Supriya Krishnamurthy
(KTH and Stockholm University)
23/02/2011, 11:00
We 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...
Olli Yli-Harja
(Tampere University of Technology)
23/02/2011, 13:30
Tommi 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...
(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...
Johan Elf
(Uppsala University)
23/02/2011, 15:00
I 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...
Martin Rosvall
(Umeå University)
23/02/2011, 16:30
Ever 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...
Petter Holme
(Umeå University)
23/02/2011, 17:15
Contacts 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...
Yasser Roudi
(Norwegian University of Science and Technology)
24/02/2011, 09:00
I 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...
Tobias Ambjörnsson
(Lund University)
24/02/2011, 09:45
The 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...
Anders Irbäck
(Lund University)
24/02/2011, 11:15
The 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...
Giulia Rossi
(Aalto University School of Science)
24/02/2011, 12:00
G. 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...
(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...
Mikko Alava
(Helsinki University of Technology)
24/02/2011, 14:15
The 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...
Ralf Metzler
(TU München)
24/02/2011, 15:15
In 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...
Michael A. Lomholt
(University of Southern Denmark)
24/02/2011, 17:00
A 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...
Jani Lukkarinen
(University of Helsinki)
25/02/2011, 09:00
In 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...
Martin Nilsson Jacobi
(Chalmers University of Technology)
25/02/2011, 09:45
Many 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...
Paolo Sibani
(University of Southern Denmark)
25/02/2011, 11:15
In 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...
Simone Pigolotti
(Niels Bohr Institute)
25/02/2011, 14:15
Population 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...
