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23/02/2011, 10:00
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Kim Sneppen (NBI)23/02/2011, 10:15In the talk I will discuss how localized part of an eucaryotic genome can be bistable. Bistable systems open for epigentics, a central theme in regulation of living cells. It is demonstrated that both copperativity and non-local interactions along the DNA are needed to obtain bistability. Further various localization mechanisms are discussed, with aim of explaining how the system...Go to contribution page
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Supriya Krishnamurthy (KTH and Stockholm University)23/02/2011, 11:00We study the stochastic switching behavior of a model circuit of multisite phosphorylation and dephosphorylation with feedback. The circuit consists of a kinase and phosphatase acting on multiple sites of a substrate that, contingent on its modification state, catalyzes its own phosphorylation and, in a symmetric scenario, dephosphorylation. The symmetric case is viewed as a cartoon of...Go to contribution page
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Olli Yli-Harja (Tampere University of Technology)23/02/2011, 13:30Tommi Aho (1), Juha Kesseli (1), Olli Yli-Harja (1), Stuart A. Kauffman (2)
(1) Department of Signal Processing, Tampere University of Technology, Korkeakoulunkatu 1, 33720 Tampere, Finland
(2) Complex Systems Center, University of Vermont, U.S.A
The shortage of nutrients is one of the most common challenges that organisms confront. Thus, nature has developed various... Go to contribution page -
Mats Wallin (KTH)23/02/2011, 14:15Certain bacteria can crawl on moist surfaces using a mechanism that involves extension and retraction of extracellular pilus filaments. The mechanism and cell motion has been studied in various experiments on cell level and on single molecule level, for example, live cell imaging of pilus dynamics. This talk presents modeling approaches of the dynamics and some results that...Go to contribution page
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Johan Elf (Uppsala University)23/02/2011, 15:00I will present our resent advancements in tracking individual freely diffusing fluorescent proteins molecules at in the cytoplasm of bacterial cells. High speed tracking of individual mEos2 molecules reveals how the physical nature of the bacterial cytoplasm is perceived by a protein molecule. In vivo tracking of individual fusion proteins further makes it possible to study...Go to contribution page
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Martin Rosvall (Umeå University)23/02/2011, 16:30Ever since Aristotle, organization and classification have been cornerstones of science. In network science, categorization of nodes into modules with community-detection algorithms has proven indispensable to comprehending the structure of large integrated systems. But in real-world networks, the organization rarely is limited to two levels, and modular descriptions can only provide...Go to contribution page
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Petter Holme (Umeå University)23/02/2011, 17:15Contacts between individuals form the infrastructure over which diseases spread. Such contact patterns are far from randomÑthere are correlations both in the network of who has been in contact with whom, and when these contacts happen. These structures affect the dynamics of disease spreading but can also be exploited in preventive action such as vaccination campaigns. In this talk, I...Go to contribution page
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Yasser Roudi (Norwegian University of Science and Technology)24/02/2011, 09:00I will describe how interactions in a non-equilibrium Ising model can be inferred from observing state samples. We will start by a short review of how this could be done for equilibrium systems and then study how Dynamical Mean-Field (naive mean field and TAP) theory can be developed for a nonequilibrium Sherrington-Kirkpatrick model and exploited for inferring the network...Go to contribution page
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Tobias Ambjörnsson (Lund University)24/02/2011, 09:45The new melting map approach developed in our collaborator Jonas Tegenfeldt's lab at Gothenburg University constitutes a promising ultra-fast alternative to previous DNA sequencing techniques. Fluorescently stained DNA is stretched in nanochannels and subsequently heated. The resulting local melting will reduce the quantum yield of an intercalating fluorescent dye such that black...Go to contribution page
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Anders Irbäck (Lund University)24/02/2011, 11:15The aggregation of misfolded proteins into oligomers and fibrils has been linked to a variety of disorders such as Alzheimer's and Parkinson's diseases. The conformational mechanisms involved in the aggregation process remain incompletely understood. Here I present results from a Monte Carlo study of monomers and dimers of the 42-residue Abeta42 protein, associated with...Go to contribution page
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Giulia Rossi (Aalto University School of Science)24/02/2011, 12:00G. Rossi (1), L. Monticelli (2), S. R. Puisto (3), N. Rostedt (3), I. Vattulainen (4) and T. Ala-Nissilä (1)
(1) Department of Applied Physics, Aalto University School of Science, P.O. Box 11000, 00076 Aalto, Espoo, Finland
(2) INSERM, UMR-S 665, DSIMB, 6 rue Alexander Cabanel, 75015 Paris, France
(3) MatOx Pembroke House, 36-37 Pembroke Street, Oxford OX1 1BP, United... Go to contribution page -
Mikko Alava (Helsinki University of Technology)24/02/2011, 14:15The irreversible yielding in materials has usually been described in the terms of rheology, but recent advances in from glasses to plasticity mediated by topological defects are starting to show this century-old picture to be wrong. In this talk I will discuss three issues: what happens during the deformation of crystalline solids, which is related to collective dislocation dynamics, how...Go to contribution page
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Ralf Metzler (TU München)24/02/2011, 15:15In 1905 Einstein formulated the laws of diffusion, and in 1908 Perrin published his Nobel-prize winning studies determining Avogadro's number from diffusion measurements. With similar, more refined techniques the diffusion behaviour in complex systems such as the motion of tracer particles in living biological cells is nowadays measured with high precision. Often the diffusion turns...Go to contribution page
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Michael A. Lomholt (University of Southern Denmark)24/02/2011, 17:00A single-file of identical particles diffusing along a line without being able to overtake each other is one of the better studied non-equilibrium systems in physics. It has been known for almost half a century that the mean square displacement of a single particle in the file will grow subdiffusively with an exponent 1/2. In this talk I will discuss heterogenous single files...Go to contribution page
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Jani Lukkarinen (University of Helsinki)25/02/2011, 09:00In a joint work with Jogia Bandyopadhyay and Antti Kupiainen, we consider the kinetics of a three-dimensional fluid of weakly interacting bosons with supercritical densities. More precisely, we consider the postulated nonlinear Boltzmann-Nordheim equations for this system, in a spatially homogeneous state which has an isotropic momentum distribution. The resulting evolution...Go to contribution page
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Martin Nilsson Jacobi (Chalmers University of Technology)25/02/2011, 09:45Many natural systems display striped morphologies and many different models have been proposed to explain this phenomenon. I will discuss a universal explanation for why stripes occur at low temperatures in systems with isotropic interactions. Further I show that similar arguments can be used to explain the patterns that can occur as ground states for many particle systems...Go to contribution page
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Paolo Sibani (University of Southern Denmark)25/02/2011, 11:15In recent experiments (Richardson et al. (2010), PLoS ONE 5(3): e9621. doi:10.1371/journal.pone.0009621) ant motion out of the nest is shown to be a non-stationary process intriguingly similar to the so called aging dynamics, of physical glassy systems. Under different conditions, (Nouvellet et al.(2010), Journal of Theoretical Biology 266, 573) the same exit process is well...Go to contribution page
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Namiko Mitarai (NBI)25/02/2011, 12:00Ecological systems comprise an astonishing diversity of species that cooperate or compete with each other forming complex mutual de- pendencies. The minimum requirements to maintain a large species diversity on long time scales are in general unknown. Using lichen communities as an example, we propose a model for the evolution of mutually excluding organisms that compete for space.Go to contribution page
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Simone Pigolotti (Niels Bohr Institute)25/02/2011, 14:15Population genetics studies how mutant forms of genes spread in space and can eventually take over a population. The physical mechanisms underlying this process can be very different in the ocean, where flows can radically alter the chances of genes being fixated. I will present a new model that generalizes basic models of population genetics in the presence of a fluid flow. I will...Go to contribution page
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25/02/2011, 15:00
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