Superconducting transition of a two-dimensional Josephson junction array in weak magnetic fields

The superconducting transition of a two-dimensional (2D) Josephson junction array exposed to weak magnetic fields has been studied experimentally. Resistance measurements reveal a superconducting-resistive phase boundary in serious disagreement with the theoretical and numerical expectations. Critical scaling analyses of the $IV$ characteristics indicate contrary to the expectations that the superconducting-to-resistive transition in weak magnetic fields is associated with a melting transition of magnetic-field-induced vortices directly from a pinned-solid phase to a liquid phase. The expected depinning transition of vortices from a pinned-solid phase to an intermediate floating-solid phase was not observed. We discuss effects of the disorder-induced random pinning potential on phase transitions of vortices in a 2D Josephson junction array.Comment: 9 pages, 7 figures (EPS+JPG format), RevTeX

Superconducting phase transitions in frustrated Josephson-junction arrays on a dice lattice

Transport measurements are carried out on dice Josephson-junction arrays with the frustration index $f=1/3$ and 1/2 which possess, within the limit of the $XY$ model, an accidental degeneracy of the ground states as a consequence of the formation of zero-energy domain walls. The measurements demonstrate that both the systems undergo a phase transition to a superconducting vortex-ordered state at considerably high temperatures. The experimental findings are in apparent contradiction with the theoretical expectation that frustration effects in the $f=1/3$ system are particularly strong enough to suppress a vortex-ordering transition down to near zero temperature. The data for $f=1/2$ are more consistent with theoretical evaluations. The agreement between the experiments and the Monte Carlo simulations of a $XY$ model for $f=1/3$ suggests that the order-from-disorder mechanism for the removal of an accidental degeneracy may still be effective in the $f=1/3$ system. The transport data also reveal that the dice arrays with zero-energy domain walls experience a much slower critical relaxation than other frustrated arrays only with finite-energy walls.Comment: 4 pages, 4 figure

Optical Gating of Resonance Fluorescence from a Single Germanium Vacancy Color Center in Diamond

© 2019 American Physical Society. Scalable quantum photonic networks require coherent excitation of quantum emitters. However, many solid-state systems can undergo a transition to a dark shelving state that inhibits the resonance fluorescence. Here, we demonstrate that by a controlled gating using a weak nonresonant laser, the resonant fluorescence can be recovered and amplified for single germanium vacancies. Employing the gated resonance excitation, we achieve optically stable resonance fluorescence of germanium vacancy centers. Our results are pivotal for the deployment of diamond color centers as reliable building blocks for scalable solid-state quantum networks

Frustrated two-dimensional Josephson junction array near incommensurability

To study the properties of frustrated two-dimensional Josephson junction arrays near incommensurability, we examine the current-voltage characteristics of a square proximity-coupled Josephson junction array at a sequence of frustrations f=3/8, 8/21, 0.382 $(\approx (3-\sqrt{5})/2)$, 2/5, and 5/12. Detailed scaling analyses of the current-voltage characteristics reveal approximately universal scaling behaviors for f=3/8, 8/21, 0.382, and 2/5. The approximately universal scaling behaviors and high superconducting transition temperatures indicate that both the nature of the superconducting transition and the vortex configuration near the transition at the high-order rational frustrations f=3/8, 8/21, and 0.382 are similar to those at the nearby simple frustration f=2/5. This finding suggests that the behaviors of Josephson junction arrays in the wide range of frustrations might be understood from those of a few simple rational frustrations.Comment: RevTex4, 4 pages, 4 eps figures, to appear in Phys. Rev.

Critical Behavior of Frustrated Josephson Junction Arrays with Bond Disorder

The scaling behavior of the current-voltage ($IV$) characteristics of a two-dimensional proximity-coupled Josephson junction array (JJA) with quenched bond disorder was investigated for frustrations $f=1/5$, 1/3, 2/5, and 1/2. For all these frustrations including 1/5 and 2/5 where a strongly first-order phase transition is expected in the absence of disorder, the $IV$ characteristics exhibited a good scaling behavior. The critical exponent $\nu$ indicates that bond disorder may drive the phase transitions of frustrated JJA's to be continuous but not into the Ising universality class, contrary to what was observed in Monte Carlo simulations. The dynamic critical exponent $z$ for JJA's was found to be only 0.60 - 0.77.Comment: RevTeX4, 4 pages, 4 figures, the manuscript is replaced with the published versio

From Nonspecific DNA–Protein Encounter Complexes to the Prediction of DNA–Protein Interactions

©2009 Gao, Skolnick. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.doi:10.1371/journal.pcbi.1000341DNA–protein interactions are involved in many essential biological activities. Because there is no simple mapping code between DNA base pairs and protein amino acids, the prediction of DNA–protein interactions is a challenging problem. Here, we present a novel computational approach for predicting DNA-binding protein residues and DNA–protein interaction modes without knowing its specific DNA target sequence. Given the structure of a DNA-binding protein, the method first generates an ensemble of complex structures obtained by rigid-body docking with a nonspecific canonical B-DNA. Representative models are subsequently selected through clustering and ranking by their DNA–protein interfacial energy. Analysis of these encounter complex models suggests that the recognition sites for specific DNA binding are usually favorable interaction sites for the nonspecific DNA probe and that nonspecific DNA–protein interaction modes exhibit some similarity to specific DNA–protein binding modes. Although the method requires as input the knowledge that the protein binds DNA, in benchmark tests, it achieves better performance in identifying DNA-binding sites than three previously established methods, which are based on sophisticated machine-learning techniques. We further apply our method to protein structures predicted through modeling and demonstrate that our method performs satisfactorily on protein models whose root-mean-square Ca deviation from native is up to 5 Å from their native structures. This study provides valuable structural insights into how a specific DNA-binding protein interacts with a nonspecific DNA sequence. The similarity between the specific DNA–protein interaction mode and nonspecific interaction modes may reflect an important sampling step in search of its specific DNA targets by a DNA-binding protein

A socio-environmental geodatabase for integrative research in the transboundary Rio Grande/Río Bravo basin

Integrative research on water resources requires a wide range of socio-environmental datasets to better understand human-water interactions and inform decision-making. However, in transboundary watersheds, integrating cross-disciplinary and multinational datasets is a daunting task due to the disparity of data sources and the inconsistencies in data format, content, resolution, and language. This paper introduces a socio-environmental geodatabase that transcends political and disciplinary boundaries in the Rio Grande/Río Bravo basin (RGB). The geodatabase aggregates 145 GIS data layers on five main themes: (i) Water & Land Governance, (ii) Hydrology, (iii) Water Use & Hydraulic Infrastructures, (iv) Socio-Economics, and (v) Biophysical Environment. Datasets were primarily collected from public open-access data sources, processed with ArcGIS, and documented through the FGCD metadata standard. By synthesizing a broad array of datasets and mapping public and private water governance, we expect to advance interdisciplinary research in the RGB, provide a replicable approach to dataset compilation for transboundary watersheds, and ultimately foster transboundary collaboration for sustainable resource management.The project was funded by Grant No. G15AP00132 from the United States Geological Survey. Open Access fees paid for in whole or in part by the University of Oklahoma Libraries.Ye

Value Creation from Big Data: Looking Inside the Black Box

The advent of big data is fundamentally changing the business landscape. We open the ‘black box’ of the firm to explore how firms transform big data in order to create value and why firms differ in their abilities to create value from big data. Grounded in detailed evidence from China, the world’s largest digital market, where many firms actively engage in value creation activities from big data, we identify several novel features. We find that it is not the data itself, or individual data scientists, that generate value creation opportunities. Rather, value creation occurs through the process of data management, where managers are able to democratize, contextualize, experiment and execute data insights in a timely manner. We add richness to current theory by developing a conceptual framework of value creation from big data. We also identify avenues for future research and implications for practicing managers

The presence of serum anti-Ascaris lumbricoides IgE antibodies and of Trichuris trichiura infection are risk factors for wheezing and/or atopy in preschool-aged Brazilian children

<p>Abstract</p> <p>Background</p> <p>The elucidation of factors that trigger the development of transient wheezing in early childhood may be an important step toward understanding the pathogenesis of asthma and other allergic diseases later in life. Transient wheezing has been mainly attributed to viral infections, although sensitisation to aeroallergens and food allergens may occur at an early age. In developing countries, intestinal helminthic infections have also been associated with allergy or atopy-related disorders.</p> <p>Objective</p> <p>The aim of this study was to explore the association of <it>Trichuris trichiura </it>and <it>Ascaris lumbricoides </it>infections with wheezing and atopy in early childhood.</p> <p>Study design</p> <p>A cross-sectional study using a Portuguese-language ISAAC phase I questionnaire, adapted for preschool-aged children, nested in a cohort study of childhood diarrhoea, was conducted on 682 children. Two faecal samples per child were examined for the presence of intestinal helminthic infection. IgE antibodies against three allergenic preparations <it>(Dermatophagoides pteronyssinus, Blomia tropicalis </it>and common child food), as well as against <it>A. lumbricoides </it>antigens, were measured in a sub-sample of these children, whose parents allowed the procedure. Atopy was defined by the presence of levels of serum IgE antibodies ≥0.35 kU/L against at least one of the three tested allergenic preparations.</p> <p>Results</p> <p>Active <it>T. trichiura </it>infection but not <it>A. lumbricoides </it>infection was positively associated with wheezing in the total studied children population [adjusted OR = 2.60; CI = 1.54;4.38] and in the atopic children sub-population [adjusted OR = 3.07; CI = 1.00;9.43]. The association with atopy was also positive and statistically significant only in the brute analysis [OR = 2.13; CI = 1.03;4.40]. Anti-<it>A. lumbricoides </it>IgE antibodies, but not current <it>A. lumbricoides </it>infection, were positively associated with wheezing in atopic children [adjusted OR = 2.01; CI = 1.00;4.50] and in non-atopic children [adjusted OR = 3.07; CI = 1.13;8.35] and it was also associated with atopy [adjusted OR = 7.29; CI = 3.90; 13.4]. On the other hands, reports of wheezing were not significantly associated with atopy.</p> <p>Conclusions</p> <p>These data corroborate previous studies showing that wheezing is predominantly associated with infection in early childhood and shows that anti-<it>A. lumbricoides </it>IgE antibodies, but not active <it>Ascaris </it>infections, are associated with wheezing and atopy. Additionally, the data demonstrate that <it>T. trichiura </it>infection may play a role in the pathogenesis of atopic wheezing in early childhood.</p