Extending a Hybrid Godunov Method for Radiation Hydrodynamics to Multiple Dimensions

This paper presents a hybrid Godunov method for three-dimensional radiation hydrodynamics. The multidimensional technique outlined in this paper is an extension of the one-dimensional method that was developed by Sekora & Stone 2009, 2010. The earlier one-dimensional technique was shown to preserve certain asymptotic limits and be uniformly well behaved from the photon free streaming (hyperbolic) limit through the weak equilibrium diffusion (parabolic) limit and to the strong equilibrium diffusion (hyperbolic) limit. This paper gives the algorithmic details for constructing a multidimensional method. A future paper will present numerical tests that demonstrate the robustness of the computational technique across a wide-range of parameter space.Comment: 25 page

The scattering of LyA radiation in the intergalactic medium: numerical methods and solutions

Two methods are developed for solving the steady-state spherically symmetric radiative transfer equation for resonance line radiation emitted by a point source in the Intergalactic Medium. One method is based on solving the ray and moment equations using finite differences. The second uses a Monte Carlo approach incorporating methods that greatly improve the accuracy compared with previous approaches in this context. Several applications are presented serving as test problems for both a static medium and an expanding medium, including inhomogeneities in the density and velocity fields. Solutions are obtained in the coherent scattering limit and for Doppler RII redistribution with and without recoils. We find generally that the radiation intensity is linear in the cosine of the azimuthal angle with respect to radius to high accuracy over a broad frequency region across the line centre for both linear and perturbed velocity fields, yielding the Eddington factors f(nu) = 1/3 and g(nu) = 3/5. We show the radiation field produced by a point source divides into three spatial regimes for a uniformly expanding homogeneous medium: at radii r small compared with a characteristic radius r*, the mean intensity near line centre varies as 1/ r^(7/3), while at r > r* it approaches 1/ r^2; for r << r* it is modified by frequency redistribution. Before the reionization epoch, r* takes on the universal value 1.1 Mpc, independent of redshift. The mean intensity and scattering rate are found to be very sensitive to the gradient of the velocity field, growing exponentially with the amplitude of the perturbation as the limit of a vanishing velocity gradient is approached near the source. We expect the 21cm signal from the Epoch of Reionization to thus be a sensitive probe of both the density and the peculiar velocity fields.Comment: 27 pages, 26 figures, 10 supplementary tables; submitted to MNRA

Simple Waves in Ideal Radiation Hydrodynamics

In the dynamic diffusion limit of radiation hydrodynamics, advection dominates diffusion; the latter primarily affects small scales and has negligible impact on the large scale flow. The radiation can thus be accurately regarded as an ideal fluid, i.e., radiative diffusion can be neglected along with other forms of dissipation. This viewpoint is applied here to an analysis of simple waves in an ideal radiating fluid. It is shown that much of the hydrodynamic analysis carries over by simply replacing the material sound speed, pressure and index with the values appropriate for a radiating fluid. A complete analysis is performed for a centered rarefaction wave, and expressions are provided for the Riemann invariants and characteristic curves of the one-dimensional system of equations. The analytical solution is checked for consistency against a finite difference numerical integration, and the validity of neglecting the diffusion operator is demonstrated. An interesting physical result is that for a material component with a large number of internal degrees of freedom and an internal energy greater than that of the radiation, the sound speed increases as the fluid is rarefied. These solutions are an excellent test for radiation hydrodynamic codes operating in the dynamic diffusion regime. The general approach may be useful in the development of Godunov numerical schemes for radiation hydrodynamics.Comment: 16 pages, 10 figures, accepted for publication in The Astrophysical Journa

Calcium Messenger Heterogeneity: A Possible Signal for Spike Timing-Dependent Plasticity

Calcium concentrations as well as time courses have been used to model the signaling cascades leading to changes in the strength of synaptic connections. Previous models consider the dendritic spines as uniform compartments regarding calcium signaling. However, calcium concentrations can vary drastically on distances much smaller than typical spine sizes, and downstream targets of calcium signals are often found exactly in these calcium nanodomains. Even though most downstream targets are activated by calcium via calmodulin, which is a diffusive molecule, the capacity of calmodulin to bind to its targets even when it is not fully loaded with calcium allows its downstream cascade to be highly local. In this study, a model is proposed which uses the heterogeneity of calcium concentrations as a signal for spike-timing-dependent plasticity (STDP). The model is minimalistic and includes three sources of calcium in spines: NMDA receptors (NMDARs), voltage gated calcium channels (VGCCs) and IP3 receptors (IP3Rs). It is based on the biochemical cascades and assumption of spatial locations of four calcium-dependent enzymes: calcium/calmodulin-dependent protein kinase II located near NMDARs, calcineurin located near VGCCs, cyclic nucleotide phosphodiesterase (PDE) located near IP3Rs or NMDARs and adenylyl cyclase, located between VDCCs and NMDARs. To quantify the changes in synaptic weights the model also includes a simple description of AMPA receptor insertion in the membrane and docking to the postsynaptic density. Two parameters of the model are tuned such that weight changes produced by either pre or postsynaptic firing alone are minimal. The model reproduces the typical shape of STDP for spike doublets. If PDE is located near IP3Rs, the behavior for spike triplets is consistent with that observed in hippocampal cell culture; if near NMDAR, the behavior is similar to that observed in cortical L2/3 slices

A general theory of intertemporal decision-making and the perception of time

Animals and humans make decisions based on their expected outcomes. Since relevant outcomes are often delayed, perceiving delays and choosing between earlier versus later rewards (intertemporal decision-making) is an essential component of animal behavior. The myriad observations made in experiments studying intertemporal decision-making and time perception have not yet been rationalized within a single theory. Here we present a theory-Training--Integrated Maximized Estimation of Reinforcement Rate (TIMERR)--that explains a wide variety of behavioral observations made in intertemporal decision-making and the perception of time. Our theory postulates that animals make intertemporal choices to optimize expected reward rates over a limited temporal window; this window includes a past integration interval (over which experienced reward rate is estimated) and the expected delay to future reward. Using this theory, we derive a mathematical expression for the subjective representation of time. A unique contribution of our work is in finding that the past integration interval directly determines the steepness of temporal discounting and the nonlinearity of time perception. In so doing, our theory provides a single framework to understand both intertemporal decision-making and time perception.Comment: 37 pages, 4 main figures, 3 supplementary figure