Cosmic-ray propagation around the Sun: investigating the influence of the solar magnetic field on the cosmic-ray Sun shadow

The cosmic-ray Sun shadow, which is caused by high-energy charged cosmic rays being blocked and deflected by the Sun and its magnetic field, has been observed by various experiments, such as Argo-YBJ, HAWC, Tibet, and IceCube. Most notably, the shadow's size and depth was recently shown to correlate with the 11-year solar cycle. The interpretation of such measurements, which help to bridge the gap between solar physics and high-energy particle astrophysics, requires a solid theoretical understanding of cosmic-ray propagation in the coronal magnetic field. It is the aim of this paper to establish theoretical predictions for the cosmic-ray Sun shadow in order to identify observables that can be used to study this link in more detail. To determine the cosmic-ray Sun shadow, we numerically compute trajectories of charged cosmic rays in the energy range of 5-316 TeV for five different mass numbers. We present and analyze the resulting shadow images for protons and iron, as well as for typically measured cosmic-ray compositions. We confirm the observationally established correlation between the magnitude of the shadowing effect and both the mean sunspot number and the polarity of the magnetic field during the solar cycle. We also show that during low solar activity, the Sun's shadow behaves similarly to that of a dipole, for which we find a non-monotonous dependence on energy. In particular, the shadow can become significantly more pronounced than the geometrical disk expected for a totally unmagnetized Sun. For times of high solar activity, we instead predict the shadow to depend monotonously on energy, and to be generally weaker than the geometrical shadow for all tested energies. These effects should become visible in energy-resolved measurements of the Sun shadow, and may in the future become an independent measure for the level of disorder in the solar magnetic field.Comment: 18 pages, 88 figure

Object classification on video data of meteors and meteor-like phenomena: algorithm and data

Every moment, countless meteoroids enter our atmosphere unseen. The detection and measurement of meteors offer the unique opportunity to gain insights into the composition of our solar systems’ celestial bodies. Researchers therefore carry out a widearea-sky-monitoring to secure 360-degree video material, saving every single entry of a meteor. Existing machine intelligence cannot accurately recognize events of meteors intersecting the earth’s atmosphere due to a lack of high-quality training data publicly available. This work presents four reusable open source solutions for researchers trained on data we collected due to the lack of available labelled high-quality training data. We refer to the proposed data set as the NightSkyUCP data set, consisting of a balanced set of 10 000 meteor- and 10 000 non-meteor-events. Our solutions apply various machine-learning techniques, namely classification, feature learning, anomaly detection, and e xtrapolation. F or the classification task, a mean accuracy of 99.1 per cent is achieved. The code and data are made public at figshare with DOI 10.6084/m9.figshare.16451625

ERM-1 Phosphorylation and NRFL-1 Redundantly Control Lumen Formation in the C. elegans Intestine

Reorganization of the plasma membrane and underlying actin cytoskeleton into specialized domains is essential for the functioning of most polarized cells in animals. Proteins of the ezrin-radixin-moesin (ERM) and Na+/H+ exchanger 3 regulating factor (NHERF) family are conserved regulators of cortical specialization. ERM proteins function as membrane-actin linkers and as molecular scaffolds that organize the distribution of proteins at the membrane. NHERF proteins are PDZ-domain containing adapters that can bind to ERM proteins and extend their scaffolding capability. Here, we investigate how ERM and NHERF proteins function in regulating intestinal lumen formation in the nematode Caenorhabditis elegans. C. elegans has single ERM and NHERF family proteins, termed ERM-1 and NRFL-1, and ERM-1 was previously shown to be critical for intestinal lumen formation. Using CRISPR/Cas9-generated nrfl-1 alleles we demonstrate that NRFL-1 localizes at the intestinal microvilli, and that this localization is depended on an interaction with ERM-1. However, nrfl-1 loss of function mutants are viable and do not show defects in intestinal development. Interestingly, combining nrfl-1 loss with erm-1 mutants that either block or mimic phosphorylation of a regulatory C-terminal threonine causes severe defects in intestinal lumen formation. These defects are not observed in the phosphorylation mutants alone, and resemble the effects of strong erm-1 loss of function. The loss of NRFL-1 did not affect the localization or activity of ERM-1. Together, these data indicate that ERM-1 and NRFL-1 function together in intestinal lumen formation in C. elegans. We postulate that the functioning of ERM-1 in this tissue involves actin-binding activities that are regulated by the C-terminal threonine residue and the organization of apical domain composition through NRFL-1

BBLN-1 is essential for intermediate filament organization and apical membrane morphology

Epithelial tubes are essential components of metazoan organ systems that control the flow of fluids and the exchange of materials between body compartments and the outside environment. The size and shape of the central lumen confer important characteristics to tubular organs and need to be carefully controlled. Here, we identify the small coiled-coil protein BBLN-1 as a regulator of lumen morphology in the C. elegans intestine. Loss of BBLN-1 causes the formation of bubble-shaped invaginations of the apical membrane into the cytoplasm of intestinal cells and abnormal aggregation of the subapical intermediate filament (IF) network. BBLN-1 interacts with IF proteins and localizes to the IF network in an IF-dependent manner. The appearance of invaginations is a result of the abnormal IF aggregation, indicating a direct role for the IF network in maintaining lumen homeostasis. Finally, we identify bublin (BBLN) as the mammalian ortholog of BBLN-1. When expressed in the C. elegans intestine, BBLN recapitulates the localization pattern of BBLN-1 and can compensate for the loss of BBLN-1 in early larvae. In mouse intestinal organoids, BBLN localizes subapically, together with the IF protein keratin 8. Our results therefore may have implications for understanding the role of IFs in regulating epithelial tube morphology in mammals

Curie temperatures of titanomagnetite in ignimbrites: Effects of emplacement temperatures, cooling rates, exsolution, and cation ordering

Pumices, ashes, and tuffs from Mt. St. Helens and from Novarupta contain two principal forms of titanomagnetite: homogeneous grains with Curie temperatures in the range 350–500°C and oxyexsolved grains with similar bulk composition, containing ilmenite lamellae and having Curie temperatures above 500°C. Thermomagnetic analyses and isothermal annealing experiments in combination with stratigraphic settings and thermal models show that emplacement temperatures and cooling history may have affected the relative proportions of homogeneous and exsolved grains and have clearly had a strong influence on the Curie temperature of the homogeneous phase. The exsolved grains are most common where emplacement temperatures exceeded 600°C, and in laboratory experiments, heating to over 600°C in air causes the homogeneous titanomagnetites to oxyexsolve rapidly. Where emplacement temperatures were lower, Curie temperatures of the homogeneous grains are systematically related to overburden thickness and cooling timescales, and thermomagnetic curves are generally irreversible, with lower Curie temperatures measured during cooling, but little or no change is observed in room temperature susceptibility. We interpret this irreversible behavior as reflecting variations in the degree of cation ordering in the titanomagnetites, although we cannot conclusively rule out an alternative interpretation involving fine-scale subsolvus unmixing. Shortrange ordering within the octahedral sites may play a key role in the observed phenomena. Changes in the Curie temperature have important implications for the acquisition, stabilization, and retention of natural remanence and may in some cases enable quantification of the emplacement temperatures or cooling rates of volcanic units containing homogeneous titanomagnetites

The ABC130 barrel module prototyping programme for the ATLAS strip tracker

For the Phase-II Upgrade of the ATLAS Detector, its Inner Detector, consisting of silicon pixel, silicon strip and transition radiation sub-detectors, will be replaced with an all new 100 % silicon tracker, composed of a pixel tracker at inner radii and a strip tracker at outer radii. The future ATLAS strip tracker will include 11,000 silicon sensor modules in the central region (barrel) and 7,000 modules in the forward region (end-caps), which are foreseen to be constructed over a period of 3.5 years. The construction of each module consists of a series of assembly and quality control steps, which were engineered to be identical for all production sites. In order to develop the tooling and procedures for assembly and testing of these modules, two series of major prototyping programs were conducted: an early program using readout chips designed using a 250 nm fabrication process (ABCN-25) and a subsequent program using a follow-up chip set made using 130 nm processing (ABC130 and HCC130 chips). This second generation of readout chips was used for an extensive prototyping program that produced around 100 barrel-type modules and contributed significantly to the development of the final module layout. This paper gives an overview of the components used in ABC130 barrel modules, their assembly procedure and findings resulting from their tests.Comment: 82 pages, 66 figure

Genetic associations with sporadic cerebral small vessel disease

Background: Cerebral small vessel disease (SVD) causes substantial cognitive, psychiatric and physical disabilities. Despite its common nature, SVD pathogenesis and molecular mechanisms remain poorly understood, and prevention and treatment are probably suboptimal. Identifying the genetic determinants of SVD will improve understanding and may help identify novel treatment targets. The aim of this thesis is to better understand genetic associations with SVD through investigating its pathological, radiological and clinical phenotypes. Methods: To unravel the genetic associations with SVD, I used three complementary approaches. First, I performed a systematic review looking at existing intracerebral haemorrhage (ICH) classification systems and their reliability, to help inform future studies of ICH genetics. Second, I performed a series of systematic reviews and meta-analyses, investigating associations between genetic polymorphisms and histopathologically confirmed cerebral amyloid angiopathy (CAA). Third, I performed meta-analyses of existing genome-wide datasets to determine associations of >1000 common single nucleotide polymorphisms (SNP) in the COL4A1/COL4A2 genomic region with clinico-radiological SVD phenotypes: ICH and its subtypes, ischaemic stroke and its subtypes, and white matter hyperintensities. Results: The reliability of existing ICH classification systems appeared excellent in eight studies conducted in specialist centres with experienced raters, although these existing systems have several limitations. In my systematic evaluation of CAA genetics, meta-analyses of 24 studies including 3520 participants showed robust evidence for a dose-dependent association between APOE ɛ4 and histopathological CAA. There was, however, no convincing association between APOE ɛ2 and presence of CAA in a meta-analysis of 11 studies including 1640 participants. Meta-analyses of five studies including 497 participants showed, contrary to an existing popular hypothesis, that while APOE 4 may increase the risk of developing severe CAA vasculopathy, there is no clear evidence to support a role of ɛ2. There were few data about the role of APOE in hereditary CAA, but in the three studies that had looked at this, there was no evidence for an association between APOE ɛ4 and CAA severity. There were too few studies and participants to draw firm conclusions about the effect of non-APOE ε2/ε3/ε4 genetic polymorphisms on CAA, but there were positive associations with TGF-β1, TOMM40 and CR1 genes in four studies. Finally, in my meta-analyses of the COL4A1/COL4A2 genomic region, three intronic SNPs in COL4A2 were associated with SVD phenotypes: significantly with deep ICH, and suggestively with lacunar ischaemic stroke and WMH. Conclusions: I have shown that while existing ICH classification systems appear to have very good reliability, further research is needed to determine their performance in different settings. For large population-based prospective studies of ICH genetics, anatomical systems are likely to be more feasible, scalable and appropriate, although they have limitations and will need to be further developed. Using systematic reviews and meta-analyses, I have confirmed a dose-related association between APOE ɛ4 and histopathological CAA, but also demonstrated that, despite popular acceptance, there is insufficient data to draw firm conclusions about the association with APOE ɛ2. I found some positive associations with CAA in other genes, which merit replication in further larger studies, and showed that there is currently insufficient data about the role of APOE in hereditary CAA. Finally, I identified a novel association between a locus in a known hereditary SVD gene – COL4A2 – and sporadic SVD. This highlights a new and successful approach for selecting candidate genes and can be expanded in future studies to include other known hereditary SVD genes

A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex.

Single-cell transcriptomics can provide quantitative molecular signatures for large, unbiased samples of the diverse cell types in the brain1-3. With the proliferation of multi-omics datasets, a major challenge is to validate and integrate results into a biological understanding of cell-type organization. Here we generated transcriptomes and epigenomes from more than 500,000 individual cells in the mouse primary motor cortex, a structure that has an evolutionarily conserved role in locomotion. We developed computational and statistical methods to integrate multimodal data and quantitatively validate cell-type reproducibility. The resulting reference atlas-containing over 56 neuronal cell types that are highly replicable across analysis methods, sequencing technologies and modalities-is a comprehensive molecular and genomic account of the diverse neuronal and non-neuronal cell types in the mouse primary motor cortex. The atlas includes a population of excitatory neurons that resemble pyramidal cells in layer 4 in other cortical regions4. We further discovered thousands of concordant marker genes and gene regulatory elements for these cell types. Our results highlight the complex molecular regulation of cell types in the brain and will directly enable the design of reagents to target specific cell types in the mouse primary motor cortex for functional analysis