Adiabatic interpretation of particle creation in a de Sitter universe

The choice of vacuum state for a quantum scalar field propagating in a de Sitter spacetime (massive and arbitrarily coupled to the gravitational field) is discussed. The problem of finite-time initial conditions for the mode functions is analyzed, as well as how these determine the vacuum state of the quantum system. The principle guiding the choice of vacuum state is the following: one wants the vacuum contribution to the energy-momentum tensor to contain all the ultraviolet divergent terms, so that the particle creation terms are finite, and covariantly conserved. There is a suitable set of modes (instantaneous adiabatic basis) in which this splitting of the expectation value of the energy-momentum tensor can be carried out. Numerical results are presented for different finite-time initial conditions (m = 0.6, {zeta} = 1/6). The nature of the particle creation effect is described and its relationship to the concept of a horizon crossing time is shown. These numerical results imply that back-reaction can be important and should be the subject of further research

Diffusion in a Disk with a Circular Inclusion

We consider diffusion in a disk, representing a cell with a circular interior compartment. Using bipolar coordinates, we perform exact calculations, not restricted by the size or location of the intracellular compartment. We find Green functions, hitting densities and mean times to move from the compartment to the cellular surface and vice versa. For molecules with diffusivity $D$, mean times are proportional to $R^2/D$, where $R$ is the radius of the cell. We find explicit expressions for the dependence on $a^2$ (the fraction of the cell occupied by the intracellular compartment) and on the displacement of the compartment from the center of the cell. We consider distributions of initial conditions that are (i) uniform on the nuclear surface, (ii) uniform on the cellular surface, or (iii) given by the hitting density of particles diffusing from the nuclear to the cellular surface

Sampling from T cell receptor repertoires

Modern single-cell sequencing techniques allow the unique TCR signature of each of a sample of hundreds of T cells to be read. The mathematical challenge is to extrapolate from the properties of a sample to those of the whole repertoire of an individual, made up of many millions of T cells. We consider the distribution of the number of repeats of any TCR in a sample, the mean number of samples needed to find a repeat with probability one half, and the relationship between the true distribution of clonal sizes and that experimentally observed in the sample. We consider two special cases, where the distribution of clonal sizes is geometric, and where a subset of clones in the repertoire is expanded

Sonoluminescence as a QED vacuum effect: Probing Schwinger's proposal

Several years ago Schwinger proposed a physical mechanism for sonoluminescence in terms of photon production due to changes in the properties of the quantum-electrodynamic (QED) vacuum arising from a collapsing dielectric bubble. This mechanism can be re-phrased in terms of the Casimir effect and has recently been the subject of considerable controversy. The present paper probes Schwinger's suggestion in detail: Using the sudden approximation we calculate Bogolubov coefficients relating the QED vacuum in the presence of the expanded bubble to that in the presence of the collapsed bubble. In this way we derive an estimate for the spectrum and total energy emitted. We verify that in the sudden approximation there is an efficient production of photons, and further that the main contribution to this dynamic Casimir effect comes from a volume term, as per Schwinger's original calculation. However, we also demonstrate that the timescales required to implement Schwinger's original suggestion are not physically relevant to sonoluminescence. Although Schwinger was correct in his assertion that changes in the zero-point energy lead to photon production, nevertheless his original model is not appropriate for sonoluminescence. In other works (see quant-ph/9805023, quant-ph/9904013, quant-ph/9904018, quant-ph/9905034) we have developed a variant of Schwinger's model that is compatible with the physically required timescales.Comment: 18 pages, ReV_TeX 3.2, 9 figures. Major revisions: This document is now limited to providing a probe of Schwinger's original suggestion for sonoluminescence. For details on our own variant of Schwinger's ideas see quant-ph/9805023, quant-ph/9904013, quant-ph/9904018, quant-ph/990503

Stochastic dynamics of Francisella tularensis infection and replication

We study the pathogenesis of Francisella tularensis infection with an experimental mouse model, agent-based computation and mathematical analysis. Following inhalational exposure to Francisella tularensis SCHU S4, a small initial number of bacteria enter lung host cells and proliferate inside them, eventually destroying the host cell and releasing numerous copies that infect other cells. Our analysis of disease progression is based on a stochastic model of a population of infectious agents inside one host cell, extending the birth-and-death process by the occurrence of catastrophes: cell rupture events that affect all bacteria in a cell simultaneously. Closed expressions are obtained for the survival function of an infected cell, the number of bacteria released as a function of time after infection, and the total bacterial load. We compare our mathematical analysis with the results of agent-based computation and, making use of approximate Bayesian statistical inference, with experimental measurements carried out after murine aerosol infection with the virulent SCHU S4 strain of the bacterium Francisella tularensis, that infects alveolar macrophages. The posterior distribution of the rate of replication of intracellular bacteria is consistent with the estimate that the time between rounds of bacterial division is less than 6 hours in vivo