RINGO3: a multi-colour fast response polarimeter

GRB jets contain rapidly moving electrons which will spiral around magnetic field lines. This causes them to emit polarized synchrotron emission. We have built a series of polarimeters (RINGO and RINGO2) to investigate this by measuring the polarization of optical light from GRBs at a certain single wavelength. The instruments are mounted on the Liverpool Telescope, which is a fully robotic (i.e. unmanned) telescope on La Palma which reacts to triggers from satellites such as the NASA SWIFT mission. This has had great success, with the first ever detections of early time optical polarization being made. In addition, the first measurements of the change in optical polarization from a GRB as the jet expands have recently been obtained. In this paper we describe the design and construction of RINGO3. This will be a multi-colour instrument that can observe simultaneously at three wavelengths. By doing so we will be able to unambiguously identify where in the burst the polarized emission is coming from. This will allow us to distinguish between three possibilities: (1) Magnetic instabilities generated in the shock front, (2) Line of sight effects and (3) Large-scale magnetic fields present throughout the relativistic outflow. The instrument design combines a rapidly rotating polaroid, specially designed polarization insensitive dichroic mirrors and three electron multiplying CCD cameras to provide simultaneous wavelength coverage with a time resolution of 1 second

The Phyre2 web portal for protein modeling, prediction and analysis

Phyre2 is a suite of tools available on the web to predict and analyze protein structure, function and mutations. The focus of Phyre2 is to provide biologists with a simple and intuitive interface to state-of-the-art protein bioinformatics tools. Phyre2 replaces Phyre, the original version of the server for which we previously published a paper in Nature Protocols. In this updated protocol, we describe Phyre2, which uses advanced remote homology detection methods to build 3D models, predict ligand binding sites and analyze the effect of amino acid variants (e.g., nonsynonymous SNPs (nsSNPs)) for a user's protein sequence. Users are guided through results by a simple interface at a level of detail they determine. This protocol will guide users from submitting a protein sequence to interpreting the secondary and tertiary structure of their models, their domain composition and model quality. A range of additional available tools is described to find a protein structure in a genome, to submit large number of sequences at once and to automatically run weekly searches for proteins that are difficult to model. The server is available at http://www.sbg.bio.ic.ac.uk/phyre2. A typical structure prediction will be returned between 30 min and 2 h after submission

Polarimetry and Photometry of Gamma-Ray Bursts with RINGO2

We present a catalog of early-time (~10^2-10^4s) photometry and polarimetry of all Gamma-Ray Burst (GRB) optical afterglows observed with RINGO2 imaging polarimeter on the Liverpool Telescope. For the 19 optical afterglows observed, the following 9 were bright enough to perform photometry and attempt polarimetry: GRB 100805A, GRB 101112A, GRB 110205A, GRB 110726A, GRB 120119A, GRB 120308A, GRB 120311A, GRB 120326A and GRB 120327A. We present multi-wavelength light curves for these 9 GRBs, together with estimates of their optical polarization degrees and/or limits. We carry out a thorough investigation of detection probabilities, instrumental properties and systematics. Using two independent methods, we confirm previous reports of significant polarization in GRB 110205A and 120308A, and report new detection of $P=6^{+3}_{-2}\%$ in GRB101112A. We discuss the results for the sample in the context of the reverse and forward shock afterglow scenario, and show that GRBs with detectable optical polarization at early time have clearly identifiable signatures of reverse-shock emission in their optical light curves. This supports the idea that GRB ejecta contain large-scale magnetic fields and highlights the importance of rapid-response polarimetry

Polarimetry and photometry of gamma-ray bursts afterglows with RINGO3

We present photometric and polarimetric measurements of gamma-ray burst (GRB) optical afterglows observed by the RINGO3 imaging polarimeter over its ∼7 yr lifetime mounted on the Liverpool Telescope. During this time, RINGO3 responded to 67 GRB alerts. Of these, 28 had optical afterglows and a further ten were sufficiently bright for photometric and polarimetric analysis (R ⪅ 17). We present high quality multicolour light curves of ten sources: GRB 130606A, GRB 130610A, GRB 130612A, GRB 140430A, GRB 141220A, GRB 151215A, GRB 180325A, GRB 180618A, GRB 190114C, and GRB 191016A and polarimetry for seven of these (excluding GRB 130606A, GRB 130610A, and GRB 130612A, which were observed before the polarimetry mode was fully commissioned). Eight of these ten GRBs are classical long GRBs, one sits at the short-long duration interface with a T90 ∼ 4 s and one is a classical short, hard burst with extended emission. We detect polarization for GRB 190114C and GRB 191016A. While detailed analyses of several of these GRBs have been published previously, here we present a uniform re-reduction and analysis of the whole sample and investigation of the population in a broad context relative to the current literature. We use survival analysis to fully include the polarization upper limits in comparison with other GRB properties, such as temporal decay rate, isotropic energy, and redshift. We find no clear correlation between polarization properties and wider sample properties and conclude that larger samples of early time polarimetry of GRB afterglows are required to fully understand GRB magnetic fields

GRB 191016A: a highly collimated gamma-ray burst jet with magnetized energy injection

Long gamma-ray burst GRB 191016A was a bright and slow rising burst that was detected by the Swift satellite and followed up by ground based Liverpool Telescope (LT). LT follow up started 2411 s after the Swift Burst Alert Telescope (BAT) trigger using imager IO:O around the time of the late optical peak. From 3987–7687 s, we used the LT polarimeter RINGO3 to make polarimetric and photometric observations of the GRB simultaneously in the V, R, and I bands. The combined optical light curve shows an initial late peak followed by a decline until 6147 s, 6087 s, and 5247 s for I, R, and V filters respectively followed by a flattening phase. There is evidence of polarization at all phases including polarization (P = 14.6 ± 7.2 per cent) which is coincident with the start of the flattening phase. The combination of the light curve morphology and polarization measurement favours an energy injection scenario where slower magnetized ejecta from the central engine catches up with the decelerating blast wave. We calculate the minimum energy injection to be ΔE/E > 0.36. At a later time, combining the optical light curve from Burst Observer and Optical Transient Exploring System (BOOTES) (reported via GCN) and IO:O we see evidence of a jet break with jet opening angle 2◦

Magnetism and its microscopic origin in iron-based high-temperature superconductors

High-temperature superconductivity in the iron-based materials emerges from, or sometimes coexists with, their metallic or insulating parent compound states. This is surprising since these undoped states display dramatically different antiferromagnetic (AF) spin arrangements and N$\rm \acute{e}$el temperatures. Although there is general consensus that magnetic interactions are important for superconductivity, much is still unknown concerning the microscopic origin of the magnetic states. In this review, progress in this area is summarized, focusing on recent experimental and theoretical results and discussing their microscopic implications. It is concluded that the parent compounds are in a state that is more complex than implied by a simple Fermi surface nesting scenario, and a dual description including both itinerant and localized degrees of freedom is needed to properly describe these fascinating materials.Comment: 14 pages, 4 figures, Review article, accepted for publication in Nature Physic

Broadband, Polarization-Sensitive Photodetector Based on Optically-Thick Films of Macroscopically Long, Dense, and Aligned Carbon Nanotubes

Increasing performance demands on photodetectors and solar cells require the development of entirely new materials and technological approaches.Wereport on the fabrication and optoelectronic characterization of a photodetector based on optically-thick films of dense, aligned, and macroscopically long single-wall carbon nanotubes. The photodetector exhibits broadband response from the visible to the mid-infrared under global illumination, with a response time less than 32 ms. Scanning photocurrent microscopy indicates that the signal originates at the contact edges, with an amplitude and width that can be tailored by choosing different contact metals. A theoretical model demonstrates the photothermoelectric origin of the photoresponse due to gradients in the nanotube Seebeck coefficient near the contacts. The experimental and theoretical results open a new path for the realization of optoelectronic devices based on three-dimensionally organized nanotubes

Analysing Dynamical Behavior of Cellular Networks via Stochastic Bifurcations

The dynamical structure of genetic networks determines the occurrence of various biological mechanisms, such as cellular differentiation. However, the question of how cellular diversity evolves in relation to the inherent stochasticity and intercellular communication remains still to be understood. Here, we define a concept of stochastic bifurcations suitable to investigate the dynamical structure of genetic networks, and show that under stochastic influence, the expression of given proteins of interest is defined via the probability distribution of the phase variable, representing one of the genes constituting the system. Moreover, we show that under changing stochastic conditions, the probabilities of expressing certain concentration values are different, leading to different functionality of the cells, and thus to differentiation of the cells in the various types

The organisational response of a hospital critical care service to the COVID-19 pandemic: The Groote Schuur Hospital experience.

Background: There are limited data about the coronavirus disease-19 (COVID-19)-related organisational responses and the challenges of expanding a critical care service in a resource-limited setting. Objectives: To describe the ICU organisational response to the pandemic and the main outcomes of the intensive care service of a large state teaching hospital in South Africa. Methods: Data were extracted from administrative records and a prospective patient database with ethical approval. An ICU expansion plan was developed, and resource constraints identified. A triage tool was distributed to referring wards and hospitals. Intensive care was reserved for patients who required invasive mechanical ventilation (IMV). The total number of ICU beds was increased from 25 to 54 at peak periods, with additional non-COVID ICU capacity required during the second wave. The availability of nursing staff was the main factor limiting expansion. A ward-based high flow nasal oxygen (HFNO) service reduced the need for ICU admission of patients who failed conventional oxygen therapy. A team was established to intubate and transfer patients requiring ICU admission but was only available for the first wave. Results: We admitted 461 COVID-19 patients to the ICU over a 13-month period from 5 April 2020 to 5 May 2021 spanning two waves of admissions. The median age was 50 years and duration of ICU stay was 9 days. More than a third of the patients (35%; n=161) survived to hospital discharge. Conclusion: Pre-planning, leadership, teamwork, flexibility and good communication were essential elements for an effective response. A shortage of nurses was the main constraint on ICU expansion. HFNO may have reduced the requirement for ICU admission, but patients intubated after failing HFNO had a poor prognosis. Contributions of the study: We describe the organisational requirements to successfully expand critical care facilities and strategies to reduce the need for invasive mechanical ventilation in COVID-19 pneumonia. We also present the intensive care outcomes of these patients in a resource-constrained environment