Quantitative assessment of cell fate decision between autophagy and apoptosis

Abstract Autophagy and apoptosis are cellular processes that regulate cell survival and death, the former by eliminating dysfunctional components in the cell, the latter by programmed cell death. Stress signals can induce either process, and it is unclear how cells ‘assess’ cellular damage and make a ‘life’ or ‘death’ decision upon activating autophagy or apoptosis. A computational model of coupled apoptosis and autophagy is built here to analyze the underlying signaling and regulatory network dynamics. The model explains the experimentally observed differential deployment of autophagy and apoptosis in response to various stress signals. Autophagic response dominates at low-to-moderate stress; whereas the response shifts from autophagy (graded activation) to apoptosis (switch-like activation) with increasing stress intensity. The model reveals that cytoplasmic Ca2+ acts as a rheostat that fine-tunes autophagic and apoptotic responses. A G-protein signaling-mediated feedback loop maintains cytoplasmic Ca2+ level, which in turn governs autophagic response through an AMP-activated protein kinase (AMPK)-mediated feedforward loop. Ca2+/calmodulin-dependent kinase kinase β (CaMKKβ) emerges as a determinant of the competing roles of cytoplasmic Ca2+ in autophagy regulation. The study demonstrates that the proposed model can be advantageously used for interrogating cell regulation events and developing pharmacological strategies for modulating cell decisions

Isospin relaxation time in heavy-ion collisions at intermediate energies

Using an isospin-dependent transport model, we have studied the isospin and momentum relaxation times in the heavy residues formed in heavy-ion collisions at intermediate energies. It is found that only at incident energies below the Fermi energy, chemical or thermal equilibrium can be reached before dynamical instability is developed in the heavy residues. Also, the isospin relaxation time is shorter (longer) than that for momentum at beam energies lower (higher) than the Fermi energy.Comment: 8 pages Latex + 2 ps Figs.; Phys. Rev. C in pres

Fluctuations of the number of participants and binary collisions in AA interactions at fixed centrality in the Glauber approach

In the framework of the classical Glauber approach, the analytical expressions for the variance of the number of wounded nucleons and binary collisions in AA interactions at a given centrality are presented. Along with the optical approximation term, they contain additional contact terms arising only in the case of nucleus-nucleus collisions. The magnitude of the additional contributions, e.g., for PbPb collisions at SPS energies, is larger than the contribution of the optical approximation at some values of the impact parameter. The sum of the additional contributions is in good agreement with the results of independent Monte Carlo simulations of this process. Due to these additional terms, the variance of the total number of participants for peripheral PbPb collisions and the variance of the number of collisions at all values of the impact parameter exceed several multiples of the Poisson variances. The correlator between the numbers of participants in colliding nuclei at fixed centrality is also analytically calculated.Comment: updated version; as published by Phys. Rev.

Nearest pattern interaction and global pattern formation

We studied the effect of nearest pattern interaction on a globally pattern formation in a 2-dimensional space, where patterns are to grow initially from a noise in the presence of periodic supply of energy. Although our approach is general, we found that this study is relevant in particular to the pattern formation on a periodically vibrated granular layer, as it gives a unified perspective of the experimentally observed pattern dynamics such as oscillon and stripe formations, skew-varicose and crossroll instabilities, and also a kink formation and decoration

Hydrodynamic Description of Granular Convection

We present a hydrodynamic model that captures the essence of granular dynamics in a vibrating bed. We carry out the linear stability analysis and uncover the instability mechanism that leads to the appearance of the convective rolls via a supercritical bifurcation of a bouncing solution. We also explicitly determine the onset of convection as a function of control parameters and confirm our picture by numerical simulations of the continuum equations.Comment: 14 pages, RevTex 11pages + 3 pages figures (Type csh

Probing the isospin dependent mean field and nucleon nucleon cross section in the medium by the nucleon emissions

We study the isospin effects of the mean field and two-body collision on the nucleon emissions at the intermediate energy heavy ion collisions by using an isospin dependent transport theory. The calculated results show that the nucleon emission number $N_{n}$ depends sensitively the isospin effect of nucleon nucleon cross section and weakly on the isospin dependent mean field for neutron-poor system in higher beam energy region . In particular, the correlation between the medium correction of two-body collision and the momentum dependent interaction enhances the dependence of nucleon emission number $N_{n}$ on the isospin effect of nucleon nucleon cross section. On the contrary, the ratio of the neutron proton ratio of the gas phase to the neutron proton ratio of the liquid phase, i.e., the degree of isospin fractionation $_{b}/_{b}$ depends sensitively on the isospin dependent mean field and weakly on the isospin effect of two-body collision for neutron-rich system in the lower beam energy region. In this case, $N_{n}$ and $_{b}/_{b}$ are the probes for extracting the information about the isospin dependent nucleon nucleon cross section in the medium and the isospin dependent mean field,respectively.Comment: 4 pages,4 figure

Traffic Equations and Granular Convection

We investigate both numerically and analytically the convective instability of granular materials by two dimensional traffic equations. In the absence of vibrations the traffic equations assume two distinctive classes of fixed bed solutions with either a spatially uniform or nonuniform density profile. The former one exists only when the function V(\rho) that monitors the relaxation of grains assumes a cut off at the closed packed density, \rho_c, with V(\rho_c)=0, while the latter one exists for any form of V. Since there is little difference between the uniform and nonuniform solution deep inside the bed, the convective instability of the bulk may be studied by focusing on the stability of the uniform solution. In the presence of vibrations, we find that the uniform solution bifurcates into a bouncing solution, which then undergoes a supercritical bifurcation to the convective instability. We determine the onset of convection as a function of control parameters and confirm this picture by solving the traffic equations numerically, which reveals bouncing solutions, two convective rolls, and four convective rolls. Further, convective patterns change as the aspect ratio changes: in a vertically long container, the rolls move toward the surface, and in a horizontally long container, the rolls move toward the walls. We compare these results with those reported previously with a different continuum model by Hayakawa, Yue and Hong[Phys. Rev. Lett. 75,2328, 1995]. Finally, we also present a derivation of the traffic equations from Enskoq equation.Comment: 34 pages, 10 figure

Hand problems among endourologists.

BACKGROUND AND PURPOSE: Endourology has evolved rapidly for the management of both benign and malignant disease of the upper urinary tract. Limited data exist, however, on the occupational hazards posed by complex endourologic procedures. The aim of this study was to determine the prevalence and possible causes of hand problems among endourologists who routinely perform flexible ureteroscopy compared with controls. MATERIALS AND METHODS: An online computer survey targeted members of the Endourological Society and psychiatrists in academic and community settings. A total of 600 endourologists and 578 psychiatrists were contacted by e-mail. Invited physicians were queried regarding their practice settings and symptoms of hand pain, neuropathy, and/or discomfort. RESULTS: Survey responses were obtained from 122 (20.3%) endourologists and 74 (12.8%) psychiatrists. Of endourologists, 61% were in an academic setting and 70% devoted their practice to endourology. Endourologists were in practice for a mean 13 years, performing 4.5 ureteroscopic cases per week with a mean operative time of 50 minutes. Hand/wrist problems were reported by 39 (32%) endourologists compared with 14 (19%) psychiatrists (P=0.0486, relative risk [RR]=1.69). Surgeons who preferred counterintuitive ureteroscope deflection were significantly more likely to have problems (56%) compared with intuitive users (27%) (RR 2.07, P=0.0139) or those with no preference (26%) (RR 2.15, P=0.0451). Overall, most respondents (85%) with hand/wrist problems needed either medical or surgical intervention. CONCLUSIONS: Hand and wrist problems are very common among endourologists. Future studies are needed to develop more ergonomic platforms and thereby reduce the endourologist\u27s exposure to these occupational hazards

Unparticle physics in top pair signals at the LHC and ILC

We study the effects of unparticle physics in the pair productions of top quarks at the LHC and ILC. By considering vector, tensor and scalar unparticle operators, as appropriate, we compute the total cross sections for pair production processes depending on scale dimension d_{\U}. We find that the existence of unparticles would lead to measurable enhancements on the SM predictions at the LHC. In the case of ILC this may become two orders of magnitude larger than that of SM, for smaller values of d_\U, a very striking signal for unparticles.Comment: 19 pages, 9 figures, analysis for ILC has been adde