High-brilliance muon beams offer a unique potential for precision neutrino studies by providing intense neutrino beams with well-defined flavor content and energy spectrum. They also offer a path to ...improved precision searches for charged lepton flavor violation, and provide a basis for a next generation lepton-antilepton collider. The R&D for these muon facilities involves several technologies of which cooling the muon beam is a critical component. This talk will review progress on the development of the key technologies and their demonstration experiments.
The Muon Ionization Cooling Experiment (MICE) is a proof-of-principle experiment designed to demonstrate muon ionization cooling for the first time. MICE is currently on Step IV of its data taking ...programme, where transverse emittance reduction will be demonstrated. The MICE Analysis User Software (MAUS) is the reconstruction, simulation and analysis framework for the MICE experiment. MAUS is used for both offline data analysis and fast online data reconstruction and visualization to serve MICE data taking. This paper provides an introduction to MAUS, describing the central Python and C++ based framework, the data structure and and the code management and testing procedures.
Abstract
The main function of NADPH oxidases is to catalyse the formation of reactive oxygen species (ROS). NADPH oxidase 4 (NOX4) is expressed at high levels in kidney tubular cells, and at lower ...levels in endothelial cells, cardiomyocytes and other cell types under physiological conditions. NOX4 is constitutively active producing hydrogen peroxide (H2O2) as the prevalent ROS detected, whereas other NOX isoforms present in the renal and cardiovascular systems (i.e. NOX1, NOX2 and NOX5) generate superoxide radical anions as main products. Pharmacological inhibition of NOX4 has received enormous attention for its potential therapeutic benefit in fibrotic disease and nephropathologies. Ongoing clinical trials are testing this approach in humans. Diabetes elevates NOX4 expression in podocytes and mesangial cells, which was shown to damage glomeruli leading to podocyte loss, mesangial cell hypertrophy and matrix accumulation. Consequently, NOX4 represents an interesting therapeutic target in diabetic nephropathy. On the contrary, experiments using NOX4-deficient mice have shown that NOX4 is cytoprotective in tubular cells, cardiomyocytes, endothelial cells and vascular smooth muscle cells, and has a metabolism-regulating role when these cells are subjected to injury. Mice with systemic NOX4 deletion are more susceptible to acute and chronic tubular injury, heart failure and atherosclerosis. Overall, the current literature suggests a detrimental role of increased NOX4 expression in mesangial cells and podocytes during diabetic nephropathy, but a cytoprotective role of this enzyme in other cellular types where it is expressed endogenously. We review here the recent evidence on the role of NOX4 in the kidneys and cardiovascular system. With the emergence of pharmacological NOX4 inhibitors in clinical trials, caution should be taken in identifying potential side effects in patients prone to acute kidney injury and cardiovascular disease.
The international Muon Ionization Cooling Experiment (MICE) currently operating at the Rutherford Appleton Laboratory in the UK, is designed to demonstrate the principle of muon ionization cooling ...for application to a future Neutrino Factory or Muon Collider. We present the status of the framework for the movement and curation of both raw and reconstructed data. A raw data-mover has been designed to safely upload data files onto permanent tape storage as soon as they have been written out. The process has been automated, and checks have been built in to ensure the integrity of data at every stage of the transfer. The data processing framework has been recently redesigned in order to provide fast turnaround of reconstructed data for analysis. The automated reconstruction is performed on a dedicated machine in the MICE control room and any reprocessing is done at Tier-2 Grid sites. In conjunction with this redesign, a new reconstructed-data-mover has been designed and implemented. We also review the implementation of a robust database system that has been designed for MICE. The processing of data, whether raw or Monte Carlo, requires accurate knowledge of the experimental conditions. MICE has several complex elements ranging from beamline magnets to particle identification detectors to superconducting magnets. A Configuration Database, which contains information about the experimental conditions (magnet currents, absorber material, detector calibrations, etc.) at any given time has been developed to ensure accurate and reproducible simulation and reconstruction. A fully replicated, hot-standby database system has been implemented with a firewall-protected read-write master running in the control room, and a read-only slave running at a different location. The actual database is hidden from end users by a Web Service layer, which provides platform and programming language-independent access to the data.
The Muon Ionization Cooling Experiment (MICE) collaboration seeks to demonstrate the feasibility of ionization cooling, the technique by which it is proposed to cool the muon beam at a future ...neutrino factory or muon collider. The emittance is measured from an ensemble of muons assembled from those that pass through the experiment. A pure muon ensemble is selected using a particle-identification system that can reject efficiently both pions and electrons. The position and momentum of each muon are measured using a high-precision scintillating-fibre tracker in a 4 T solenoidal magnetic field. This paper presents the techniques used to reconstruct the phase-space distributions in the upstream tracking detector and reports the first particle-by-particle measurement of the emittance of the MICE Muon Beam as a function of muon-beam momentum.
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DOBA, IZUM, KILJ, NUK, PILJ, PNG, SAZU, SIK, UILJ, UKNU, UL, UM, UPUK
In this study, we examined the mechanisms of intermolecular interaction involved in D2 dopamine receptor dimer formation to develop an understanding of the quaternary structure of G protein-coupled ...receptors. The potential role of two mechanisms was investigated: disulfide bridges and hydrophobic interactions between transmembrane domains. D2 dopamine receptor oligomers were unaffected by treatment with a reducing agent; however, oligomers of the D1 dopamine receptor dissociated following a similar treatment. This observation suggested that other forces such as hydrophobic interactions were more robust in the D2 receptor than in the D1 receptor in maintaining oligomerization. To elucidate which transmembrane domains were involved in the intermolecular hydrophobic interactions, truncation mutants were generated by successive deletion of transmembrane domains from amino and/or carboxyl portions of the D2 dopamine receptor. Immunoblot analyses revealed that all the fragments were well expressed but only fragments containing transmembrane domain 4 were able to self-associate, suggesting that critical areas for receptor dimerization resided within this transmembrane domain. Disruption of the helical structure of transmembrane domain 4 in a truncated receptor capable of forming dimers interfered with its ability to self-associate; however, a similar disruption of the transmembrane domain 4 helix structure in the full-length receptor did not significantly affect dimerization. These results indicated that there are other sites of interaction involved in D2 receptor oligomer assembly in addition to transmembrane domain 4.
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IJS, KILJ, NUK, PNG, UL, UM
G protein-coupled receptors occur as dimers within arrays of oligomers. We visualized ensembles of dopamine receptor oligomers in living cells and evaluated the contributions of receptor conformation ...to the dynamics of oligomer association and dissociation, using a strategy of trafficking a receptor to another cellular compartment. We incorporated a nuclear localization sequence into the D1 dopamine receptor, which translocated from the cell surface to the nucleus. Receptor inverse agonists blocked this translocation, retaining the modified receptor, D1-nuclear localization signal (NLS), at the cell surface. D1 co-translocated with D1-NLS to the nucleus, indicating formation of homooligomers. (+)-Butaclamol retained both receptors at the cell surface, and removal of the drug allowed translocation of both receptors to the nucleus. Agonist-nonbinding D1(S198A/S199A)-NLS, containing two substituted serine residues in transmembrane 5 also oligomerized with D1, and both were retained on the cell surface by (+)-butaclamol. Drug removal disrupted these oligomerized receptors so that D1 remained at the cell surface while D1(S198A/S199A)-NLS trafficked to the nucleus. Thus, receptor conformational differences permitted oligomer disruption and showed that ligand-binding pocket occupancy by the inverse agonist induced a conformational change. We demonstrated robust heterooligomerization between the D2 dopamine receptor and the D1 receptor. The heterooligomers could not be disrupted by inverse agonists targeting either one of the receptor constituents. However, D2 did not heterooligomerize with the structurally modified D1(S198A/S199A), indicating an impaired interface for their interaction. Thus, we describe a novel method showing that a homogeneous receptor conformation maintains the structural integrity of oligomers, whereas conformational heterogeneity disrupts it.
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GEOZS, IJS, IMTLJ, KILJ, KISLJ, NLZOH, NUK, OILJ, PNG, SAZU, SBCE, SBJE, UILJ, UL, UM, UPCLJ, UPUK, ZAGLJ, ZRSKP
MAUS: the MICE analysis user software Asfandiyarov, R.; Bayes, R.; Blackmore, V. ...
Journal of instrumentation,
04/2019, Volume:
14, Issue:
4
Journal Article
Peer reviewed
Open access
The Muon Ionization Cooling Experiment (MICE) collaboration has developed the MICE Analysis User Software (MAUS) to simulate and analyze experimental data. It serves as the primary codebase for the ...experiment, providing for offline batch simulation and reconstruction as well as online data quality checks. The software provides both traditional particle-physics functionalities such as track reconstruction and particle identification, and accelerator physics functions, such as calculating transfer matrices and emittances. The code design is object orientated, but has a top-level structure based on the Map-Reduce model. This allows for parallelization to support live data reconstruction during data-taking operations. MAUS allows users to develop in either Python or C++ and provides APIs for both. Various software engineering practices from industry are also used to ensure correct and maintainable code, including style, unit and integration tests, continuous integration and load testing, code reviews, and distributed version control. The software framework and the simulation and reconstruction capabilities are described.
ABSTRACT
Background
The roles of hypoxia and hypoxia inducible factor (HIF) during chronic kidney disease (CKD) are much debated. Interventional studies with HIF-α activation in rodents have yielded ...contradictory results. The HIF pathway is regulated by prolyl and asparaginyl hydroxylases. While prolyl hydroxylase inhibition is a well-known method to stabilize HIF-α, little is known about the effect asparaginyl hydroxylase factor inhibiting HIF (FIH).
Methods
We used a model of progressive proteinuric CKD and a model of obstructive nephropathy with unilateral fibrosis. In these models we assessed hypoxia with pimonidazole and vascularization with three-dimensional micro-computed tomography imaging. We analysed a database of 217 CKD biopsies from stage 1 to 5 and we randomly collected 15 CKD biopsies of various severity degrees to assess FIH expression. Finally, we modulated FIH activity in vitro and in vivo using a pharmacologic approach to assess its relevance in CKD.
Results
In our model of proteinuric CKD, we show that early CKD stages are not characterized by hypoxia or HIF activation. At late CKD stages, some areas of hypoxia are observed, but these are not colocalizing with fibrosis. In mice and in humans, we observed a downregulation of the HIF pathway, together with an increased FIH expression in CKD, according to its severity. Modulating FIH in vitro affects cellular metabolism, as described previously. In vivo, pharmacologic FIH inhibition increases the glomerular filtration rate of control and CKD animals and is associated with decreased development of fibrosis.
Conclusions
The causative role of hypoxia and HIF activation in CKD progression is questioned. A pharmacological approach of FIH downregulation seems promising in proteinuric kidney disease.
Graphical Abstract
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