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SNP sites are generally discovered by sequencing regions of the human genome in a limited number of individuals. This may leave SNP sites present in the region, but containing rare mutant nucleotides, undetected. Consequently, estimates of nucleotide diversity obtained from assays of detected SNP sites are biased. In this research we present a statistical model of the SNP discovery process, which is used to evaluate the extent of this bias. This model involves the symmetric Beta distribution of...
An analysis of all possible icosahedral viral capsids is proposed. It takes into account
the diversity of coat proteins and their positioning in elementary pentagonal and
hexagonal configurations, leading to definite capsid size. We show that the
self-organization of observed capsids during their production implies a definite
composition and configuration of elementary building blocks. The exact number of different
protein dimers is related to the...
In this paper we investigate the role of spatial effects in determining the
dynamics
of a subclass of signalling pathways characterised by their ability to
demonstrate
oscillatory behaviour. To this end, we formulate a simple spatial model of the
p53
network that accounts for both a negative feedback and a transcriptional delay.
We show that the formation of protein density patterns can depend on the shape
of the cell, position of the nucleus, and the protein diffusion rates. The
temporal...
A diffusive delayed predator-prey model with modified Leslie-Gower and Holling-type II schemes is considered. Local stability for each constant steady state is studied by analyzing the eigenvalues. Some simple and easily verifiable sufficient conditions for global stability are obtained by virtue of the stability of the related FDE and some monotonous iterative sequences. Numerical simulations and reasonable biological explanations are carried out to illustrate the main results and the justification...
We study the existence and uniqueness of the steady state in a model describing the evolution of density of bacteria and oxygen dissolved in water filling a capillary. The steady state is a stationary solution of a nonlinear and nonlocal problem which depends on the energy function and contains two parameters: the total mass of the colony of bacteria and the concentration (or flux) of oxygen at the end of the capillary. The existence and uniqueness of solutions depend on relations between these...
Many protein sequences present non trivial periodicities, such as
cysteine signatures and leucine heptads. These known periodicities
probably represent a small percentage of the total number of sequences
periodic structures, and it is useful to have general tools to
detect such sequences and their period in large databases of
sequences. We compare three statistics adapted from those used in time
series analysis: a generalisation of the simple autocovariance based
on a similarity score and two statistics...
Many protein sequences present non trivial periodicities, such as cysteine signatures and leucine heptads. These known periodicities probably represent a small percentage of the total number of sequences periodic structures, and it is useful to have general tools to detect such sequences and their period in large databases of sequences. We compare three statistics adapted from those used in time series analysis: a generalisation of the simple autocovariance based on a similarity score and two statistics...
Stimuli-responsive polymers result in
on-demand regulation of properties and functioning of various
nanoscale systems. In particular, they allow stimuli-responsive
control of flow rates through membranes and nanofluidic devices
with submicron channel sizes. They also allow regulation of drug
release from nanoparticles and nanofibers in response to
temperature or pH variation in the surrounding medium. In the
present work two relevant mathematical models are introduced to
address precipitation-driven...
During vertebrate development cells acquire different fates depending largely on
their location in the embryo. The definition of a cell's developmental
fate relies on extensive intercellular communication that produces positional
information and ultimately generates an appropriately proportioned anatomy. Here
we place reaction-diffusion mechanisms in the context of general concepts
regarding the generation of positional information during development and then
focus on these mechanisms as parsimonious...
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