Non-Gaussian fluctuations in stochastic models with absorbing barriers

The dynamics of a one-dimensional stochastic model is studied in presence of an absorbing boundary. The distribution of fluctuations is analytically characterized within the generalized van Kampen expansion, accounting for higher order corrections beyond the conventional Gaussian approximation. The theory is shown to successfully capture the non Gaussian traits of the sought distribution returning an excellent agreement with the simulations, for {\it all times} and arbitrarily {\it close} to the absorbing barrier. At large times, a compact analytical solution for the distribution of fluctuations is also obtained, bridging the gap with previous investigations, within the van Kampen picture and without resorting to alternative strategies, as elsewhere hypothesized.Comment: 2 figures, submitted to Phys. Rev. Let

Diffusion in a crowded environment

We analyze a pair of diffusion equations which are derived in the infinite system--size limit from a microscopic, individual--based, stochastic model. Deviations from the conventional Fickian picture are found which ultimately relate to the depletion of resources on which the particles rely. The macroscopic equations are studied both analytically and numerically, and are shown to yield anomalous diffusion which does not follow a power law with time, as is frequently assumed when fitting data for such phenomena. These anomalies are here understood within a consistent dynamical picture which applies to a wide range of physical and biological systems, underlining the need for clearly defined mechanisms which are systematically analyzed to give definite predictions.Comment: 4 pages, 3 figures, minor change

Exploring the thermodynamic limit of Hamiltonian models: convergence to the Vlasov equation

We here discuss the emergence of Quasi Stationary States (QSS), a universal feature of systems with long-range interactions. With reference to the Hamiltonian Mean Field (HMF) model, numerical simulations are performed based on both the original $N$-body setting and the continuum Vlasov model which is supposed to hold in the thermodynamic limit. A detailed comparison unambiguously demonstrates that the Vlasov-wave system provides the correct framework to address the study of QSS. Further, analytical calculations based on Lynden-Bell's theory of violent relaxation are shown to result in accurate predictions. Finally, in specific regions of parameters space, Vlasov numerical solutions are shown to be affected by small scale fluctuations, a finding that points to the need for novel schemes able to account for particles correlations.Comment: 5 pages, 3 figure

Can a microscopic stochastic model explain the emergence of pain cycles in patients?

A stochastic model is here introduced to investigate the molecular mechanisms which trigger the perception of pain. The action of analgesic drug compounds is discussed in a dynamical context, where the competition with inactive species is explicitly accounted for. Finite size effects inevitably perturb the mean-field dynamics: Oscillations in the amount of bound receptors spontaneously manifest, driven by the noise which is intrinsic to the system under scrutiny. These effects are investigated both numerically, via stochastic simulations and analytically, through a large-size expansion. The claim that our findings could provide a consistent interpretative framework to explain the emergence of cyclic behaviors in response to analgesic treatments, is substantiated.Comment: J. Stat. Mech. (Proceedings UPON2008

The corticotrophin-releasing factor/urocortin system regulates white fat browning in mice through paracrine mechanisms

Objectives: The corticotrophin-releasing factor (CRF)/urocortin system is expressed in the adipose tissue of mammals, but its functional role in this tissue remains unknown. Methods: Pharmacological manipulation of the activity of CRF receptors, CRF1 and CRF2, was performed in 3T3L1 white pre-adipocytes and T37i brown pre-adipocytes during in vitro differentiation. The expression of genes of the CRF/urocortin system and of markers of white and brown adipocytes was evaluated along with mitochondrial biogenesis and cellular oxygen consumption. Metabolic evaluation of corticosterone-deficient or supplemented Crhr1-null (Crhr1−/−) mice and their wild-type controls was performed along with gene expression analysis carried out in white (WAT) and brown (BAT) adipose tissues. Results: Peptides of the CRF/urocortin system and their cognate receptors were expressed in both pre-adipocyte cell lines. In vitro pharmacological studies showed an inhibition of the expression of the CRF2 pathway by the constitutive activity of the CRF1 pathway. Pharmacological activation of CRF2 and, to a lesser extent, inhibition of CRF1 signaling induced molecular and functional changes indicating transdifferentiation of white pre-adipocytes and differentiation of brown pre-adipocytes. Crhr1−/− mice showed increased expression of CRF2 and its agonist Urocortin 2 in adipocytes that was associated to brown conversion of WAT and activation of BAT. Crhr1−/− mice were resistant to diet-induced obesity and glucose intolerance. Restoring physiological circulating corticosterone levels abrogated molecular changes in adipocytes and the favorable phenotype of Crhr1−/− mice. Conclusions: Our findings suggest the importance of the CRF2 pathway in the control of adipocyte plasticity. Increased CRF2 activity in adipocytes induces browning of WAT, differentiation of BAT and is associated with a favorable metabolic phenotype in mice lacking CRF1. Circulating corticosterone represses CRF2 activity in adipocytes and may thus regulate adipocyte physiology through the modulation of the local CRF/urocortin system. Targeting CRF receptor signaling specifically in the adipose tissue may represent a novel approach to tackle obesity

Non-vascular interventional procedures: effective dose to patient and equivalent dose to abdominal organs by means of dicom images and Monte Carlo simulation

This study evaluates X-ray exposure in patient undergoing abdominal extra-vascular interventional procedures by means of Digital Imaging and COmmunications in Medicine (DICOM) image headers and Monte Carlo simulation. The main aim was to assess the effective and equivalent doses, under the hypothesis of their correlation with the dose area product (DAP) measured during each examination. This allows to collect dosimetric information about each patient and to evaluate associated risks without resorting to in vivo dosimetry. The dose calculation was performed in 79 procedures through the Monte Carlo simulator PCXMC (A PC-based Monte Carlo program for calculating patient doses in medical X-ray examinations), by using the real geometrical and dosimetric irradiation conditions, automatically extracted from DICOM headers. The DAP measurements were also validated by using thermoluminescent dosimeters on an anthropomorphic phantom. The expected linear correlation between effective doses and DAP was confirmed with an R(2) of 0.974. Moreover, in order to easily calculate patient doses, conversion coefficients that relate equivalent doses to measurable quantities, such as DAP, were obtained

A spatial model of autocatalytic reactions

Biological cells with all of their surface structure and complex interior stripped away are essentially vesicles - membranes composed of lipid bilayers which form closed sacs. Vesicles are thought to be relevant as models of primitive protocells, and they could have provided the ideal environment for pre-biotic reactions to occur. In this paper, we investigate the stochastic dynamics of a set of autocatalytic reactions, within a spatially bounded domain, so as to mimic a primordial cell. The discreteness of the constituents of the autocatalytic reactions gives rise to large sustained oscillations, even when the number of constituents is quite large. These oscillations are spatio-temporal in nature, unlike those found in previous studies, which consisted only of temporal oscillations. We speculate that these oscillations may have a role in seeding membrane instabilities which lead to vesicle division. In this way synchronization could be achieved between protocell growth and the reproduction rate of the constituents (the protogenetic material) in simple protocells.Comment: Submitted to Phys. Rev.

Anticooperativity in diffusion-controlled reactions with pairs of anisotropic domains: a model for the antigen-antibody encounter

The encounter between anisotropic agents in diffusion-controlled reactions is a topic of very general relevance in chemistry and biology. Here we introduce a simplified model of encounter of an isotropic molecule with a pair of partially reacting agents and apply it to the encounter reaction between an antibody and its antigen. We reduce the problem to the solution of dual series relations, which can be solved iteratively, yielding the exact solution for the encounter rate constant at any desired order of accuracy. We quantify the encounter effectiveness by means of a simple indicator and show that the two binding centers systematically behave in an anticooperative fashion. However, we demonstrate that a reduction of the binding active sites allows the composite molecule to recover binding effectiveness, in spite of the overall reduction of the rate constant. In addition, we provide a simple formula that enables one to calculate the anticooperativity as a function of the size of the binding site for any values of the separation between the two active lobes and of the antigen size. Finally, some biological implications of our results are discusse

Kondo behavior, ferromagnetic correlations, and crystal fields in the heavy Fermion compounds Ce3X (X=In, Sn)

We report measurements of inelastic neutron scattering, magnetic susceptibility, magnetization, and the magnetic field dependence of the specific heat for the heavy Fermion compounds Ce$_3$In and Ce$_3$Sn. The neutron scattering results show that the excited crystal field levels have energies $E_1$ = 13.2 meV, $E_2$ = 44.8 meV for Ce$_3$In and $E_1$ = 18.5 meV, $E_2$ = 36.1 meV for Ce$_3$Sn. The Kondo temperature deduced from the quasielastic linewidth is 17 K for Ce$_3$In and 40 K for Ce$_3$Sn. The low temperature behavior of the specific heat, magnetization, and susceptibility can not be well-described by J=1/2 Kondo physics alone, but require calculations that include contributions from the Kondo effect, broadened crystal fields, and ferromagnetic correlations, all of which are known to be important in these compounds. We find that in Ce$_3$In the ferromagnetic fluctuation makes a 10-15 % contribution to the ground state doublet entropy and magnetization. The large specific heat coefficient $\gamma$ in this heavy fermion system thus arises more from the ferromagnetic correlations than from the Kondo behavior.Comment: 8 pages, 6 figure