101 research outputs found
AN ANALYSIS OF ANTICIPATORY SHORT HEDGING USING PREDICTED HARVEST BASIS
Crop Production/Industries,
What does an interferometer really measure? Including instrument and data characteristics in the reconstruction of the 21cm power spectrum
Combining the visibilities measured by an interferometer to form a
cosmological power spectrum is a complicated process in which the window
functions play a crucial role. In a delay-based analysis, the mapping between
instrumental space, made of per-baseline delay spectra, and cosmological space
is not a one-to-one relation. Instead, neighbouring modes contribute to the
power measured at one point, with their respective contributions encoded in the
window functions. To better understand the power spectrum measured by an
interferometer, we assess the impact of instrument characteristics and analysis
choices on the estimator by deriving its exact window functions, outside of the
delay approximation. Focusing on HERA as a case study, we find that
observations made with long baselines tend to correspond to enhanced low-k
tails of the window functions, which facilitate foreground leakage outside the
wedge, whilst the choice of bandwidth and frequency taper can help narrow them
down. With the help of simple test cases and more realistic visibility
simulations, we show that, apart from tracing mode mixing, the window functions
can accurately reconstruct the power spectrum estimator of simulated
visibilities. We note that the window functions depend strongly on the
chromaticity of the beam, and less on its spatial structure - a Gaussian
approximation, ignoring side lobes, is sufficient. Finally, we investigate the
potential of asymmetric window functions, down-weighting the contribution of
low-k power to avoid foreground leakage. The window functions presented in this
work correspond to the latest HERA upper limits for the full Phase I data. They
allow an accurate reconstruction of the power spectrum measured by the
instrument and can be used in future analyses to confront theoretical models
and data directly in cylindrical space.Comment: 18 pages, 18 figures, submitted to MNRAS. Comments welcome
Direct Optimal Mapping Image Power Spectrum and its Window Functions
The key to detecting neutral hydrogen during the epoch of reionization (EoR)
is to separate the cosmological signal from the dominating foreground
radiation. We developed direct optimal mapping (Xu et al. 2022) to map
interferometric visibilities; it contains only linear operations, with full
knowledge of point spread functions from visibilities to images. Here we
present an FFT-based image power spectrum and its window functions based on
direct optimal mapping. We use noiseless simulation, based on the Hydrogen
Epoch of Reionization Array (HERA) Phase I configuration, to study the image
power spectrum properties. The window functions show power leakage
from the foreground-dominated region into the EoR window; the 2D and 1D power
spectra also verify the separation between the foregrounds and the EoR.
Furthermore, we simulated visibilities from a -complete array and
calculated its image power spectrum. The result shows that the foreground--EoR
leakage is further suppressed below , dominated by the tapering
function sidelobes; the 2D power spectrum does not show signs of the horizon
wedge. The -complete result provides a reference case for future 21cm
cosmology array designs.Comment: Submitted to Ap
Direct Optimal Mapping for 21cm Cosmology: A Demonstration with the Hydrogen Epoch of Reionization Array
Motivated by the desire for wide-field images with well-defined statistical
properties for 21cm cosmology, we implement an optimal mapping pipeline that
computes a maximum likelihood estimator for the sky using the interferometric
measurement equation. We demonstrate this direct optimal mapping with data from
the Hydrogen Epoch of Reionization (HERA) Phase I observations. After
validating the pipeline with simulated data, we develop a maximum likelihood
figure-of-merit for comparing four sky models at 166MHz with a bandwidth of
100kHz. The HERA data agree with the GLEAM catalogs to <10%. After subtracting
the GLEAM point sources, the HERA data discriminate between the different
continuum sky models, providing most support for the model of Byrne et al.
2021. We report the computation cost for mapping the HERA Phase I data and
project the computation for the HERA 320-antenna data; both are feasible with a
modern server. The algorithm is broadly applicable to other interferometers and
is valid for wide-field and non-coplanar arrays.Comment: 16 pages, 10 figures, 2 tables, published on Ap
Distinctive Left-Sided Distribution of Adrenergic-Derived Cells in the Adult Mouse Heart
Adrenaline and noradrenaline are produced within the heart from neuronal and non-neuronal sources. These adrenergic hormones have profound effects on cardiovascular development and function, yet relatively little information is available about the specific tissue distribution of adrenergic cells within the adult heart. The purpose of the present study was to define the anatomical localization of cells derived from an adrenergic lineage within the adult heart. To accomplish this, we performed genetic fate-mapping experiments where mice with the cre-recombinase (Cre) gene inserted into the phenylethanolamine-n-methyltransferase (Pnmt) locus were cross-mated with homozygous Rosa26 reporter (R26R) mice. Because Pnmt serves as a marker gene for adrenergic cells, offspring from these matings express the β-galactosidase (βGAL) reporter gene in cells of an adrenergic lineage. βGAL expression was found throughout the adult mouse heart, but was predominantly (89%) located in the left atrium (LA) and ventricle (LV) (p<0.001 compared to RA and RV), where many of these cells appeared to have cardiomyocyte-like morphological and structural characteristics. The staining pattern in the LA was diffuse, but the LV free wall displayed intermittent non-random staining that extended from the apex to the base of the heart, including heavy staining of the anterior papillary muscle along its perimeter. Three-dimensional computer-aided reconstruction of XGAL+ staining revealed distribution throughout the LA and LV, with specific finger-like projections apparent near the mid and apical regions of the LV free wall. These data indicate that adrenergic-derived cells display distinctive left-sided distribution patterns in the adult mouse heart
Search for the Epoch of Reionisation with HERA: Upper Limits on the Closure Phase Delay Power Spectrum
Radio interferometers aiming to measure the power spectrum of the redshifted
21 cm line during the Epoch of Reionisation (EoR) need to achieve an
unprecedented dynamic range to separate the weak signal from overwhelming
foreground emissions. Calibration inaccuracies can compromise the sensitivity
of these measurements to the effect that a detection of the EoR is precluded.
An alternative to standard analysis techniques makes use of the closure phase,
which allows one to bypass antenna-based direction-independent calibration.
Similarly to standard approaches, we use a delay spectrum technique to search
for the EoR signal. Using 94 nights of data observed with Phase I of the
Hydrogen Epoch of Reionization Array (HERA), we place approximate constraints
on the 21 cm power spectrum at . We find at 95% confidence that the 21
cm EoR brightness temperature is (372) "pseudo" mK at 1.14
"pseudo" Mpc, where the "pseudo" emphasises that these limits are to
be interpreted as approximations to the actual distance scales and brightness
temperatures. Using a fiducial EoR model, we demonstrate the feasibility of
detecting the EoR with the full array. Compared to standard methods, the
closure phase processing is relatively simple, thereby providing an important
independent check on results derived using visibility intensities, or related.Comment: 16 pages, 14 figures, accepted for publication by MNRA
Large-scale sequencing of SARS-CoV-2 genomes from one region allows detailed epidemiology and enables local outbreak management.
The COVID-19 pandemic has spread rapidly throughout the world. In the UK, the initial peak was in April 2020; in the county of Norfolk (UK) and surrounding areas, which has a stable, low-density population, over 3200 cases were reported between March and August 2020. As part of the activities of the national COVID-19 Genomics Consortium (COG-UK) we undertook whole genome sequencing of the SARS-CoV-2 genomes present in positive clinical samples from the Norfolk region. These samples were collected by four major hospitals, multiple minor hospitals, care facilities and community organizations within Norfolk and surrounding areas. We combined clinical metadata with the sequencing data from regional SARS-CoV-2 genomes to understand the origins, genetic variation, transmission and expansion (spread) of the virus within the region and provide context nationally. Data were fed back into the national effort for pandemic management, whilst simultaneously being used to assist local outbreak analyses. Overall, 1565 positive samples (172 per 100 000 population) from 1376 cases were evaluated; for 140 cases between two and six samples were available providing longitudinal data. This represented 42.6 % of all positive samples identified by hospital testing in the region and encompassed those with clinical need, and health and care workers and their families. In total, 1035 cases had genome sequences of sufficient quality to provide phylogenetic lineages. These genomes belonged to 26 distinct global lineages, indicating that there were multiple separate introductions into the region. Furthermore, 100 genetically distinct UK lineages were detected demonstrating local evolution, at a rate of ~2 SNPs per month, and multiple co-occurring lineages as the pandemic progressed. Our analysis: identified a discrete sublineage associated with six care facilities; found no evidence of reinfection in longitudinal samples; ruled out a nosocomial outbreak; identified 16 lineages in key workers which were not in patients, indicating infection control measures were effective; and found the D614G spike protein mutation which is linked to increased transmissibility dominates the samples and rapidly confirmed relatedness of cases in an outbreak at a food processing facility. The large-scale genome sequencing of SARS-CoV-2-positive samples has provided valuable additional data for public health epidemiology in the Norfolk region, and will continue to help identify and untangle hidden transmission chains as the pandemic evolves.The sequencing costs were funded by the COVID-19 Genomics UK (COG-UK) Consortium which is supported by funding from the Medical Research Council (MRC) part of UK Research and Innovation (UKRI), the National Institute of Health Research (NIHR) and Genome Research Limited, operating as the Wellcome Sanger Institute
Characterization Of Inpaint Residuals In Interferometric Measurements of the Epoch Of Reionization
Radio Frequency Interference (RFI) is one of the systematic challenges
preventing 21cm interferometric instruments from detecting the Epoch of
Reionization. To mitigate the effects of RFI on data analysis pipelines,
numerous inpaint techniques have been developed to restore RFI corrupted data.
We examine the qualitative and quantitative errors introduced into the
visibilities and power spectrum due to inpainting. We perform our analysis on
simulated data as well as real data from the Hydrogen Epoch of Reionization
Array (HERA) Phase 1 upper limits. We also introduce a convolutional neural
network that capable of inpainting RFI corrupted data in interferometric
instruments. We train our network on simulated data and show that our network
is capable at inpainting real data without requiring to be retrained. We find
that techniques that incorporate high wavenumbers in delay space in their
modeling are best suited for inpainting over narrowband RFI. We also show that
with our fiducial parameters Discrete Prolate Spheroidal Sequences (DPSS) and
CLEAN provide the best performance for intermittent ``narrowband'' RFI while
Gaussian Progress Regression (GPR) and Least Squares Spectral Analysis (LSSA)
provide the best performance for larger RFI gaps. However we caution that these
qualitative conclusions are sensitive to the chosen hyperparameters of each
inpainting technique. We find these results to be consistent in both simulated
and real visibilities. We show that all inpainting techniques reliably
reproduce foreground dominated modes in the power spectrum. Since the
inpainting techniques should not be capable of reproducing noise realizations,
we find that the largest errors occur in the noise dominated delay modes. We
show that in the future, as the noise level of the data comes down, CLEAN and
DPSS are most capable of reproducing the fine frequency structure in the
visibilities of HERA data.Comment: 26 pages, 18 figure
Improved Constraints on the 21 cm EoR Power Spectrum and the X-Ray Heating of the IGM with HERA Phase I Observations
We report the most sensitive upper limits to date on the 21 cm epoch of
reionization power spectrum using 94 nights of observing with Phase I of the
Hydrogen Epoch of Reionization Array (HERA). Using similar analysis techniques
as in previously reported limits (HERA Collaboration 2022a), we find at 95%
confidence that Mpc) mK at and that Mpc mK at , an improvement by a factor of 2.1 and 2.6 respectively. These limits are
mostly consistent with thermal noise over a wide range of after our data
quality cuts, despite performing a relatively conservative analysis designed to
minimize signal loss. Our results are validated with both statistical tests on
the data and end-to-end pipeline simulations. We also report updated
constraints on the astrophysics of reionization and the cosmic dawn. Using
multiple independent modeling and inference techniques previously employed by
HERA Collaboration (2022b), we find that the intergalactic medium must have
been heated above the adiabatic cooling limit at least as early as ,
ruling out a broad set of so-called "cold reionization" scenarios. If this
heating is due to high-mass X-ray binaries during the cosmic dawn, as is
generally believed, our result's 99% credible interval excludes the local
relationship between soft X-ray luminosity and star formation and thus requires
heating driven by evolved low-metallicity stars.Comment: 57 pages, 37 figures. Updated to match the accepted ApJ version.
Corresponding author: Joshua S. Dillo
Detection of Cosmic Structures using the Bispectrum Phase. II. First Results from Application to Cosmic Reionization Using the Hydrogen Epoch of Reionization Array
Characterizing the epoch of reionization (EoR) at via the
redshifted 21 cm line of neutral Hydrogen (HI) is critical to modern
astrophysics and cosmology, and thus a key science goal of many current and
planned low-frequency radio telescopes. The primary challenge to detecting this
signal is the overwhelmingly bright foreground emission at these frequencies,
placing stringent requirements on the knowledge of the instruments and
inaccuracies in analyses. Results from these experiments have largely been
limited not by thermal sensitivity but by systematics, particularly caused by
the inability to calibrate the instrument to high accuracy. The interferometric
bispectrum phase is immune to antenna-based calibration and errors therein, and
presents an independent alternative to detect the EoR HI fluctuations while
largely avoiding calibration systematics. Here, we provide a demonstration of
this technique on a subset of data from the Hydrogen Epoch of Reionization
Array (HERA) to place approximate constraints on the brightness temperature of
the intergalactic medium (IGM). From this limited data, at we infer
"" upper limits on the IGM brightness temperature to be
"pseudo" mK at "pseudo" Mpc (data-limited)
and "pseudo" mK at "pseudo" Mpc
(noise-limited). The "pseudo" units denote only an approximate and not an exact
correspondence to the actual distance scales and brightness temperatures. By
propagating models in parallel to the data analysis, we confirm that the
dynamic range required to separate the cosmic HI signal from the foregrounds is
similar to that in standard approaches, and the power spectrum of the
bispectrum phase is still data-limited (at dynamic range)
indicating scope for further improvement in sensitivity as the array build-out
continues.Comment: 22 pages, 12 figures (including sub-figures). Published in PhRvD.
Abstract may be slightly abridged compared to the actual manuscript due to
length limitations on arXi
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