989 research outputs found
Dynamic disorder in receptor-ligand forced dissociation experiments
Recently experiments showed that some biological noncovalent bonds increase
their lifetimes when they are stretched by an external force, and their
lifetimes will decrease when the force increases further. Several specific
quantitative models have been proposed to explain the intriguing transitions
from the "catch-bond" to the "slip-bond". Different from the previous efforts,
in this work we propose that the dynamic disorder of the force-dependent
dissociation rate can account for the counterintuitive behaviors of the bonds.
A Gaussian stochastic rate model is used to quantitatively describe the
transitions observed recently in the single bond P-selctin glycoprotein ligand
1(PSGL-1)P-selectin force rupture experiment [Marshall, {\it et al.}, (2003)
Nature {\bf 423}, 190-193]. Our model agrees well to the experimental data. We
conclude that the catch bonds could arise from the stronger positive
correlation between the height of the intrinsic energy barrier and the distance
from the bound state to the barrier; classical pathway scenario or {\it a
priori} catch bond assumption is not essential.Comment: 4 pages, 2 figure
Work probability distribution and tossing a biased coin
We show that the rare events present in dissipated work that enters Jarzynski
equality, when mapped appropriately to the phenomenon of large deviations found
in a biased coin toss, are enough to yield a quantitative work probability
distribution for Jarzynski equality. This allows us to propose a recipe for
constructing work probability distribution independent of the details of any
relevant system. The underlying framework, developed herein, is expected to be
of use in modelling other physical phenomena where rare events play an
important role.Comment: 6 pages, 4 figures
Moderate deviation principle for ergodic Markov chain. Lipschitz summands
For , we propose the MDP analysis for family where
be a homogeneous ergodic Markov chain, ,
when the spectrum of operator is continuous. The vector-valued function
is not assumed to be bounded but the Lipschitz continuity of is
required. The main helpful tools in our approach are Poisson's equation and
Stochastic Exponential; the first enables to replace the original family by
with a martingale while the second to avoid the
direct Laplace transform analysis
Dynamical fluctuations for semi-Markov processes
We develop an Onsager-Machlup-type theory for nonequilibrium semi-Markov
processes. Our main result is an exact large time asymptotics for the joint
probability of the occupation times and the currents in the system,
establishing some generic large deviation structures. We discuss in detail how
the nonequilibrium driving and the non-exponential waiting time distribution
influence the occupation-current statistics. The violation of the Markov
condition is reflected in the emergence of a new type of nonlocality in the
fluctuations. Explicit solutions are obtained for some examples of driven
random walks on the ring.Comment: Minor changes, accepted for publication in Journal of Physics
Ising models on power-law random graphs
We study a ferromagnetic Ising model on random graphs with a power-law degree
distribution and compute the thermodynamic limit of the pressure when the mean
degree is finite (degree exponent ), for which the random graph has a
tree-like structure. For this, we adapt and simplify an analysis by Dembo and
Montanari, which assumes finite variance degrees (). We further
identify the thermodynamic limits of various physical quantities, such as the
magnetization and the internal energy
Ensemble Inequivalence in Mean-field Models of Magnetism
Mean-field models, while they can be cast into an {\it extensive}
thermodynamic formalism, are inherently {\it non additive}. This is the basic
feature which leads to {\it ensemble inequivalence} in these models. In this
paper we study the global phase diagram of the infinite range
Blume-Emery-Griffiths model both in the {\it canonical} and in the {\it
microcanonical} ensembles. The microcanonical solution is obtained both by
direct state counting and by the application of large deviation theory. The
canonical phase diagram has first order and continuous transition lines
separated by a tricritical point. We find that below the tricritical point,
when the canonical transition is first order, the phase diagrams of the two
ensembles disagree. In this region the microcanonical ensemble exhibits energy
ranges with negative specific heat and temperature jumps at transition
energies. These two features are discussed in a general context and the
appropriate Maxwell constructions are introduced. Some preliminary extensions
of these results to weakly decaying nonintegrable interactions are presented.Comment: Chapter of the forthcoming "Lecture Notes in Physics" volume:
``Dynamics and Thermodynamics of Systems with Long Range Interactions'', T.
Dauxois, S. Ruffo, E. Arimondo, M. Wilkens Eds., Lecture Notes in Physics
Vol. 602, Springer (2002). (see http://link.springer.de/series/lnpp/
The Non--Ergodicity Threshold: Time Scale for Magnetic Reversal
We prove the existence of a non-ergodicity threshold for an anisotropic
classical Heisenberg model with all-to-all couplings. Below the threshold, the
energy surface is disconnected in two components with positive and negative
magnetizations respectively. Above, in a fully chaotic regime, magnetization
changes sign in a stochastic way and its behavior can be fully characterized by
an average magnetization reversal time. We show that statistical mechanics
predicts a phase--transition at an energy higher than the non-ergodicity
threshold. We assess the dynamical relevance of the latter for finite systems
through numerical simulations and analytical calculations. In particular, the
time scale for magnetic reversal diverges as a power law at the ergodicity
threshold with a size-dependent exponent, which could be a signature of the
phenomenon.Comment: 4 pages 4 figure
Entropy production in the non-equilibrium steady states of interacting many-body systems
Entropy production is one of the most important characteristics of
non-equilibrium steady states. We study here the steady-state entropy
production, both at short times as well as in the long-time limit, of two
important classes of non-equilibrium systems: transport systems and
reaction-diffusion systems. The usefulness of the mean entropy production rate
and of the large deviation function of the entropy production for
characterizing non-equilibrium steady states of interacting many-body systems
is discussed. We show that the large deviation function displays a kink-like
feature at zero entropy production that is similar to that observed for a
single particle driven along a periodic potential. This kink is a direct
consequence of the detailed fluctuation theorem fulfilled by the probability
distribution of the entropy production and is therefore a generic feature of
the corresponding large deviation function.Comment: 7 figures, to appear in Physical Review
Dynamic Phase Transitions in Cell Spreading
We monitored isotropic spreading of mouse embryonic fibroblasts on
fibronectin-coated substrates. Cell adhesion area versus time was measured via
total internal reflection fluorescence microscopy. Spreading proceeds in
well-defined phases. We found a power-law area growth with distinct exponents
a_i in three sequential phases, which we denote basal (a_1=0.4+-0.2), continous
(a_2=1.6+-0.9) and contractile (a_3=0.3+-0.2) spreading. High resolution
differential interference contrast microscopy was used to characterize local
membrane dynamics at the spreading front. Fourier power spectra of membrane
velocity reveal the sudden development of periodic membrane retractions at the
transition from continous to contractile spreading. We propose that the
classification of cell spreading into phases with distinct functional
characteristics and protein activity patterns serves as a paradigm for a
general program of a phase classification of cellular phenotype. Biological
variability is drastically reduced when only the corresponding phases are used
for comparison across species/different cell lines.Comment: 4 pages, 5 figure
Elastic interactions of active cells with soft materials
Anchorage-dependent cells collect information on the mechanical properties of
the environment through their contractile machineries and use this information
to position and orient themselves. Since the probing process is anisotropic,
cellular force patterns during active mechanosensing can be modelled as
anisotropic force contraction dipoles. Their build-up depends on the mechanical
properties of the environment, including elastic rigidity and prestrain. In a
finite sized sample, it also depends on sample geometry and boundary conditions
through image strain fields. We discuss the interactions of active cells with
an elastic environment and compare it to the case of physical force dipoles.
Despite marked differences, both cases can be described in the same theoretical
framework. We exactly solve the elastic equations for anisotropic force
contraction dipoles in different geometries (full space, halfspace and sphere)
and with different boundary conditions. These results are then used to predict
optimal position and orientation of mechanosensing cells in soft material.Comment: Revtex, 38 pages, 8 Postscript files included; revised version,
accepted for publication in Phys. Rev.
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