604 research outputs found
Single Stranded DNA Translocation Through A Nanopore: A Master Equation Approach
We study voltage driven translocation of a single stranded (ss) DNA through a
membrane channel. Our model, based on a master equation (ME) approach,
investigates the probability density function (pdf) of the translocation times,
and shows that it can be either double or mono-peaked, depending on the system
parameters. We show that the most probable translocation time is proportional
to the polymer length, and inversely proportional to the first or second power
of the voltage, depending on the initial conditions. The model recovers
experimental observations on hetro-polymers when using their properties inside
the pore, such as stiffness and polymer-pore interaction.Comment: 7 pages submitted to PR
Stochastic volatility and leverage effect
We prove that a wide class of correlated stochastic volatility models exactly
measure an empirical fact in which past returns are anticorrelated with future
volatilities: the so-called ``leverage effect''. This quantitative measure
allows us to fully estimate all parameters involved and it will entail a deeper
study on correlated stochastic volatility models with practical applications on
option pricing and risk management.Comment: 4 pages, 2 figure
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Random Migration and Signal Integration Promote Rapid and Robust T Cell Recruitment
To fight infections, rare T cells must quickly home to appropriate lymph nodes (LNs), and reliably localize the antigen (Ag) within them. The first challenge calls for rapid trafficking between LNs, whereas the second may require extensive search within each LN. Here we combine simulations and experimental data to investigate which features of random T cell migration within and between LNs allow meeting these two conflicting demands. Our model indicates that integrating signals from multiple random encounters with Ag-presenting cells permits reliable detection of even low-dose Ag, and predicts a kinetic feature of cognate T cell arrest in LNs that we confirm using intravital two-photon data. Furthermore, we obtain the most reliable retention if T cells transit through LNs stochastically, which may explain the long and widely distributed LN dwell times observed in vivo. Finally, we demonstrate that random migration, both between and within LNs, allows recruiting the majority of cognate precursors within a few days for various realistic infection scenarios. Thus, the combination of two-scale stochastic migration and signal integration is an efficient and robust strategy for T cell immune surveillance
“That old ocean is a tremendous barrier between us and home”: how young people and their families spoke across distance during the First World War
Thousands of miles and countless other barriers — including illiteracy, technological limitations and experiential differences — distanced soldiers serving in the First World War from their families living in the Canadian Prairie Provinces. This thesis draws on hundreds of letters sent between these families to examine the numerous strategies they used to overcome this distance maintain their relationships during the conflict. It examines in depth the work that young people (under the age of twenty-five) performed within their families and draws on methods from social history to uncover their unique experiences.Government of Canada's History Awards, Roger Soderstrom Scholarship, Profiling our Students Travel Award, Queen Elizabeth II Scholarshi
Anomalous Dynamics of Forced Translocation
We consider the passage of long polymers of length N through a hole in a
membrane. If the process is slow, it is in principle possible to focus on the
dynamics of the number of monomers s on one side of the membrane, assuming that
the two segments are in equilibrium. The dynamics of s(t) in such a limit would
be diffusive, with a mean translocation time scaling as N^2 in the absence of a
force, and proportional to N when a force is applied. We demonstrate that the
assumption of equilibrium must break down for sufficiently long polymers (more
easily when forced), and provide lower bounds for the translocation time by
comparison to unimpeded motion of the polymer. These lower bounds exceed the
time scales calculated on the basis of equilibrium, and point to anomalous
(sub-diffusive) character of translocation dynamics. This is explicitly
verified by numerical simulations of the unforced translocation of a
self-avoiding polymer. Forced translocation times are shown to strongly depend
on the method by which the force is applied. In particular, pulling the polymer
by the end leads to much longer times than when a chemical potential difference
is applied across the membrane. The bounds in these cases grow as N^2 and
N^{1+\nu}, respectively, where \nu is the exponent that relates the scaling of
the radius of gyration to N. Our simulations demonstrate that the actual
translocation times scale in the same manner as the bounds, although influenced
by strong finite size effects which persist even for the longest polymers that
we considered (N=512).Comment: 13 pages, RevTeX4, 16 eps figure
Anomalous Dynamics of Translocation
We study the dynamics of the passage of a polymer through a membrane pore
(translocation), focusing on the scaling properties with the number of monomers
. The natural coordinate for translocation is the number of monomers on one
side of the hole at a given time. Commonly used models which assume Brownian
dynamics for this variable predict a mean (unforced) passage time that
scales as , even in the presence of an entropic barrier. However, the time
it takes for a free polymer to diffuse a distance of the order of its radius by
Rouse dynamics scales with an exponent larger than 2, and this should provide a
lower bound to the translocation time. To resolve this discrepancy, we perform
numerical simulations with Rouse dynamics for both phantom (in space dimensions
and 2), and self-avoiding (in ) chains. The results indicate that
for large , translocation times scale in the same manner as diffusion times,
but with a larger prefactor that depends on the size of the hole. Such scaling
implies anomalous dynamics for the translocation process. In particular, the
fluctuations in the monomer number at the hole are predicted to be
non-diffusive at short times, while the average pulling velocity of the polymer
in the presence of a chemical potential difference is predicted to depend on
.Comment: 9 pages, 9 figures. Submitted to Physical Review
Random migration and signal integration promote rapid and robust T cell recruitment
FWN – Publicaties zonder aanstelling Universiteit Leide
Theory and simulation of quantum photovoltaic devices based on the non-equilibrium Green's function formalism
This article reviews the application of the non-equilibrium Green's function
formalism to the simulation of novel photovoltaic devices utilizing quantum
confinement effects in low dimensional absorber structures. It covers
well-known aspects of the fundamental NEGF theory for a system of interacting
electrons, photons and phonons with relevance for the simulation of
optoelectronic devices and introduces at the same time new approaches to the
theoretical description of the elementary processes of photovoltaic device
operation, such as photogeneration via coherent excitonic absorption,
phonon-mediated indirect optical transitions or non-radiative recombination via
defect states. While the description of the theoretical framework is kept as
general as possible, two specific prototypical quantum photovoltaic devices, a
single quantum well photodiode and a silicon-oxide based superlattice absorber,
are used to illustrated the kind of unique insight that numerical simulations
based on the theory are able to provide.Comment: 20 pages, 10 figures; invited review pape
The impacts of environmental warming on Odonata: a review
Climate change brings with it unprecedented rates of increase in environmental temperature, which will have major consequences for the earth's flora and fauna. The Odonata represent a taxon that has many strong links to this abiotic factor due to its tropical evolutionary history and adaptations to temperate climates. Temperature is known to affect odonate physiology including life-history traits such as developmental rate, phenology and seasonal regulation as well as immune function and the production of pigment for thermoregulation. A range of behaviours are likely to be affected which will, in turn, influence other parts of the aquatic ecosystem, primarily through trophic interactions. Temperature may influence changes in geographical distributions, through a shifting of species' fundamental niches, changes in the distribution of suitable habitat and variation in the dispersal ability of species. Finally, such a rapid change in the environment results in a strong selective pressure towards adaptation to cope and the inevitable loss of some populations and, potentially, species. Where data are lacking for odonates, studies on other invertebrate groups will be considered. Finally, directions for research are suggested, particularly laboratory studies that investigate underlying causes of climate-driven macroecological patterns
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