6,038 research outputs found
A model of a pumped continuous atom laser
We present a model of a cw atom laser based on a system of coupled GP
equations. The model incorporates continuous Raman outcoupling, pumping and
three-body recombination. The outcoupled field has minimal atomic density
fluctuations and is locally monochromatic.Comment: 10 pages, 8 eps figures, typos fixe
Stability of continuously pumped atom lasers
A multimode model of a continuously pumped atom laser is shown to be unstable
below a critical value of the scattering length. Above the critical scattering
length, the atom laser reaches a steady state, the stability of which increases
with pumping. Below this limit the laser does not reach a steady state. This
instability results from the competition between gain and loss for the excited
states of the lasing mode. It will determine a fundamental limit for the
linewidth of an atom laser beam.Comment: 4 page
Remote Detection of Saline Intrusion in a Coastal Aquifer Using Borehole Measurements of Self-Potential
Funded by NERC CASE studentship . Grant Number: NE/I018417/1Peer reviewedPublisher PD
DNA and pacific commensal models : applications, construction, limitations, and future prospects
Components of the Pacific transported landscape have been used as proxies to trace the prehistoric movement of humans across the Pacific for almost two decades. Analyses of archaeological remains and DNA sequences of plants, animals, and microorganisms moved by or with humans have contributed to understanding prehistoric migration, trade, exchange, and sometimes revealed the geographic origins of particular plants and animals. This paper presents the basic elements of a DNA-based commensal model and discusses the phylogenetic and population genetic approaches these models employ. A clear delineation of the underlying assumptions of these models and the background information required to construct them have yet to appear in the literature. This not only provides a framework with which to construct a commensal model but also highlights gaps in current knowledge. The ways in which commensal models have enriched archaeological reconstructions will be highlighted, as will their current limitations. With these limitations in mind, options will be outlined for augmenting commensal models through the application of established techniques and new technologies in order to provide the best tools for reconstructing ancient human mobility and behavior in the Pacific and beyond
Sparse Nerves in Practice
Topological data analysis combines machine learning with methods from
algebraic topology. Persistent homology, a method to characterize topological
features occurring in data at multiple scales is of particular interest. A
major obstacle to the wide-spread use of persistent homology is its
computational complexity. In order to be able to calculate persistent homology
of large datasets, a number of approximations can be applied in order to reduce
its complexity. We propose algorithms for calculation of approximate sparse
nerves for classes of Dowker dissimilarities including all finite Dowker
dissimilarities and Dowker dissimilarities whose homology is Cech persistent
homology. All other sparsification methods and software packages that we are
aware of calculate persistent homology with either an additive or a
multiplicative interleaving. In dowker_homology, we allow for any
non-decreasing interleaving function . We analyze the computational
complexity of the algorithms and present some benchmarks. For Euclidean data in
dimensions larger than three, the sizes of simplicial complexes we create are
in general smaller than the ones created by SimBa. Especially when calculating
persistent homology in higher homology dimensions, the differences can become
substantial
Bayesian Exponential Random Graph Models with Nodal Random Effects
We extend the well-known and widely used Exponential Random Graph Model
(ERGM) by including nodal random effects to compensate for heterogeneity in the
nodes of a network. The Bayesian framework for ERGMs proposed by Caimo and
Friel (2011) yields the basis of our modelling algorithm. A central question in
network models is the question of model selection and following the Bayesian
paradigm we focus on estimating Bayes factors. To do so we develop an
approximate but feasible calculation of the Bayes factor which allows one to
pursue model selection. Two data examples and a small simulation study
illustrate our mixed model approach and the corresponding model selection.Comment: 23 pages, 9 figures, 3 table
Assessing the Contributions of Family Structure, Class and Peer Groups to Juvenile Delinquency
Quantifying evolutionary constraints on B cell affinity maturation
The antibody repertoire of each individual is continuously updated by the
evolutionary process of B cell receptor mutation and selection. It has recently
become possible to gain detailed information concerning this process through
high-throughput sequencing. Here, we develop modern statistical molecular
evolution methods for the analysis of B cell sequence data, and then apply them
to a very deep short-read data set of B cell receptors. We find that the
substitution process is conserved across individuals but varies significantly
across gene segments. We investigate selection on B cell receptors using a
novel method that side-steps the difficulties encountered by previous work in
differentiating between selection and motif-driven mutation; this is done
through stochastic mapping and empirical Bayes estimators that compare the
evolution of in-frame and out-of-frame rearrangements. We use this new method
to derive a per-residue map of selection, which provides a more nuanced view of
the constraints on framework and variable regions.Comment: Previously entitled "Substitution and site-specific selection driving
B cell affinity maturation is consistent across individuals
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