881 research outputs found
A method for the reconstruction of unknown non-monotonic growth functions in the chemostat
We propose an adaptive control law that allows one to identify unstable
steady states of the open-loop system in the single-species chemostat model
without the knowledge of the growth function. We then show how one can use this
control law to trace out (reconstruct) the whole graph of the growth function.
The process of tracing out the graph can be performed either continuously or
step-wise. We present and compare both approaches. Even in the case of two
species in competition, which is not directly accessible with our approach due
to lack of controllability, feedback control improves identifiability of the
non-dominant growth rate.Comment: expansion of ideas from proceedings paper (17 pages, 8 figures),
proceedings paper is version v
Bayesian inference of biochemical kinetic parameters using the linear noise approximation
Background
Fluorescent and luminescent gene reporters allow us to dynamically quantify changes in molecular species concentration over time on the single cell level. The mathematical modeling of their interaction through multivariate dynamical models requires the deveopment of effective statistical methods to calibrate such models against available data. Given the prevalence of stochasticity and noise in biochemical systems inference for stochastic models is of special interest. In this paper we present a simple and computationally efficient algorithm for the estimation of biochemical kinetic parameters from gene reporter data.
Results
We use the linear noise approximation to model biochemical reactions through a stochastic dynamic model which essentially approximates a diffusion model by an ordinary differential equation model with an appropriately defined noise process. An explicit formula for the likelihood function can be derived allowing for computationally efficient parameter estimation. The proposed algorithm is embedded in a Bayesian framework and inference is performed using Markov chain Monte Carlo.
Conclusion
The major advantage of the method is that in contrast to the more established diffusion approximation based methods the computationally costly methods of data augmentation are not necessary. Our approach also allows for unobserved variables and measurement error. The application of the method to both simulated and experimental data shows that the proposed methodology provides a useful alternative to diffusion approximation based methods
The Incidence of Highly-Obscured Star-Forming Regions in SINGS Galaxies
Using the new capabilities of the Spitzer Space Telescope and extensive
multiwavelength data from the Spitzer Infrared Nearby Galaxies Survey (SINGS),
it is now possible to study the infrared properties of star formation in nearby
galaxies down to scales equivalent to large HII regions. We are therefore able
to determine what fraction of large, infrared-selected star-forming regions in
normal galaxies are highly obscured and address how much of the star formation
we miss by relying solely on the optical portion of the spectrum. Employing a
new empirical method for deriving attenuations of infrared-selected
star-forming regions we investigate the statistics of obscured star formation
on 500pc scales in a sample of 38 nearby galaxies. We find that the median
attenuation is 1.4 magnitudes in H-alpha and that there is no evidence for a
substantial sub-population of uniformly highly-obscured star-forming regions.
The regions in the highly-obscured tail of the attenuation distribution
(A_H-alpha > 3) make up only ~4% of the sample of nearly 1800 regions, though
very embedded infrared sources on the much smaller scales and lower
luminosities of compact and ultracompact HII regions are almost certainly
present in greater numbers. The highly-obscured cases in our sample are
generally the bright, central regions of galaxies with high overall attenuation
but are not otherwise remarkable. We also find that a majority of the galaxies
show decreasing radial trends in H-alpha attenuation. The small fraction of
highly-obscured regions seen in this sample of normal, star-forming galaxies
suggests that on 500pc scales the timescale for significant dispersal or break
up of nearby, optically-thick dust clouds is short relative to the lifetime of
a typical star-forming region.Comment: Accepted for publication in ApJ; emulateapj style, 30 pages, 18
figures (compressed versions), 3 table
Re-Assembly of the Genome of Francisella tularensis Subsp. holarctica OSU18
Francisella tularensis is a highly infectious human intracellular pathogen that is the causative agent of tularemia. It occurs in several major subtypes, including the live vaccine strain holarctica (type B). F. tularensis is classified as category A biodefense agent in part because a relatively small number of organisms can cause severe illness. Three complete genomes of subspecies holarctica have been sequenced and deposited in public archives, of which OSU18 was the first and the only strain for which a scientific publication has appeared [1]. We re-assembled the OSU18 strain using both de novo and comparative assembly techniques, and found that the published sequence has two large inversion mis-assemblies. We generated a corrected assembly of the entire genome along with detailed information on the placement of individual reads within the assembly. This assembly will provide a more accurate basis for future comparative studies of this pathogen
Asteroseismology
Asteroseismology is the determination of the interior structures of stars by
using their oscillations as seismic waves. Simple explanations of the
astrophysical background and some basic theoretical considerations needed in
this rapidly evolving field are followed by introductions to the most important
concepts and methods on the basis of example. Previous and potential
applications of asteroseismology are reviewed and future trends are attempted
to be foreseen.Comment: 38 pages, 13 figures, to appear in: "Planets, Stars and Stellar
Systems", eds. T. D. Oswalt et al., Springer Verla
The Updated Zwicky Catalog (UZC)
The Zwicky Catalog of galaxies (ZC), with m_Zw<=15.5mag, has been the basis
for the Center for Astrophysics (CfA) redshift surveys. To date, analyses of
the ZC and redshift surveys based on it have relied on heterogeneous sets of
galaxy coordinates and redshifts. Here we correct some of the inadequacies of
previous catalogs by providing: (1) coordinates with <~2 arcsec errors for all
of the Nuzc catalog galaxies, (2) homogeneously estimated redshifts for the
majority (98%) of the data taken at the CfA (14,632 spectra), and (3) an
estimate of the remaining "blunder" rate for both the CfA redshifts and for
those compiled from the literature. For the reanalyzed CfA data we include a
calibrated, uniformly determined error and an indication of the presence of
emission lines in each spectrum. We provide redshifts for 7,257 galaxies in the
CfA2 redshift survey not previously published; for another 5,625 CfA redshifts
we list the remeasured or uniformly re-reduced value. Among our new
measurements, Nmul are members of UZC "multiplets" associated with the original
Zwicky catalog position in the coordinate range where the catalog is 98%
complete. These multiplets provide new candidates for examination of tidal
interactions among galaxies. All of the new redshifts correspond to UZC
galaxies with properties recorded in the CfA redshift compilation known as
ZCAT. About 1,000 of our new measurements were motivated either by inadequate
signal-to-noise in the original spectrum or by an ambiguous identification of
the galaxy associated with a ZCAT redshift. The redshift catalog we include
here is ~96% complete to m_Zw<=15.5, and ~98% complete (12,925 galaxies out of
a total of 13,150) for the RA(1950) ranges [20h--4h] and [8h--17h] and
DEC(1950) range [-2.5d--50d]. (abridged)Comment: 34 pp, 7 figs, PASP 1999, 111, 43
The impact on staff of working with personality disordered offenders: A systematic review
© 2015 Freestone et al. Background: Personality disordered offenders (PDOs) are generally considered difficult to manage and to have a negative impact on staff working with them. Aims: This study aimed to provide an overview of studies examining the impact on staff of working with PDOs, identify impact areas associated with working with PDOs, identify gaps in existing research,and direct future research efforts. Methods: The authors conducted a systematic review of the English-language literature from 1964-2014 across 20 databases in the medical and social sciences. Results: 27 papers were included in the review. Studies identified negative impacts upon staff including: negative attitudes, burnout, stress, negative counter-transferential experiences; two studies found positive impacts of job excitement and satisfaction, and the evidence related to perceived risk of violence from PDOs was equivocal. Studies demonstrated considerable heterogeneity and meta-analysis was not possible. The overall level of identified evidence was low: 23 studies (85%) were descriptive only, and only one adequately powered cohort study was found. Conclusions: The review identified a significant amount of descriptive literature, but only one cohort study and no trials or previous systematic reviews of literatures. Clinicians and managers working with PDOs should be aware of the potential impacts identified, but there is an urgent need for further research focusing on the robust evaluation of interventions to minimise harm to staff working with offenders who suffer from personality disorder Copyright
Interaction Between Convection and Pulsation
This article reviews our current understanding of modelling convection
dynamics in stars. Several semi-analytical time-dependent convection models
have been proposed for pulsating one-dimensional stellar structures with
different formulations for how the convective turbulent velocity field couples
with the global stellar oscillations. In this review we put emphasis on two,
widely used, time-dependent convection formulations for estimating pulsation
properties in one-dimensional stellar models. Applications to pulsating stars
are presented with results for oscillation properties, such as the effects of
convection dynamics on the oscillation frequencies, or the stability of
pulsation modes, in classical pulsators and in stars supporting solar-type
oscillations.Comment: Invited review article for Living Reviews in Solar Physics. 88 pages,
14 figure
Asteroseismology and Interferometry
Asteroseismology provides us with a unique opportunity to improve our
understanding of stellar structure and evolution. Recent developments,
including the first systematic studies of solar-like pulsators, have boosted
the impact of this field of research within Astrophysics and have led to a
significant increase in the size of the research community. In the present
paper we start by reviewing the basic observational and theoretical properties
of classical and solar-like pulsators and present results from some of the most
recent and outstanding studies of these stars. We centre our review on those
classes of pulsators for which interferometric studies are expected to provide
a significant input. We discuss current limitations to asteroseismic studies,
including difficulties in mode identification and in the accurate determination
of global parameters of pulsating stars, and, after a brief review of those
aspects of interferometry that are most relevant in this context, anticipate
how interferometric observations may contribute to overcome these limitations.
Moreover, we present results of recent pilot studies of pulsating stars
involving both asteroseismic and interferometric constraints and look into the
future, summarizing ongoing efforts concerning the development of future
instruments and satellite missions which are expected to have an impact in this
field of research.Comment: Version as published in The Astronomy and Astrophysics Review, Volume
14, Issue 3-4, pp. 217-36
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