Magnetic field stabilization system for atomic physics experiments

Atomic physics experiments commonly use millitesla-scale magnetic fields to provide a quantization axis. As atomic transition frequencies depend on the amplitude of this field, many experiments require a stable absolute field. Most setups use electromagnets, which require a power supply stability not usually met by commercially available units. We demonstrate stabilization of a field of 14.6 mT to 4.3 nT rms noise (0.29 ppm), compared to noise of $\gtrsim$ 100 nT without any stabilization. The rms noise is measured using a field-dependent hyperfine transition in a single $^{43}$Ca$^+$ ion held in a Paul trap at the centre of the magnetic field coils. For the $^{43}$Ca$^+$ "atomic clock" qubit transition at 14.6 mT, which depends on the field only in second order, this would yield a projected coherence time of many hours. Our system consists of a feedback loop and a feedforward circuit that control the current through the field coils and could easily be adapted to other field amplitudes, making it suitable for other applications such as neutral atom traps.Comment: 6 pages, 5 figure

Probing molecular free energy landscapes by periodic loading

Single molecule pulling experiments provide information about interactions in biomolecules that cannot be obtained by any other method. However, the reconstruction of the molecule's free energy profile from the experimental data is still a challenge, in particular for the unstable barrier regions. We propose a new method for obtaining the full profile by introducing a periodic ramp and using Jarzynski's identity for obtaining equilibrium quantities from non-equilibrium data. Our simulated experiments show that this method delivers significant more accurate data than previous methods, under the constraint of equal experimental effort.Comment: 4 pages, 3 figure

funcX: A Federated Function Serving Fabric for Science

Exploding data volumes and velocities, new computational methods and platforms, and ubiquitous connectivity demand new approaches to computation in the sciences. These new approaches must enable computation to be mobile, so that, for example, it can occur near data, be triggered by events (e.g., arrival of new data), be offloaded to specialized accelerators, or run remotely where resources are available. They also require new design approaches in which monolithic applications can be decomposed into smaller components, that may in turn be executed separately and on the most suitable resources. To address these needs we present funcX---a distributed function as a service (FaaS) platform that enables flexible, scalable, and high performance remote function execution. funcX's endpoint software can transform existing clouds, clusters, and supercomputers into function serving systems, while funcX's cloud-hosted service provides transparent, secure, and reliable function execution across a federated ecosystem of endpoints. We motivate the need for funcX with several scientific case studies, present our prototype design and implementation, show optimizations that deliver throughput in excess of 1 million functions per second, and demonstrate, via experiments on two supercomputers, that funcX can scale to more than more than 130000 concurrent workers.Comment: Accepted to ACM Symposium on High-Performance Parallel and Distributed Computing (HPDC 2020). arXiv admin note: substantial text overlap with arXiv:1908.0490

On the relationship of polar mesospheric cloud ice water content, particle radius and mesospheric temperature and its use in multi-dimensional models

The distribution of ice layers in the polar summer mesosphere (called polar mesospheric clouds or PMCs) is sensitive to background atmospheric conditions and therefore affected by global-scale dynamics. To investigate this coupling it is necessary to simulate the global distribution of PMCs within a 3-dimensional (3-D) model that couples large-scale dynamics with cloud microphysics. However, modeling PMC microphysics within 3-D global chemistry climate models (GCCM) is a challenge due to the high computational cost associated with particle following (Lagrangian) or sectional microphysical calculations. By characterizing the relationship between the PMC effective radius, ice water content (<i>iwc</i>), and local temperature (<i>T</i>) from an ensemble of simulations from the sectional microphysical model, the Community Aerosol and Radiation Model for Atmospheres (CARMA), we determined that these variables can be described by a robust empirical formula. The characterized relationship allows an estimate of an altitude distribution of PMC effective radius in terms of local temperature and <i>iwc</i>. For our purposes we use this formula to predict an effective radius as part of a bulk parameterization of PMC microphysics in a 3-D GCCM to simulate growth, sublimation and sedimentation of ice particles without keeping track of the time history of each ice particle size or particle size bin. This allows cost effective decadal scale PMC simulations in a 3-D GCCM to be performed. This approach produces realistic PMC simulations including estimates of the optical properties of PMCs. We validate the relationship with PMC data from the Solar Occultation for Ice Experiment (SOFIE)

β-Catenin is necessary to keep cells of ureteric bud/Wolffian duct epithelium in a precursor state

AbstractDifferentiation is the process by which tissues/organs take on their final, physiologically functional form. This process is mediated in part by the silencing of embryonic genes and the activation of terminal, differentiation gene products. Mammalian kidney development is initiated when the Wolffian duct branches and invades the overlying metanephric mesenchyme. The newly formed epithelial bud, known as the ureteric bud, will continue to branch ultimately differentiating into the collecting duct system and ureter. Here, we show that Hoxb7-Cre mediated removal of β-catenin from the mouse Wolffian duct epithelium leads to the premature expression of gene products normally associated with the differentiated kidney collecting duct system including the water channel protein, Aquaporin-3 and the tight junction protein isoform, ZO-1α+. Mutant cells fail to maintain expression of some genes associated with embryonic development, including several mediators of branching morphogenesis, which subsequently leads to kidney aplasia or hypoplasia. Reciprocally, expression of a stabilized form of β-catenin appears to block differentiation of the collecting ducts. All of these defects occur in the absence of any effects on the adherens junctions. These data indicate a role for β-catenin in maintaining cells of the Wolffian ducts and the duct derived ureteric bud/collecting duct system in an undifferentiated or precursor state

Enabling EASEY deployment of containerized applications for future HPC systems

The upcoming exascale era will push the changes in computing architecture from classical CPU-based systems in hybrid GPU-heavy systems with much higher levels of complexity. While such clusters are expected to improve the performance of certain optimized HPC applications, it will also increase the difficulties for those users who have yet to adapt their codes or are starting from scratch with new programming paradigms. Since there are still no comprehensive automatic assistance mechanisms to enhance application performance on such systems, we are proposing a support framework for future HPC architectures, called EASEY (Enable exASclae for EverYone). The solution builds on a layered software architecture, which offers different mechanisms on each layer for different tasks of tuning. This enables users to adjust the parameters on each of the layers, thereby enhancing specific characteristics of their codes. We introduce the framework with a Charliecloud-based solution, showcasing the LULESH benchmark on the upper layers of our framework. Our approach can automatically deploy optimized container computations with negligible overhead and at the same time reduce the time a scientist needs to spent on manual job submission configurations.Comment: International Conference on Computational Science ICCS2020, 13 page

Attractive instability of oppositely charged membranes induced by charge density fluctuations

We predict the conditions under which two oppositely charged membranes show a dynamic, attractive instability. Two layers with unequal charges of opposite sign can repel or be stable when in close proximity. However, dynamic charge density fluctuations can induce an attractive instability and thus facilitate fusion. We predict the dominant instability modes and timescales and show how these are controlled by the relative charge and membrane viscosities. These dynamic instabilities may be the precursors of membrane fusion in systems where artificial vesicles are engulfed by biological cells of opposite charge

Rupture of multiple parallel molecular bonds under dynamic loading

Biological adhesion often involves several pairs of specific receptor-ligand molecules. Using rate equations, we study theoretically the rupture of such multiple parallel bonds under dynamic loading assisted by thermal activation. For a simple generic type of cooperativity, both the rupture time and force exhibit several different scaling regimes. The dependence of the rupture force on the number of bonds is predicted to be either linear, like a square root or logarithmic.Comment: 8 pages, 2 figure