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The nuclear morphology of eukaryotic cells is determined by the interplay between the lamina forming the nuclear skeleton, the chromatin inside the nucleus and the coupling with the cytoskeleton. Nuclear alterations are often associated with pathological conditions as in the Hutchinson-Gilford progeria syndrome (HGPS) where a mutation in the lamin A gene yields an altered form of the protein, named progerin, and an aberrant nuclear shape. Here, we introduce an inducible cellular model of HGPS in HeLa cells where increased progerin expression leads to alterations in the coupling of the lamin shell with cytoskeletal/chromatin tethers as well as with Polycomb-group (PcG) proteins. Furthermore, our experiments show that progerin expression leads to enhanced nuclear shape fluctuations in response to cytoskeletal activity. To interpret the experimental results, we introduce a computational model of the cell nucleus that includes explicitly chromatin fibers, the nuclear shell and the coupling with the cytoskeleton. The model allows us to investigate how the geometrical organization of chromatin-lamin tether affects nuclear morphology and shape fluctuations. In sum, our findings highlight the crucial role played by lamin-chromatin and lamin-cytoskeletal alterations in determining nuclear shape morphology and in affecting cellular functions and gene regulation., Comment: 38 pages, 25 figures

Several neurological disorders are associated with the aggregation of aberrant proteins, often localized in intracellular organelles such as the endoplasmic reticulum. Here we study protein aggregation kinetics by mean-field reactions and three dimensional Monte carlo simulations of diffusion-limited aggregation of linear polymers in a confined space, representing the endoplasmic reticulum. By tuning the rates of protein production and degradation, we show that the system undergoes a non-equilibrium phase transition from a physiological phase with little or no polymer accumulation to a pathological phase characterized by persistent polymerization. A combination of external factors accumulating during the lifetime of a patient can thus slightly modify the phase transition control parameters, tipping the balance from a long symptomless lag phase to an accelerated pathological development. The model can be successfully used to interpret experimental data on amyloid-\b{eta} clearance from the central nervous system.

The identification of cancer stem cells in vivo and in vitro relies on specific surface markers that should allow to sort cancer cells in phenotypically distinct subpopulations. Experiments report that sorted cancer cell populations after some time tend to express again all the original markers, leading to the hypothesis of phenotypic switching, according to which cancer cells can transform stochastically into cancer stem cells. Here we explore an alternative explanation based on the hypothesis that markers are not perfect and are thus unable to identify all cancer stem cells. Our analysis is based on a mathematical model for cancer cell proliferation that takes into account phenotypic switching, imperfect markers and error in the sorting process. Our conclusion is that the observation of reversible expression of surface markers after sorting does not provide sufficient evidence in support of phenotypic switching.

We investigate dynamic hysteresis and Barkhausen noise in ferromagnetic materials with a huge number of parallel and rigid Bloch domain walls. Considering a disordered ferromagnetic system with strong in-plane uniaxial anisotropy and in-plane magnetization driven by an external magnetic field, we calculate the equations of motion for a set of coupled domain walls, considering the effects of the long-range dipolar interactions and disorder. We derive analytically an expression for the magnetic susceptivity, related to the effective demagnetizing factor, and show that it has a logarithmic dependence on the number of domains. Next, we simulate the equations of motion and study the effect of the external field frequency and the disorder on the hysteresis and noise properties. The dynamic hysteresis is very well explained by means of the loss separation theory., Comment: 13 pages, 11 figures

A two-dimensional fracture model where the interaction among elements is modeled by an anisotropic stress-transfer function is presented. The influence of anisotropy on the macroscopic properties of the samples is clarified, by interpolating between several limiting cases of load sharing. Furthermore, the critical stress and the distribution of failure avalanches are obtained numerically for different values of the anisotropy parameter $\alpha$ and as a function of the interaction exponent $\gamma$. From numerical results, one can certainly conclude that the anisotropy does not change the crossover point $\gamma_c=2$ in 2D. Hence, in the limit of infinite system size, the crossover value $\gamma_c=2$ between local and global load sharing is the same as the one obtained in the isotropic case. In the case of finite systems, however, for $\gamma\le2$, the global load sharing behavior is approached very slowly.

We study the rheological properties of colloidal microphases in two dimensions simulating a model of colloidal particles with competing interactions. Due to the competition between short-range attraction and long-range repulsion, as a function of the density the model exhibits a variety of microphases such as clusters, stripes or crystals with bubbles. We prepare the system in a confined microphase employing Monte-Carlo simulations and then quench the system at T=0. The resulting configurations are then sheared by applying a drag force profile. We integrate numerically the equation of motion for the particles and analyze the dynamics as a function of the density and the applied strain rate. We measure the stress-strain curves and characterize the yielding of the colloidal microphases. The results depend on the type of microphase: (i) clusters are easily sheared along layers and the relative motion is assisted by rotations. (ii) Stripes shear easily when they are parallel to the flow and tend to jam when are perpendicular to it. Under a sufficiently strong shear rate perpendicular stripes orient in the flow direction. (iii) Crystals with bubbles yield by fracturing along the bubbles and eventually forming stripes. We discuss the role of dislocations, emitted by the bubbles, in the yielding process., Comment: Submitted to Phys. Rev. E. Animations of the shear of the microphases can be found at http://pil.phys.uniroma1.it/~zapperi/Supplementaryanimations.html

We investigate the diffusion of a grain boundary in a crystalline material. We consider in particular the case of a regularly spaced low-angle grain boundary schematized as an array of dislocations that interact with each other through long-range stress fields and with the crystalline Peierls-Nabarro potential. The methodology employed to analyze the dynamics of the center of mass of the grain boundary and its spatio-temporal fluctuations is based on over-damped Langevin equations. The generality and the efficiency of this technique is proved by the agreement with molecular dynamics simulations., Comment: 12 pages, 8 figures

We present an experimental and theoretical study of the fatigue failure of asphalt under cyclic compression. Varying the load amplitude, experiments reveal a finite fatigue limit below which the specimen does not break, while approaching the tensile strength of the material a rapid failure occurs. In the intermediate load range, the lifetime decreases with the load as a power law. We introduce two novel theoretical approaches, namely, a fiber bundle model and a fuse model, and show that both capture the major microscopic mechanisms of the fatigue failure of asphalt, providing an excellent agreement with the experimental findings. Model calculations show that the competition of damage accumulation and healing of microcracks gives rise to novel scaling laws for fatigue failure., Comment: 4 pages, 5 figures, RevTex format

We investigate the Barkhausen noise in ferromagnetic thin films with zigzag domain walls. We use a cellular automaton model that describes the motion of a zigzag domain wall in an impure ferromagnetic quasi-two dimensional sample with in-plane uniaxial magnetization at zero temperature, driven by an external magnetic field. The main ingredients of this model are the dipolar spin-spin interactions and the anisotropy energy. A power law behavior with a cutoff is found for the probability distributions of size, duration and correlation length of the Barkhausen avalanches, and the critical exponents are in agreement with the available experiments. The link between the size and the duration of the avalanches is analyzed too, and a power law behavior is found for the average size of an avalanche as a function of its duration., Comment: 11 pages, 12 figures

We performed a series of dynamic hysteresis measurements on three series of Finemet films with composition Fe$_{73.5}$Cu$_1$Nb$_3$Si$_13.5$B$_9$, using both the longitudinal magneto-optical Kerr effect (MOKE) and the inductive fluxometric method. The MOKE dynamic hysteresis loops show a more marked variability with the frequency than the inductive ones, while both measurements show a similar dependence on the square root of frequency. We analyze these results in the frame of a simple domain wall depinning model, which accounts for the general behavior of the data., Comment: 3 pages, 3 figures

Demagnetization, commonly employed to study ferromagnets, has been proposed as the basis for an optimization tool, a method to find the ground state of a disordered system. Here we present a detailed comparison between the ground state and the demagnetized state in the random field Ising model, combing exact results in $d=1$ and numerical solutions in $d=3$. We show that there are important differences between the two states that persist in the thermodynamic limit and thus conclude that AC demagnetization is not an efficient optimization method., Comment: 2 pages, 1 figure

The average shape of the pulse in Barkhausen noise has been recently proposed as a tool to compare models and experiments. We compute theoretically the pulse shape of Barkhausen noise in a model describing the motion of a domain wall in an effective Brownian potential. In this framework, the pulse shape is related to the properties of the excursion of a random process in a $c\log(x)-kx$ potential. We record the Barkhausen noise in polycristalline ${FeSi}$ materials, and compare the pulse shape with the one predicted by the domain wall model., Comment: 2 pages 1 figure

We study the behavior of hysteresis loops in Finemet Fe$_{73.5}$Cu$_1$Nb$_3$Si$_{18.5}$B$_4$ thin films by using a fluxometric setup based on a couple of well compensated pickup coils. The presence of scaling laws of the hysteresis area is investigated as a function of the amplitude and frequency of the applied field, considering sample thickness from about 20 nm to 5 $\mu$m. We do not observe any scaling predicted by theoretical models, while dynamic loops show a logarithmic dependence on the frequency., Comment: 2 pages, 2 figures

The equilibrium and non--equilibrium disorder induced phase transitions are compared in the random-field Ising model (RFIM). We identify in the demagnetized state (DS) the correct non-equilibrium hysteretic counterpart of the T=0 ground state (GS), and present evidence of universality. Numerical simulations in d=3 indicate that exponents and scaling functions coincide, while the location of the critical point differs, as corroborated by exact results for the Bethe lattice. These results are of relevance for optimization, and for the generic question of universality in the presence of disorder., Comment: Accepted for publication in Phys. Rev. Lett

This is a comment on J. Schmittbuhl, A. Hansen, and G. G. Batrouni, Phys. Rev. Lett. 90, 045505 (2003). They offer a reply, in turn., Comment: 1 page, 1 figure

Understanding the power spectrum of the magnetization noise is a long standing problem. While earlier work considered superposition of 'elementary' jumps, without reference to the underlying physics, recent approaches relate the properties of the noise with the critical dynamics of domain walls. In particular, a new derivation of the power spectrum exponent has been proposed for the random-field Ising model. We apply this approach to experimental data, showing its validity and limitations., Comment: 8 pages, 3 .eps figures (elsart.cls style required)

We study the dynamics of an elastic chain driven on a disordered substrate and analyze numerically the statistics of force fluctuations at the depinning transition. The probability distribution function of the amplitude of the slip events for small velocities is a power law with an exponent $+AFw-tau$ depending on the driving velocity. This result is in qualitative agreement with experimental measurements performed on sliding elastic surfaces with macroscopic asperities. We explore the properties of the depinning transition as a function of the driving mode (i.e. constant force or constant velocity) and compute the force-velocity diagram using finite size scaling methods. The scaling exponents are in excellent agreement with the values expected in interface models and, contrary to previous studies, we found no difference in the exponents for periodic and disordered chains., Comment: 8 pages

We introduce a simple model to describe the frictional properties of granular media under shear. We model the friction force in term of the horizontal velocity v and the vertical position z of the slider, interpreting z as a constitutive variable characterizing the contact. Dilatancy is shown to play an essential role in the dynamic, inducing a stick-slip instability at low velocity. We compute the phase diagram, analyze numerically the model for a wide range of parameters and compare our results with experiments on dry and wet granular media, obtaining a good agreement. In particular, we reproduce the hysteretic velocity dependence of the frictional force., Comment: 10 pages

We perform numerical simulations of the sandpile model for non-vanishing driving fields $h$ and dissipation rates $\epsilon$. Unlike simulations performed in the slow driving limit, the unique time scale present in our system allows us to measure unambiguously response and correlation functions. We discuss the dynamic scaling of the model and show that fluctuation-dissipation relations are not obeyed in this system., Comment: 5 pages, latex, 4 postscript figures

We introduce a Renormalization scheme for the one and two dimensional Forest-Fire models in order to characterize the nature of the critical state and its scale invariant dynamics. We show the existence of a relevant scaling field associated with a repulsive fixed point. This model is therefore critical in the usual sense because the control parameter has to be tuned to its critical value in order to get criticality. It turns out that this is not just the condition for a time scale separation. The critical exponents are computed analytically and we obtain $\nu=1.0$, $\tau=1.0$ and $\nu=0.65$, $\tau=1.16$ respectively for the one and two dimensional case, in very good agreement with numerical simulations., Comment: 4 pages, 3 uuencoded Postcript figures