WSClean : an implementation of a fast, generic wide-field imager for radio astronomy

This article has been accepted for publication in Monthly Notices of the Royal Astronomical Society. © 2014 The Authors. Published by Oxford University Press on behalf of the Royal Astronomical Society.Astronomical widefield imaging of interferometric radio data is computationally expensive, especially for the large data volumes created by modern non-coplanar many-element arrays. We present a new widefield interferometric imager that uses the w-stacking algorithm and can make use of the w-snapshot algorithm. The performance dependencies of CASA's w-projection and our new imager are analysed and analytical functions are derived that describe the required computing cost for both imagers. On data from the Murchison Widefield Array, we find our new method to be an order of magnitude faster than w-projection, as well as being capable of full-sky imaging at full resolution and with correct polarisation correction. We predict the computing costs for several other arrays and estimate that our imager is a factor of 2-12 faster, depending on the array configuration. We estimate the computing cost for imaging the low-frequency Square-Kilometre Array observations to be 60 PetaFLOPS with current techniques. We find that combining w-stacking with the w-snapshot algorithm does not significantly improve computing requirements over pure w-stacking. The source code of our new imager is publicly released.Peer reviewedFinal Published versio

Performance and on-sky optical characterization of the SPTpol instrument

In January 2012, the 10m South Pole Telescope (SPT) was equipped with a polarization-sensitive camera, SPTpol, in order to measure the polarization anisotropy of the cosmic microwave background (CMB). Measurements of the polarization of the CMB at small angular scales (~several arcminutes) can detect the gravitational lensing of the CMB by large scale structure and constrain the sum of the neutrino masses. At large angular scales (~few degrees) CMB measurements can constrain the energy scale of Inflation. SPTpol is a two-color mm-wave camera that consists of 180 polarimeters at 90 GHz and 588 polarimeters at 150 GHz, with each polarimeter consisting of a dual transition edge sensor (TES) bolometers. The full complement of 150 GHz detectors consists of 7 arrays of 84 ortho-mode transducers (OMTs) that are stripline coupled to two TES detectors per OMT, developed by the TRUCE collaboration and fabricated at NIST. Each 90 GHz pixel consists of two antenna-coupled absorbers coupled to two TES detectors, developed with Argonne National Labs. The 1536 total detectors are read out with digital frequency-domain multiplexing (DfMUX). The SPTpol deployment represents the first on-sky tests of both of these detector technologies, and is one of the first deployed instruments using DfMUX readout technology. We present the details of the design, commissioning, deployment, on-sky optical characterization and detector performance of the complete SPTpol focal plane.Comment: 15 pages, 6 figures. Conference: SPIE Astronomical Telescopes and Instrumentation 201

South Pole Telescope Software Systems: Control, Monitoring, and Data Acquisition

We present the software system used to control and operate the South Pole Telescope. The South Pole Telescope is a 10-meter millimeter-wavelength telescope designed to measure anisotropies in the cosmic microwave background (CMB) at arcminute angular resolution. In the austral summer of 2011/12, the SPT was equipped with a new polarization-sensitive camera, which consists of 1536 transition-edge sensor bolometers. The bolometers are read out using 36 independent digital frequency multiplexing (\dfmux) readout boards, each with its own embedded processors. These autonomous boards control and read out data from the focal plane with on-board software and firmware. An overall control software system running on a separate control computer controls the \dfmux boards, the cryostat and all other aspects of telescope operation. This control software collects and monitors data in real-time, and stores the data to disk for transfer to the United States for analysis

Design and characterization of 90 GHz feedhorn-coupled TES polarimeter pixels in the SPTpol camera

The SPTpol camera is a two-color, polarization-sensitive bolometer receiver, and was installed on the 10 meter South Pole Telescope in January 2012. SPTpol is designed to study the faint polarization signals in the Cosmic Microwave Background, with two primary scientific goals. One is to constrain the tensor-to-scalar ratio of perturbations in the primordial plasma, and thus constrain the space of permissible inflationary models. The other is to measure the weak lensing effect of large-scale structure on CMB polarization, which can be used to constrain the sum of neutrino masses as well as other growth-related parameters. The SPTpol focal plane consists of seven 84-element monolithic arrays of 150 GHz pixels (588 total) and 180 individual 90 GHz single-pixel modules. In this paper we present the design and characterization of the 90 GHz modules

Feedhorn-coupled TES polarimeter camera modules at 150 GHz for CMB polarization measurements with SPTpol

The SPTpol camera is a dichroic polarimetric receiver at 90 and 150 GHz. Deployed in January 2012 on the South Pole Telescope (SPT), SPTpol is looking for faint polarization signals in the Cosmic Microwave Background (CMB). The camera consists of 180 individual Transition Edge Sensor (TES) polarimeters at 90 GHz and seven 84-polarimeter camera modules (a total of 588 polarimeters) at 150 GHz. We present the design, dark characterization, and in-lab optical properties of the 150 GHz camera modules. The modules consist of photolithographed arrays of TES polarimeters coupled to silicon platelet arrays of corrugated feedhorns, both of which are fabricated at NIST-Boulder. In addition to mounting hardware and RF shielding, each module also contains a set of passive readout electronics for digital frequency-domain multiplexing. A single module, therefore, is fully functional as a miniature focal plane and can be tested independently. Across the modules tested before deployment, the detectors average a critical temperature of 478 mK, normal resistance R_N of 1.2 Ohm, unloaded saturation power of 22.5 pW, (detector-only) optical efficiency of ~ 90%, and have electrothermal time constants < 1 ms in transition.Comment: 15 pages, 11 figure

Decreased Fetal Size Is Associated With β-Cell Hyperfunction in Early Life and Failure With Age

OBJECTIVE—Low birth weight is associated with diabetes in adult life. Accelerated or “catch-up” postnatal growth in response to small birth size is thought to presage disease years later. Whether adult disease is caused by intrauterine β-cell–specific programming or by altered metabolism associated with catch-up growth is unknown

The Murchison Widefield Array Commissioning Survey : A Low-Frequency Catalogue of 14,110 Compact Radio Sources over 6,100 Square Degrees

22 pages, 18 figures, accepted to PASAWe present the results of an approximately 6,100 square degree 104--196MHz radio sky survey performed with the Murchison Widefield Array during instrument commissioning between 2012 September and 2012 December: the Murchison Widefield Array Commissioning Survey (MWACS). The data were taken as meridian drift scans with two different 32-antenna sub-arrays that were available during the commissioning period. The survey covers approximately 20.5 hPeer reviewedFinal Accepted Versio

Identification of TNF-alpha-Responsive Promoters and Enhancers in the Intestinal Epithelial Cell Model Caco-2

The Caco-2 cell line is one of the most important in vitro models for enterocytes, and is used to study drug absorption and disease, including inflammatory bowel disease and cancer. In order to use the model optimally, it is necessary to map its functional entities. In this study, we have generated genome-wide maps of active transcription start sites (TSSs), and active enhancers in Caco-2 cells with or without tumour necrosis factor (TNF)-α stimulation to mimic an inflammatory state. We found 520 promoters that significantly changed their usage level upon TNF-α stimulation; of these, 52% are not annotated. A subset of these has the potential to confer change in protein function due to protein domain exclusion. Moreover, we locate 890 transcribed enhancer candidates, where ∼50% are changing in usage after TNF-α stimulation. These enhancers share motif enrichments with similarly responding gene promoters. As a case example, we characterize an enhancer regulating the laminin-5 γ2-chain (LAMC2) gene by nuclear factor (NF)-κB binding. This report is the first to present comprehensive TSS and enhancer maps over Caco-2 cells, and highlights many novel inflammation-specific promoters and enhancers

The first Murchison Widefield Array low frequency radio observations of cluster scale non-thermal emission : the case of Abell 3667

This article has been accepted for publication in Monthly Notices of the Royal Astronomical Society. © 2014 The Authors. Published by Oxford University Press on behalf of the Royal Astronomical Society.We present the first Murchison Widefield Array observations of the well-known cluster of galaxies Abell 3667 (A3667) between 105 and 241 MHz. A3667 is one of the best known examples of a galaxy cluster hosting a double radio relic and has been reported to contain a faint radio halo and bridge. The origins of radio halos, relics and bridges is still unclear, however galaxy cluster mergers seems to be an important factor. We clearly detect the North-West (NW) and South-East (SE) radio relics in A3667 and find an integrated flux density at 149 MHz of 28.1 +/- 1.7 and 2.4 +/- 0.1 Jy, respectively, with an average spectral index, between 120 and 1400 MHz, of -0.9 +/- 0.1 for both relics. We find evidence of a spatial variation in the spectral index across the NW relic steepening towards the centre of the cluster, which indicates an ageing electron population. These properties are consistent with higher frequency observations. We detect emission that could be associated with a radio halo and bridge. How- ever, due to the presence of poorly sampled large-scale Galactic emission and blended point sources we are unable to verify the exact nature of these features.Peer reviewe

The First Murchison Widefield Array low-frequency radio observations of cluster scale non-thermal emission: the case of Abell 3667

We present the first Murchison Widefield Array observations of the well-known cluster of galaxies Abell 3667 (A3667) between 105 and 241 MHz. A3667 is one of the best known examples of a galaxy cluster hosting a double radio relic and has been reported to contain a faint radio halo and bridge. The origin of radio haloes, relics and bridges is still unclear, however galaxy cluster merger seems to be an important factor. We clearly detect the north-west (NW) and south-east radio relics in A3667 and find an integrated flux density at 149 MHz of 28.1 ± 1.7 and 2.4 ± 0.1 Jy, respectively, with an average spectral index, between 120 and 1400 MHz, of −0.9 ± 0.1 for both relics. We find evidence of a spatial variation in the spectral index across the NW relic steepening towards the centre of the cluster, which indicates an ageing electron population. These properties are consistent with higher frequency observations. We detect emission that could be associated with a radio halo and bridge. However, due to the presence of poorly sampled large-scale Galactic emission and blended point sources we are unable to verify the exact nature of these features