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Identification of an interchromosomal compartment by polymerization of nuclear-targeted vimentin
A number of structural and functional subnuclear compartments have been described, including regions
exclusive of chromosomes previously hypothesized to form
a reactive nuclear space. We have now explored this
accessible nuclear space and interchromosomal
nucleoplasmic domains experimentally using Xenopus
vimentin engineered to contain a nuclear localization signal
(NLS-vimentin). In stably transfected human cells
incubated at 37°C, the NLS-vimentin formed a restricted
number of intranuclear speckles. At 28°C, the optimal
temperature for assembly of the amphibian protein, NLSvimentin
progressively extended with time out from the
speckles into strictly orientated intranuclear filamentous
arrays. This enabled us to observe the development of a
system of interconnecting channel-like areas. Quantitative
analysis based on 3-D imaging microscopy revealed that
these arrays were localized almost exclusively outside of
chromosome territories. During mitosis the filaments
disassembled and dispersed throughout the cytoplasm,
while in anaphase-telophase the vimentin was recruited
back into the nucleus and reassembled into filaments at the
chromosome surfaces, in distributions virtually identical to
those observed in the previous interphase. The filaments
also colocalized with specific nuclear RNAs, coiled bodies
and PML bodies, all situated outside of chromosome
territories, thereby interlinking these structures. This
strongly implies that these nuclear entities coexist in the
same interconnected nuclear compartment. The
assembling NLS-vimentin is restricted to and can be used
to delineate, at least in part, the formerly proposed
reticular interchromosomal domain compartment (ICD).
The properties of NLS-vimentin make it an excellent tool
for performing structural and functional studies on this
compartment
Model of mobile agents for sexual interactions networks
We present a novel model to simulate real social networks of complex
interactions, based in a granular system of colliding particles (agents). The
network is build by keeping track of the collisions and evolves in time with
correlations which emerge due to the mobility of the agents. Therefore,
statistical features are a consequence only of local collisions among its
individual agents. Agent dynamics is realized by an event-driven algorithm of
collisions where energy is gained as opposed to granular systems which have
dissipation. The model reproduces empirical data from networks of sexual
interactions, not previously obtained with other approaches.Comment: 6 pages, 8 figure
Broad Histogram Monte Carlo
We propose a new Monte Carlo technique in which the degeneracy of energy
states is obtained with a Markovian process analogous to that of Metropolis
used currently in canonical simulations. The obtained histograms are much
broader than those of the canonical histogram technique studied by Ferrenberg
and Swendsen. Thus we can reliably reconstruct thermodynamic functions over a
much larger temperature scale also away from the critical point. We show for
the two-dimensional Ising model how our new method reproduces exact results
more accurately and using less computer time than the conventional histogram
method. We also show data in three dimensions for the Ising ferromagnet and the
Edwards Anderson spin glass.Comment: 6 pages of a TeX file with 4 PS figures. Related papers at
http://www.if.uff.br/~tjp
Stochastic resonance for nonequilibrium systems
Stochastic resonance (SR) is a prominent phenomenon in many natural and engineered noisy systems, whereby the response to a periodic forcing is greatly amplified when the intensity of the noise is tuned to within a specific range of values. We propose here a general mathematical framework based on large deviation theory and, specifically, on the theory of quasipotentials, for describing SR in noisy
N
-dimensional nonequilibrium systems possessing two metastable states and undergoing a periodically modulated forcing. The drift and the volatility fields of the equations of motion can be fairly general, and the competing attractors of the deterministic dynamics and the edge state living on the basin boundary can, in principle, feature chaotic dynamics. Similarly, the perturbation field of the forcing can be fairly general. Our approach is able to recover as special cases the classical results previously presented in the literature for systems obeying detailed balance and allows for expressing the parameters describing SR and the statistics of residence times in the two-state approximation in terms of the unperturbed drift field, the volatility field, and the perturbation field. We clarify which specific properties of the forcing are relevant for amplifying or suppressing SR in a system and classify forcings according to classes of equivalence. Our results indicate a route for a detailed understanding of SR in rather general systems
Broad Histogram Method for Continuous Systems: the XY-Model
We propose a way of implementing the Broad Histogram Monte Carlo method to
systems with continuous degrees of freedom, and we apply these ideas to
investigate the three-dimensional XY-model with periodic boundary conditions.
We have found an excellent agreement between our method and traditional
Metropolis results for the energy, the magnetization, the specific heat and the
magnetic susceptibility on a very large temperature range. For the calculation
of these quantities in the temperature range 0.7<T<4.7 our method took less CPU
time than the Metropolis simulations for 16 temperature points in that
temperature range. Furthermore, it calculates the whole temperature range
1.2<T<4.7 using only 2.2 times more computer effort than the Histogram Monte
Carlo method for the range 2.1<T<2.2. Our way of treatment is general, it can
also be applied to other systems with continuous degrees of freedom.Comment: 23 pages, 10 Postscript figures, to be published in Int. J. Mod.
Phys.
Discrete Fracture Model with Anisotropic Load Sharing
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 and as a
function of the interaction exponent . From numerical results, one can
certainly conclude that the anisotropy does not change the crossover point
in 2D. Hence, in the limit of infinite system size, the crossover
value 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
, the global load sharing behavior is approached very slowly
Coherence in scale-free networks of chaotic maps
We study fully synchronized states in scale-free networks of chaotic logistic
maps as a function of both dynamical and topological parameters. Three
different network topologies are considered: (i) random scale-free topology,
(ii) deterministic pseudo-fractal scale-free network, and (iii) Apollonian
network. For the random scale-free topology we find a coupling strength
threshold beyond which full synchronization is attained. This threshold scales
as , where is the outgoing connectivity and depends on the
local nonlinearity. For deterministic scale-free networks coherence is observed
only when the coupling strength is proportional to the neighbor connectivity.
We show that the transition to coherence is of first-order and study the role
of the most connected nodes in the collective dynamics of oscillators in
scale-free networks.Comment: 9 pages, 8 figure
The influence of statistical properties of Fourier coefficients on random surfaces
Many examples of natural systems can be described by random Gaussian
surfaces. Much can be learned by analyzing the Fourier expansion of the
surfaces, from which it is possible to determine the corresponding Hurst
exponent and consequently establish the presence of scale invariance. We show
that this symmetry is not affected by the distribution of the modulus of the
Fourier coefficients. Furthermore, we investigate the role of the Fourier
phases of random surfaces. In particular, we show how the surface is affected
by a non-uniform distribution of phases
Lattice Simulation of Nuclear Multifragmentation
Motivated by the decade-long debate over the issue of criticality supposedly
observed in nuclear multifragmentation, we propose a dynamical lattice model to
simulate the phenomenon. Its Ising Hamiltonian mimics a short range attractive
interaction which competes with a thermal-like dissipative process. The results
here presented, generated through an event-by-event analysis, are in agreement
with both experiment and those produced by a percolative (non-dynamical) model.Comment: 8 pages, 3 figure
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