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At least 865 records · Page 48

Development of a portable high-T c spherical neutron polarimetry device at the Oak Ridge National Laboratory

Spherical neutron polarimetry is a powerful polarized neutron scattering technique used to determine complex magnetic structures which are only partly accessible by other methods. This technique measures the full neutron polarization change upon scattering from a sample by fully decoupling the incoming and outgoing neutron polarization with a zero-field chamber placed at the sample position. Recent advancements and testing are presented for a new spherical neutron polarimetry device utilizing high-T c superconducting YBCO films, PHiTPAD, at the High Flux Isotope Reactor at Oak Ridge National Laboratory. Furthermore, we introduce a conceptual design that utilizes wavelength-independent adiabatic transitions to adapt spherical neutron polarimetry for use with pulsed neutron sources, thereby expanding its potential applications in neutron scattering research.

47 OTHER INSTRUMENTATION↗

Reagent-free and portable detection of Bacillus anthracis spores using a microfluidic incubator and smartphone microscope

Rapid, cost-effective bacterial detection systems are needed to respond to potential biothreat events. Here we report the use of smartphone-based microscopy in combination with a simple microfluidic incubation device to detect 5000 Bacillus anthracis spores in 3 hours. This field-deployable approach is compatible with real-time PCR for secondary confirmation.

B. anthracis↗

Ultrasensitive multi-species detection of CRISPR-Cas9 by a portable centrifugal microfluidic platform

The discovery of the RNA-guided DNA nuclease CRISPR-Cas9 has enabled the targeted editing of genomes from diverse organisms, but the permanent and inheritable nature of genome modification also poses immense risks. The potential for accidental exposure, malicious use, or undesirable persistence of Cas9 therapeutics and off-target genome effects highlight the need for detection assays. Here we report a centrifugal microfluidic platform for the measurement of both Cas9 protein levels and nuclease activity. Because Cas9 from many bacterial species have been adapted for biotechnology applications, we developed the capability to detect Cas9 from the widely-used S. pyogenes, as well as S. aureus, N. meningitidis, and S. thermophilus using commercially-available antibodies. Further, we show that the phage-derived anti-CRISPR protein AcrIIC1, which binds to Cas9 from several species, can be used as a capture reagent to broaden the species range of detection. Finally, as genome modification generally requires Cas9 nuclease activity, a fluorescence-based sedimentation nuclease assay was also incorporated to allow the sensitive and simultaneous measurement of both Cas9 protein and activity in a single biological sample.

59 BASIC BIOLOGICAL SCIENCES↗

Comparison of machine learning techniques to optimize the analysis of plutonium surrogate material via a portable LIBS device

The utilization of machine learning techniques has become commonplace in the analysis of optical emission spectra. These methods are often limited to variants of principal components analysis (PCA), partial-least squares (PLS), and artificial neural networks (ANNs). A plethora of other techniques exist and are well established in the world of data science, yet are seldom investigated for their use in spectroscopic problems. In this study, machine learning techniques were used to analyze optical emission spectra of laser-induced plasma from ceria pellets doped with silicon in order to predict silicon content. Additionally, a boosted regression ensemble model was created, and its predictive accuracy was compared to that of traditional PCA, PLS, and ANN regression models. Boosted regression tree ensembles yielded fits with R-squared (R2) values as high as 0.964 and mean-squared errors of prediction (MSEPs) as low as 0.074, providing the most accurate predictive model. Neural networks performed with slightly lower R2 values and higher MSEPs compared to the ensemble methods, thus indicating susceptibility to overfitting.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

A new portable random number generator wrapper library

Random number generator is an important component of many scientific projects. Many projects are written using programming models (like OpenMP and SYCL) to target different architectures. However, some programming models do not provide a random number generator. In this work, we introduce our random number generator wrapper. It is a header-only library that supports three distributions of random numbers: uniform, normal, and poisson. On the GPU backend, it wraps the cuRAND and rocRAND library, and supports various random number engines. It also wraps random123, a counterbased random number generator, on both CPU and GPU. With this library, we can generate random numbers with a few lines of code and target both GPU and multi-thread CPU with the same code. We also investigate the performance and scalability of this wrapper on different architectures with different engines and the number of cores.

97 MATHEMATICS AND COMPUTING↗

Contributed Review: The feasibility of a fully miniaturized magneto-optical trap for portable ultracold quantum technology

Experiments using laser cooled atoms and ions show real promise for practical applications in quantum-enhanced metrology, timing, navigation, and sensing as well as exotic roles in quantum computing, networking, and simulation. The heart of many of these experiments has been translated to microfabricated platforms known as atom chips whose construction readily lend themselves to integration with larger systems and future mass production. To truly make the jump from laboratory demonstrations to practical, rugged devices, the complex surrounding infrastructure (including vacuum systems, optics, and lasers) also needs to be miniaturized and integrated. In this paper we explore the feasibility of applying this approach to the Magneto-Optical Trap; incorporating the vacuum system, atom source and optical geometry into a permanently sealed micro-litre system capable of maintaining 10{sup −10} mbar for more than 1000 days of operation with passive pumping alone. We demonstrate such an engineering challenge is achievable using recent advances in semiconductor microfabrication techniques and materials.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Design of a portable optical emission tomography system for microwave induced compact plasma for visible to near-infrared emission lines

A new non-invasive diagnostic system is developed for Microwave Induced Plasma (MIP) to reconstruct tomographic images of a 2D emission profile. A compact MIP system has wide application in industry as well as research application such as thrusters for space propulsion, high current ion beams, and creation of negative ions for heating of fusion plasma. Emission profile depends on two crucial parameters, namely, the electron temperature and density (over the entire spatial extent) of the plasma system. Emission tomography provides basic understanding of plasmas and it is very useful to monitor internal structure of plasma phenomena without disturbing its actual processes. This paper presents development of a compact, modular, and versatile Optical Emission Tomography (OET) tool for a cylindrical, magnetically confined MIP system. It has eight slit-hole cameras and each consisting of a complementary metal–oxide–semiconductor linear image sensor for light detection. The optical noise is reduced by using aspheric lens and interference band-pass filters in each camera. The entire cylindrical plasma can be scanned with automated sliding ring mechanism arranged in fan-beam data collection geometry. The design of the camera includes a unique possibility to incorporate different filters to get the particular wavelength light from the plasma. This OET system includes selected band-pass filters for particular argon emission 750 nm, 772 nm, and 811 nm lines and hydrogen emission H{sub α} (656 nm) and H{sub β} (486 nm) lines. Convolution back projection algorithm is used to obtain the tomographic images of plasma emission line. The paper mainly focuses on (a) design of OET system in detail and (b) study of emission profile for 750 nm argon emission lines to validate the system design.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

X-pinch X-ray emission on a portable low-current, fast rise-time generator

In this paper, we report on experiments exploring X-ray emission from an X-pinch driven by a small Marx-waterline generator supplying 50 kA with a risetime of 50 ns and a peak voltage of ~250 kV. Both standard crossed wire loads and hybrid loads utilizing conical metal electrodes with a single short wire in between them were studied, and in both cases reliable modes of operation were obtained for X-ray radiography. Soft (few keV) and Hard (>5 keV) X-ray emission characteristics were observed. With standard X-pinches, soft radiation emanated from a small hot spot about 3 μm in size, along with hard radiation from a ~200 μm region close to this hot spot. With hybrid X-pinches, the hot spot was <7 μm in size. Finally, there was a clear correlation between the soft and hard X-ray emission—pinches that produced intense soft X-ray emission from a small hot spot also produced the most intense, localized hard X-ray emission.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Complete Stokes vector analysis with a compact, portable rotating waveplate polarimeter

Accurate calibration of polarization dependent optical elements is often necessary in optical experiments. A versatile polarimeter device to measure the polarization state of light is a valuable tool in these experiments. Here we report a rotating waveplate-based polarimeter capable of complete Stokes vector analysis of collimated light. Calibration of the device allows accurate measurements over a range of wavelengths, with a bandwidth of >30 nm in this implementation. A photo-interrupter trigger system supplies the phase information necessary for full determination of the Stokes vector. An Arduino microcontroller performs rapid analysis and displays the results on a liquid crystal display. The polarimeter is compact and can be placed anywhere on an optical table on a single standard post. The components to construct the device are only a fraction of the cost of commercially available devices while the accuracy and precision of the measurements are of the same order of magnitude.

47 OTHER INSTRUMENTATION↗

Probing local electron temperature and density inside a sheared flow stabilized Z-pinch using portable optical Thomson scattering

We report the first optical Thomson scattering measurements inside a high electron temperature (≳1 keV) and moderate electron density (mid 10 16 cm –3 ) plasma. This diagnostic has been built to provide critical plasma parameters, such as electron temperature and density, for Advanced Research Projects Agency-Energy-supported fusion-energy concepts. It uses an 8 J laser at 532 nm in 1.5 ns to measure the high frequency feature of the Thomson scattering profile at 17 locations along the probe axis. It is able to measure electron density from 5 × 10 17 cm –3 to several 10 19 cm –3 and electron temperatures from tens of eV to several keV. Here, in this paper, we describe the design, deployment, and analysis on the sheared flow stabilized Z-pinch machine at Zap Energy named FuZE. The probe beam is aimed at an axial distance of 20 cm from the central electrode and is timed within the temporal envelope of neutron emission. The high temperature and moderate density plasmas generated on FuZE lie in an unconventional regime for Thomson scattering as they are between tokamaks and laser-produced plasmas. We described the analysis considerations in this regime, show that the electron density was below 5 × 10 16 cm –3 at all times during these measurements, and present a sample shot where the inferred electron temperature varied from 167 ± 16 eV to 700 ± 85 eV over 1.6 cm.

47 OTHER INSTRUMENTATION↗

Developments in Performance and Portability of BlockGen

For more than a decade Monte Carlo event generators with the current matrix element algorithms have been used for generating hard scattering events on CPU platforms, with excellent flexibility and good efficiency. While the HL-LHC is approaching and precision requirements are becoming more demanding, many studies have been made to solve the bottleneck in the current Monte Carlo event generator tool chains. The novel BlockGen family of fast matrix element algorithms shown in this report, is one of the new developments that are more suitable for GPU acceleration. We report the development experience of porting BlockGen using Kokkos. Moreover, we discuss the performance of the Kokkos version in comparison with the dedicated GPU version in CUDA.

Bothmann, E. [Gottingen U.]↗

Health Insurance Portability and Accountability Act-Compliant Ocular Telehealth Network for the Remote Diagnosis and Management of Diabetic Retinopathy

In this article, we present the design and implementation of a regional ocular telehealth network for remote assessment and management of diabetic retinopathy (DR), including the design requirements, network topology, protocol design, system work flow, graphics user interfaces, and performance evaluation. The Telemedical Retinal Image Analysis and Diagnosis Network is a computer-aided, image analysis telehealth paradigm for the diagnosis of DR and other retinal diseases using fundus images acquired from primary care end users delivering care to underserved patient populations in the mid-South and southeastern United States.

59 BASIC BIOLOGICAL SCIENCES↗

A case study evaluating the portability of an executable computable phenotype algorithm across multiple institutions and electronic health record environments

Abstract Electronic health record (EHR) algorithms for defining patient cohorts are commonly shared as free-text descriptions that require human intervention both to interpret and implement. We developed the Phenotype Execution and Modeling Architecture (PhEMA, http://projectphema.org) to author and execute standardized computable phenotype algorithms. With PhEMA, we converted an algorithm for benign prostatic hyperplasia, developed for the electronic Medical Records and Genomics network (eMERGE), into a standards-based computable format. Eight sites (7 within eMERGE) received the computable algorithm, and 6 successfully executed it against local data warehouses and/or i2b2 instances. Blinded random chart review of cases selected by the computable algorithm shows PPV ≥90%, and 3 out of 5 sites had >90% overlap of selected cases when comparing the computable algorithm to their original eMERGE implementation. This case study demonstrates potential use of PhEMA computable representations to automate phenotyping across different EHR systems, but also highlights some ongoing challenges.

Pacheco, Jennifer A.↗