Non-uniform vortex lattices in inhomogeneous rotating Bose-Einstein condensates

We derive a general framework, in terms of elastic theory, for describing the distortion of the vortex lattice in a rotating Bose-Einstein condensate at arbitrary rotation speed and determining the dependence of the distortion on the density inhomogeneity of the system. In the rapidly rotating limit, we derive the energetics in terms of Landau levels, including excitation to higher levels; the distortion depends on the excitation of higher levels as well as on the density gradient. As we show, the dominant effect of higher Landau levels in a distorted lattice in equilibrium is simply to renormalize the frequency entering the lowest Landau level condensate wave function -- from the transverse trap frequency, $\omega$, to the rotational frequency, $\Omega$, of the system. Finally, we show how the equilibrium lattice distortion emerges from elastohydrodynamic theory for inhomogeneous systems.Comment: 6 pages, no figure

Structure of vortices in rotating Bose-Einstein condensates

We calculate the structure of individual vortices in rotating Bose-Einstein condensates in a transverse harmonic trap. Making a Wigner-Seitz approximation for the unit cell of the vortex lattice, we derive the Gross-Pitaevskii equation for the condensate wave function in each cell of the lattice, including effects of varying coarse grained density. We calculate the Abrikosov parameter, the fractional core area, and the energy of individual cells.Comment: 10 pages, 9 figures, published versio

Trace-element and physical response to melt percolation in Summit (Greenland) snow

Surface melt on a glacier can perturb the glaciochemical record beyond the natural variability. While the centre of the Greenland ice sheet is usually devoid of surface melt, many high- Arctic and alpine ice cores document frequent summertime melt events. Current hypotheses interpreting melt-affected ice-core chemistry rely on preferential elution of certain major ions. However, the precise nature of chemistry alteration is unknown because it is difficult to distinguish natural variability from melt effects in a perennially melt-affected site. We use eight trace-element snow chemistry records recovered from Summit, Greenland, to study spatial variability and melt effects on insoluble trace chemistry and physical stratigraphy due to artificially introduced meltwater. Differences between non-melt and melt-affected chemistry were significantly greater than the spatial variability in chemistry represented by nearest-neighbour pairs. Melt-perturbed trace elements, particularly rare earth elements, retained their seasonal stratigraphies, suggesting that trace elements may serve as robust chemical indicators for annual layers even in melt-affected study areas. Results suggest trace-element transport via meltwater percolation will deposit eluted material down-pit in refrozen areas below the nearest-surface chemistry peak. In our experiments, snow chemistry analyses are more sensitive to melt perturbations than density changes or unprocessed near-infrared digital imagery

GLUE: a flexible software system for virus sequence data

Background: Virus genome sequences, generated in ever-higher volumes, can provide new scientific insights and inform our responses to epidemics and outbreaks. To facilitate interpretation, such data must be organised and processed within scalable computing resources that encapsulate virology expertise. GLUE (Genes Linked by Underlying Evolution) is a data-centric bioinformatics environment for building such resources. The GLUE core data schema organises sequence data along evolutionary lines, capturing not only nucleotide data but associated items such as alignments, genotype definitions, genome annotations and motifs. Its flexible design emphasises applicability to different viruses and to diverse needs within research, clinical or public health contexts. Results: HCV-GLUE is a case study GLUE resource for hepatitis C virus (HCV). It includes an interactive public web application providing sequence analysis in the form of a maximum-likelihood-based genotyping method, antiviral resistance detection and graphical sequence visualisation. HCV sequence data from GenBank is categorised and stored in a large-scale sequence alignment which is accessible via web-based queries. Whereas this web resource provides a range of basic functionality, the underlying GLUE project can also be downloaded and extended by bioinformaticians addressing more advanced questions. Conclusion: GLUE can be used to rapidly develop virus sequence data resources with public health, research and clinical applications. This streamlined approach, with its focus on reuse, will help realise the full value of virus sequence data

Hepatitis C and the absence of genomic data in low-income countries: a barrier on the road to elimination?

Following the development of highly effective direct acting antiviral (DAA) compounds for the treatment of the hepatitis C virus (HCV), WHO has set out plans for disease eradication by 2030. Many barriers must be surmounted before this can be achieved, including buy-in from governments and policy makers, reduced drug costs, and improved infrastructure for the pathway from diagnosis to treatment. A comprehensive set of guidelines was produced by WHO in 2014, updated in 2016, and they are due to be revised later this year

CREST Cost of Renewable Energy Spreadsheet Tool: A Model for Developing Cost-Based Incentives in the United States; User Manual Version 4, August 2009 - March 2011 (Updated July 2013)

The objective of this document is to help model users understand how to use the CREST model to support renewable energy incentives, FITs, and other renewable energy rate-setting processes. This user manual will walk the reader through the spreadsheet tool, including its layout and conventions, offering context on how and why it was created. This user manual will also provide instructions on how to populate the model with inputs that are appropriate for a specific jurisdiction's policymaking objectives and context. Finally, the user manual will describe the results and outline how these results may inform decisions about long-term renewable energy support programs

Characterizing active and inactive brown adipose tissue in adult humans using PET-CT and MR imaging

Activated brown adipose tissue (BAT) plays an important role in thermogenesis and whole body metabolism in mammals. Positron emission tomography (PET)-computed tomography (CT) imaging has identified depots of BAT in adult humans, igniting scientific interest. The purpose of this study is to characterize both active and inactive supraclavicular BAT in adults and compare the values to those of subcutaneous white adipose tissue (WAT). We obtained [18F]fluorodeoxyglucose ([18F]FDG) PET-CT and magnetic resonance imaging (MRI) scans of 25 healthy adults. Unlike [18F]FDG PET, which can detect only active BAT, MRI is capable of detecting both active and inactive BAT. The MRI-derived fat signal fraction (FSF) of active BAT was significantly lower than that of inactive BAT (means ± SD; 60.2 ± 7.6 vs. 62.4 ± 6.8%, respectively). This change in tissue morphology was also reflected as a significant increase in Hounsfield units (HU; −69.4 ± 11.5 vs. −74.5 ± 9.7 HU, respectively). Additionally, the CT HU, MRI FSF, and MRI R2* values are significantly different between BAT and WAT, regardless of the activation status of BAT. To the best of our knowledge, this is the first study to quantify PET-CT and MRI FSF measurements and utilize a semiautomated algorithm to identify inactive and active BAT in the same adult subjects. Our findings support the use of these metrics to characterize and distinguish between BAT and WAT and lay the foundation for future MRI analysis with the hope that some day MRI-based delineation of BAT can stand on its own

Effects of harvest season on carcass characteristics of lambs in the Intermountain West

Objective: The objectives of this study were to survey characteristics including hot carcass weight (HCW), 12th rib fat thickness (RFT), body-wall thickness (BWT), longissimus muscle area (LMA), USDA yield grade (USDA YG), percentage closely trimmed retail cuts (RC), and calculated yield grade (Calc YG) of lamb carcasses in the Intermountain West to determine the effects of season of slaughter and interrelationships among carcass characteristics. Materials and Methods: Lamb carcass characteristics were evaluated in 2 commercial Intermountain West processing plants over one year (n = 10,027). Carcasses were evaluated by season: spring (December–April, n = 2,322) and summer (May–August, n = 7,705). Results and Discussion: Carcasses of lambs slaughtered in the spring had 3.4 kg heavier HCW (P = 0.04) than those slaughtered in the summer. Subcutaneous fat (RFT; P = 0.06) and Calc YG (P = 0.09) tended to be greater in the spring than summer. Correlation coefficients and models of fit with a linear covariate of HCW indicated negative relationship between HCW and RC and positive relationship with all other carcass traits (P \u3c 0.001). Overall, graded lamb carcasses exceeded commercial processing plant preferred HCW (38.6 kg) by 5% (mean = 40.5 kg) and industry acceptable RFT (6 mm) by 25% (mean = 8.03 mm). Furthermore, 70% of lamb carcasses exceed 6 mm RFT. Implications and Applications: Season of slaughter contributed to differences in HCW and USDA YG but no other carcass characteristics. Still, carcass data surveyed from the largest lamb-producing region of the United States suggests that the degree of fatness exceeds industry preferences. Although abattoirs mitigate adverse effects of excessive fat through trimming and diverse market outlets, industry-wide efforts that agree on acceptable standards of trimness are needed. Transparent dialog across industry segments should be prioritized in addition to consistent integration of value-based pricing to reduce the proportion of excessively finished lambs