A quasitopos containing CONV and MET as full subcategories

We show that convergence spaces with continuous maps and metric spaces with contractions, can be viewed as entities of the same kind. Both can be characterized by a limit function λ which with each filter ℱ associates a map λℱ from the underlying set to the extended positive real line. Continuous maps and contractions can both be characterized as limit function preserving maps

Self-Organized Criticality model for Brain Plasticity

Networks of living neurons exhibit an avalanche mode of activity, experimentally found in organotypic cultures. Here we present a model based on self-organized criticality and taking into account brain plasticity, which is able to reproduce the spectrum of electroencephalograms (EEG). The model consists in an electrical network with threshold firing and activity-dependent synapse strenghts. The system exhibits an avalanche activity power law distributed. The analysis of the power spectra of the electrical signal reproduces very robustly the power law behaviour with the exponent 0.8, experimentally measured in EEG spectra. The same value of the exponent is found on small-world lattices and for leaky neurons, indicating that universality holds for a wide class of brain models.Comment: 4 pages, 3 figure

Statistical Signatures of Structural Organization: The case of long memory in renewal processes

Identifying and quantifying memory are often critical steps in developing a mechanistic understanding of stochastic processes. These are particularly challenging and necessary when exploring processes that exhibit long-range correlations. The most common signatures employed rely on second-order temporal statistics and lead, for example, to identifying long memory in processes with power-law autocorrelation function and Hurst exponent greater than $1/2$. However, most stochastic processes hide their memory in higher-order temporal correlations. Information measures---specifically, divergences in the mutual information between a process' past and future (excess entropy) and minimal predictive memory stored in a process' causal states (statistical complexity)---provide a different way to identify long memory in processes with higher-order temporal correlations. However, there are no ergodic stationary processes with infinite excess entropy for which information measures have been compared to autocorrelation functions and Hurst exponents. Here, we show that fractal renewal processes---those with interevent distribution tails $\propto t^{-\alpha}$---exhibit long memory via a phase transition at $\alpha = 1$. Excess entropy diverges only there and statistical complexity diverges there and for all $\alpha < 1$. When these processes do have power-law autocorrelation function and Hurst exponent greater than $1/2$, they do not have divergent excess entropy. This analysis breaks the intuitive association between these different quantifications of memory. We hope that the methods used here, based on causal states, provide some guide as to how to construct and analyze other long memory processes.Comment: 13 pages, 2 figures, 3 appendixes; http://csc.ucdavis.edu/~cmg/compmech/pubs/lrmrp.ht

Liquid-liquid equilibrium for monodisperse spherical particles

A system of identical particles interacting through an isotropic potential that allows for two preferred interparticle distances is numerically studied. When the parameters of the interaction potential are adequately chosen, the system exhibits coexistence between two different liquid phases (in addition to the usual liquid-gas coexistence). It is shown that this coexistence can occur at equilibrium, namely, in the region where the liquid is thermodynamically stable.Comment: 6 pages, 8 figures. Published versio

Spatiotemporal complexity of the universe at subhorizon scales

This is a short note on the spatiotemporal complexity of the dynamical state(s) of the universe at subhorizon scales (up to 300 Mpc). There are reasons, based mainly on infrared radiative divergences, to believe that one can encounter a flicker noise in the time domain, while in the space domain, the scaling laws are reflected in the (multi)fractal distribution of galaxies and their clusters. There exist recent suggestions on a unifying treatment of these two aspects within the concept of spatiotemporal complexity of dynamical systems driven out of equilibrium. Spatiotemporal complexity of the subhorizon dynamical state(s) of the universe is a conceptually nice idea and may lead to progress in our understanding of the material structures at large scalesComment: references update

Non-equilibrium dynamics of stochastic point processes with refractoriness

Stochastic point processes with refractoriness appear frequently in the quantitative analysis of physical and biological systems, such as the generation of action potentials by nerve cells, the release and reuptake of vesicles at a synapse, and the counting of particles by detector devices. Here we present an extension of renewal theory to describe ensembles of point processes with time varying input. This is made possible by a representation in terms of occupation numbers of two states: Active and refractory. The dynamics of these occupation numbers follows a distributed delay differential equation. In particular, our theory enables us to uncover the effect of refractoriness on the time-dependent rate of an ensemble of encoding point processes in response to modulation of the input. We present exact solutions that demonstrate generic features, such as stochastic transients and oscillations in the step response as well as resonances, phase jumps and frequency doubling in the transfer of periodic signals. We show that a large class of renewal processes can indeed be regarded as special cases of the model we analyze. Hence our approach represents a widely applicable framework to define and analyze non-stationary renewal processes.Comment: 8 pages, 4 figure

Correlation studies of open and closed states fluctuations in an ion channel: Analysis of ion current through a large conductance locust potassium channel

Ion current fluctuations occurring within open and closed states of large conductance locust potassium channel (BK channel) were investigated for the existence of correlation. Both time series, extracted from the ion current signal, were studied by the autocorrelation function (AFA) and the detrended fluctuation analysis (DFA) methods. The persistent character of the short- and middle-range correlations of time series is shown by the slow decay of the autocorrelation function. The DFA exponent $\alpha$ is significantly larger than 0.5. The existence of strongly-persistent long-range correlations was detected only for closed-states fluctuations, with $\alpha=0.98\pm0.02$. The long-range correlation of the BK channel action is therefore determined by the character of closed states. The main outcome of this study is that the memory effect is present not only between successive conducting states of the channel but also independently within the open and closed states themselves. As the ion current fluctuations give information about the dynamics of the channel protein, our results point to the correlated character of the protein movement regardless whether the channel is in its open or closed state.Comment: 12 pages, 5 figures; to be published in Phys. Rev.

Gaugino condensation scale of one family hidden SU(5)', dilaton stabilization and gravitino mass

The hidden SU(5)' with one family, 10 and 5-bar, breaks supersymmetry dynamically. From the effective Lagrangian approach, we estimate the hidden sector gaugino candensation scale, the dilaton stabilization and the resulting gravitino mass. In some models, this gravitino mass can be smaller than the previous naive estimate. Then, it is possible to raise the SU(5)' confining scale above 10^{13} GeV.Comment: 8 pages, 4 figure

Integrated random processes exhibiting long tails, finite moments and 1/f spectra

A dynamical model based on a continuous addition of colored shot noises is presented. The resulting process is colored and non-Gaussian. A general expression for the characteristic function of the process is obtained, which, after a scaling assumption, takes on a form that is the basis of the results derived in the rest of the paper. One of these is an expansion for the cumulants, which are all finite, subject to mild conditions on the functions defining the process. This is in contrast with the Levy distribution -which can be obtained from our model in certain limits- which has no finite moments. The evaluation of the power spectrum and the form of the probability density function in the tails of the distribution shows that the model exhibits a 1/f spectrum and long tails in a natural way. A careful analysis of the characteristic function shows that it may be separated into a part representing a Levy processes together with another part representing the deviation of our model from the Levy process. This allows our process to be viewed as a generalization of the Levy process which has finite moments.Comment: Revtex (aps), 15 pages, no figures. Submitted to Phys. Rev.

A novel HLA-B18 restricted CD8+ T cell epitope is efficiently cross-presented by dendritic cells from soluble tumor antigen

NY-ESO-1 has been a major target of many immunotherapy trials because it is expressed by various cancers and is highly immunogenic. In this study, we have identified a novel HLA-B*1801-restricted CD8&lt;sup&gt;+&lt;/sup&gt;T cell epitope, NY-ESO-1&lt;sub&gt;88–96&lt;/sub&gt; (LEFYLAMPF) and compared its direct- and cross-presentation to that of the reported NY-ESO-1&lt;sub&gt;157–165&lt;/sub&gt; epitope restricted to HLA-A*0201. Although both epitopes were readily cross-presented by DCs exposed to various forms of full-length NY-ESO-1 antigen, remarkably NY-ESO-1&lt;sub&gt;88–96&lt;/sub&gt; is much more efficiently cross-presented from the soluble form, than NY-ESO-1&lt;sub&gt;157–165&lt;/sub&gt;. On the other hand, NY-ESO-1&lt;sub&gt;157–165&lt;/sub&gt; is efficiently presented by NY-ESO-1-expressing tumor cells and its presentation was not enhanced by IFN-γ treatment, which induced immunoproteasome as demonstrated by Western blots and functionally a decreased presentation of Melan A&lt;sub&gt;26–35&lt;/sub&gt;; whereas NY-ESO-1&lt;sub&gt;88–96&lt;/sub&gt; was very inefficiently presented by the same tumor cell lines, except for one that expressed high level of immunoproteasome. It was only presented when the tumor cells were first IFN-γ treated, followed by infection with recombinant vaccinia virus encoding NY-ESO-1, which dramatically increased NY-ESO-1 expression. These data indicate that the presentation of NY-ESO-1&lt;sub&gt;88–96&lt;/sub&gt; is immunoproteasome dependent. Furthermore, a survey was conducted on multiple samples collected from HLA-B18+ melanoma patients. Surprisingly, all the detectable responses to NY-ESO-1&lt;sub&gt;88–96&lt;/sub&gt; from patients, including those who received NY-ESO-1 ISCOMATRIX™ vaccine were induced spontaneously. Taken together, these results imply that some epitopes can be inefficiently presented by tumor cells although the corresponding CD8&lt;sup&gt;+&lt;/sup&gt;T cell responses are efficiently primed in vivo by DCs cross-presenting these epitopes. The potential implications for cancer vaccine strategies are further discussed