide range of repressors and also to signaling in trans-membrane proteins