bluuebunny/crossref_metadata_2025_split huggingface dataset:
Modulation of the MJO‐Related Teleconnections by the QBO
Authors: Feng Pei‐Ning , Lin Hai 
Published: September 2019

AbstractPrevious studies have provided observational evidence for a correlation between certain phases of the Madden‐Julian Oscillation (MJO) and the North Atlantic Oscillation (NAO), at a lag of about 10 days. Such a relation implies that the tropical convection of the MJO may provide sources of skill for subseasonal predictions in the extratropical regions. In this study, we show that the MJO‐NAO connection is influenced by the phase of the quasi‐biennial oscillation (QBO). During the westerly phase of QBO (WQBO), a stronger and longer lasting MJO‐NAO teleconnection is observed. About 10 days after the MJO phase 3 (7), which corresponds to enhanced (suppressed) diabatic heating anomaly in the tropical Indian Ocean and reduced (enhanced) convection in the western Pacific, a positive (negative) NAO tends to occur. On the other hand, under the easterly phase of QBO (EQBO), the MJO‐NAO teleconnection is also observed, but weaker and with less statistical significance. The QBO possibly influences the MJO‐related teleconnection by modulating the extratropical basic state. During WQBO years, there is subtropical anomalous westerly wind in the North Pacific, and as a result, the enhanced subtropical westerly jet provides a favorable environment for the MJO‐induced extratropical Rossby wave to propagate. The anomalous high‐latitude North Atlantic westerly is also favorable for troposphere‐stratosphere coupling and for the NAO to develop.
Geostationary Lightning Mapper and Earth Networks Lightning Detection Over the Contiguous United States and Dependence on Flash Characteristics
Authors: Marchand Max , Hilburn Kyle , Miller Steven D. 
Published: September 2019

AbstractThis study compared the detection capabilities of the Geostationary Lightning Mapper (GLM) and ground‐based Earth Networks Total Lightning Network (ENL) over the contiguous United States (CONUS) from 25 April 2017 to 5 May 2018. GLM detection efficiency (DE) relative to ENL varied spatially with greater DE in the southeastern United States and lower DE in the Northern Plains. Regions with greater DE were often regions where most intracloud flashes had normal positive polarity, while lower DE regions frequently had inverted negative intracloud. According to the tripolar noninductive charging model, inverted intracloud flashes are lower altitude than normal intracloud flashes. This lower altitude flash may result in greater cloud scattering of the optical lightning signal, which at cloud top is less than the GLM detection limits. DE was generally also greater for greater absolute peak current flashes, which serves as a proxy for optical energy. Additionally, GLM observed flashes to be generally greater in area and duration in the eastern relative to the western CONUS, which may result in the greater DE. GLM DE was also varied with the solar zenith angle as greatest DE occurred at night. ENL DE relative to GLM was varied spatially over CONUS with greater DE over eastern CONUS. ENL DE was greater for flashes of greater GLM flash radiant energy, area, and duration.
Mie Scattering Captures Observed Optical Properties of Ambient Biomass Burning Plumes Assuming Uniform Black, Brown, and Organic Carbon Mixtures
Authors: Chylek Petr , Lee James E. , Romonosky Dian E. , Gallo Francesca , Lou Sijia , Shrivastava Manish , Carrico Christian M. , Aiken Allison C. , Dubey Manvendra K. 
Published: September 2019

AbstractWe use a simple model of a spherical biomass burning aerosol particle containing an internal mixture of black carbon (BC) and organic carbon (OC) with an effective refractive index calculated as a volume fraction‐weighted mean of refractive indices. Brown carbon (BrC) is considered to be an OC with an imaginary part of refractive index at the blue end of the solar spectrum higher (in absolute value) than at the red end. Mie‐scattering formalism is employed to calculate absorption Ångström exponent (AAE) as a function of single‐scattering albedo (SSA) for a set of BC refractive indices, BC volume fraction, and a set of effective refractive indices of BC and BrC mixtures. Ambient plumes are characterized by their mean SSA at 405 nm wavelength and two‐wavelength (405 and 781 nm) AAE values. Comparing observed and model‐calculated AAE and SSA values identifies the BC refractive index and its volume fraction and an effective refractive index of the BC and BrC mixture. From these values, the imaginary part of BrC refractive index is calculated. For observed southwestern ambient fires, the imaginary part of BrC refractive index is ≤0.016. In contrast, fires in the Amazon and from Africa are dominated by BC. We also use the Mie scattering model to establish the upper limit on AAE of BC (AAE ≤ 1.4) and the upper limit of the BC and OC mixture (AAE ≤ 1.7). Any AAE(405/781) > 1.7 requires the presence of BrC. We derive several relationships between AAE, SSA, BC fractions, and an imaginary part of BrC refractive index of ambient fires.
Physics‐Based Simulation for Studying the Impact of Contact Resistance on DC and RF Characteristics of AlGaN/AlN/GaN HEMT
Authors: Rastogi Gunjan , Kaneriya R. K. , Sinha Santanu , Upadhyay R. B. , Bhattacharya A. N. 
Published: September 2019

AbstractFormation of a two‐dimensional electron gas in AlGaN/AlN/GaN heterostructures plays a vital role in high power and high frequency device technology. Such kinds of heterostructures are used for the fabrication of high electron mobility transistors (HEMTs). Ohmic contacts to AlGaN/AlN/GaN‐based heterostructures with low contact resistance and smooth surface are crucial in the development of high power, high frequency transistors in the GaN system. In the present study, physics‐based simulation of impact of ohmic contact resistance on DC and RF characteristics of AlGaN/AlN/GaN HEMT on 6H‐SiC substrate has been addressed for the first time. Samples A, B, and C of contact resistance 0.25, 0.27, and 0.59 Ω * mm, respectively, were fabricated with different process variations. By using measured contact resistance values, physics‐based simulation of 100‐nm gate length GaN HEMT was done, and corresponding device behavior was studied using TCAD. It has also been shown that simulated results for AlGaN/AlN/GaN heterostructure are closely matching with reported measured data.
Ecohydrology of Interannual Changes in Watershed Storage
Authors: Rice Joshua S. , Emanuel Ryan E. 
Published: September 2019

AbstractWatershed studies often rely on the assumption that interannual storage changes are negligible in the hydrologic balance of a watershed. The assumption can be useful and is sometimes necessary, but it is widely acknowledged as unrealistic. Identifying and understanding systematic deviations from hydrologic steady state has important implications for both hydrologic research and water management. To that end, we evaluated the magnitude of interannual changes in storage for nearly 1000 watersheds in the conterminous United States for the 10‐year period 2002 to 2011 using ground‐based and remotely sensed data. We evaluated relationships between changes in storage (i.e., deviations from hydrologic steady state), vegetation cover, and hydroclimatic variables. Analysis of results using a Budyko framework revealed that, in general, greater evaporative partitioning led to smaller deviations from hydrologic steady state. Additional analysis using gradient boosted regression tree modeling identified an inverse relationship between forest cover and the magnitude of deviations from hydrologic steady state. In fact, modeling showed forest cover to be a stronger driver of variability in deviations from steady state than any hydroclimatic variable. We discuss ecohydrological feedbacks capable of contributing to steady‐state conditions in forested watersheds, and we discuss implications of these results for the coevolution of watersheds, vegetation, and climate.
Analysis of the Effects of Dam Release Properties and Ambient Groundwater Flow on Surface Water‐Groundwater Exchange Over a 100‐km‐Long Reach
Authors: Ferencz Stephen B. , Cardenas M. Bayani , Neilson Bethany T. 
Published: September 2019

AbstractHydroelectric dams often create highly dynamic downstream flows that promote surface water‐groundwater (SW‐GW) interactions including bank storage, the temporary storage of river water in the riverbank. Previous research on SW‐GW exchanges in dammed rivers has primarily been at single study sites, which has limited the understanding of how these exchanges evolve as dam releases travel downstream. This study evaluates how dam releases affect SW‐GW exchange continuously over a 100‐km distance. This is accomplished by longitudinally routing water releases through a synthetic river and modeling bed and bank fluid and solute exchange across transverse transects spaced along the reach. Peak and square dam release hydrograph shapes with three magnitudes (0.5, 1.0, and 1.5 m) were considered. The effect of four ambient groundwater flow conditions (very slightly losing, neutral, and two gaining from the perspective of the river) was evaluated for each dam release scenario. Both types of dam release shapes cause SW‐GW interaction over the entire 100‐km distance, and our results show that square type releases cause bank storage exchange well beyond this distance. Strongly gaining conditions reduce the amount of exchange and allow flushing of river‐sourced solute out of the bank after the dam pulse has passed. Both neutral and losing conditions have larger fluid and solute flux into the bank and limit the amount of solute that returns to the river. Our results support that river corridors downstream of dams have increased river‐aquifer connectivity and that this enhanced connectivity can extend at least 100 km downstream.
Multi-scale analysis of the Monoceros OB 1 star-forming region
Authors: Montillaud Julien , Juvela Mika , Vastel Charlotte , He Jinhua , Liu Tie , Ristorcelli Isabelle , Eden David J. , Kang Sung-ju , Kim Kee-Tae , Koch Patrick M. , Lee Chang Won , Rawlings Mark G. , Saajasto Mika , Sanhueza Patricio , Soam Archana , Zahorecz Sarolta , Alina Dana , Bögner Rebeka , Cornu David , Doi Yasuo , Malinen Johanna , Marshall Douglas J. , Micelotta Elisabetta R. , Pelkonen Veli-Matti , Tóth L. Viktor , Traficante Alessio , Wang Ke 
Published: September 2019

Context. Current theories and models attempt to explain star formation globally, from core scales to giant molecular cloud scales. A multi-scale observational characterisation of an entire molecular complex is necessary to constrain them. We investigate star formation in G202.3+2.5, a ∼10 × 3 pc sub-region of the Monoceros OB1 cloud with a complex morphology that harbours interconnected filamentary structures.
Aims. We aim to connect the evolution of cores and filaments in G202.3+2.5 with the global evolution of the cloud and to identify the engines of the cloud dynamics.
Methods. In this first paper, the star formation activity is evaluated by surveying the distributions of dense cores and protostars and their evolutionary state, as characterised using both infrared observations from the Herschel and WISE telescopes and molecular line observations with the IRAM 30 m telescope.
Results. We find ongoing star formation in the whole cloud, with a local peak in star formation activity around the centre of G202.3+2.5, where a chain of massive cores (10 − 50 M⊙) forms a massive ridge (≳150 M⊙). All evolutionary stages from starless cores to Class II protostars are found in G202.3+2.5, including a possibly starless and massive (52 M⊙) core, which presents a high column density (8 × 1022 cm−2).
Conclusions. All the core-scale observables we examined point to an enhanced star formation activity that is centred on the junction between the three main branches of the ramified structure of G202.3+2.5. This suggests that the increased star formation activity results from the convergence of these branches. To further investigate the origin of this enhancement, it is now necessary to extend the analysis to larger scales in order to examine the relationship between cores, filaments, and their environment. We address these points through the analysis of the dynamics of G202.3+2.5 in a joint paper.
Sodium Glucose Cotransporter 2 (SGLT2) Inhibitors Across the Spectrum of Hypertension
Authors: Sanidas Elias A , Papadopoulos Dimitrios P , Hatziagelaki Erifili , Grassos Charalampos , Velliou Maria , Barbetseas John 
Published: September 2019

AbstractSodium glucose cotransporter 2 (SGLT2) inhibitors represent a novel class of oral antihyperglycemic drugs that have been approved over the last decade for the management of type 2 diabetes mellitus. Except the glucose-lowering effects, robust evidence also suggests that SGLT2 inhibitors confer benefits in cardiovascular system. The purpose of this review was to investigate the effects of SGLT2 inhibitors across the spectrum of arterial hypertension.
Bayesian Hierarchical Modelling of Individual Expert Assessments in the Development of a General-Population Job-Exposure Matrix
Authors: Sauvé Jean-François , Sylvestre Marie-Pierre , Parent Marie-Élise , Lavoué Jérôme 
Published: September 2019

AbstractThe CANJEM job-exposure matrix compiles expert evaluations of 31 673 jobs from four population-based case–control studies conducted in Montreal. For each job, experts had derived indices of intensity, frequency, and probability of exposure to 258 agents. CANJEM summarizes the exposures assigned to jobs into cells defined by occupation/industry, agent, and period. Some cells may, however, be less populated than others, resulting in uncertain estimates. We developed a modelling framework to refine the estimates of sparse cells by drawing on information available in adjacent cells. Bayesian hierarchical logistic and linear models were used to estimate the probability of exposure and the geometric mean (GM) of frequency-weighted intensity (FWI) of cells, respectively. The hierarchy followed the Canadian Classification and Dictionary of Occupations (CCDO) classification structure, allowing for exposure estimates to be provided across occupations (seven-digit code), unit groups (four-digit code), and minor groups (three-digit code). The models were applied to metallic dust, formaldehyde, wood dust, silica, and benzene, and four periods, adjusting for the study from which jobs were evaluated. The models provided estimates of probability and FWI for all cells that pulled the sparsely populated cells towards the average of the higher-level group. In comparisons stratified by cell sample size, shrinkage of the estimates towards the group mean was marked below 5 jobs/cell, moderate from 5 to 9 jobs/cell, and negligible at ≥10 jobs/cell. The modelled probability of three-digit cells were slightly smaller than their descriptive estimates. No systematic trend in between-study differences in exposure emerged. Overall, the modelling framework for FWI appears to be a suitable approach to refine CANJEM estimates. For probability, the models could be improved by methods better adapted to the large number of cells with no exposure.
AssessORF: combining evolutionary conservation and proteomics to assess prokaryotic gene predictions
Authors: Korandla Deepank R , Wozniak Jacob M , Campeau Anaamika , Gonzalez David J , Wright Erik S 
Published: September 2019

Abstract

Motivation
A core task of genomics is to identify the boundaries of protein coding genes, which may cover over 90% of a prokaryote's genome. Several programs are available for gene finding, yet it is currently unclear how well these programs perform and whether any offers superior accuracy. This is in part because there is no universal benchmark for gene finding and, therefore, most developers select their own benchmarking strategy.

Results
Here, we introduce AssessORF, a new approach for benchmarking prokaryotic gene predictions based on evidence from proteomics data and the evolutionary conservation of start and stop codons. We applied AssessORF to compare gene predictions offered by GenBank, GeneMarkS-2, Glimmer and Prodigal on genomes spanning the prokaryotic tree of life. Gene predictions were 88–95% in agreement with the available evidence, with Glimmer performing the worst but no clear winner. All programs were biased towards selecting start codons that were upstream of the actual start. Given these findings, there remains considerable room for improvement, especially in the detection of correct start sites.

Availability and implementation
AssessORF is available as an R package via the Bioconductor package repository.

Supplementary information
Supplementary data are available at Bioinformatics online.
Adjuvanted Recombinant Glycoprotein E Herpes Zoster Vaccine
Authors: Levin Myron J , Weinberg Adriana 
Published: September 2019

Abstract
The adjuvanted recombinant glycoprotein E herpes zoster (HZ) vaccine is superior to the live attenuated HZ vaccine, with an efficacy &gt;90% against HZ in healthy immunocompetent adults aged ≥50 years after vaccination. In pivotal studies, the efficacy of the new vaccine varied very little with the age of the vaccinee and decreased only by 5–10% in the 3.5 years after immunization. This nonlive vaccine was successfully administered to small cohorts of immunocompromised individuals; initial trials showed efficacy of &gt;60–80% in several such settings. Potential drawbacks include the requirement for 2 vaccine doses separated by 2–6 months, local and systemic reactogenicity that is significantly greater than observed with commonly used vaccines, and the inclusion of a strong adjuvant that has been minimally studied in clinical settings where it might be problematic, such as in people with autoimmune diseases. Postmarketing studies are underway to address some of the drawbacks.
Perioperative Dietary Therapy in Inflammatory Bowel Disease
Authors: Adamina Michel , Gerasimidis Konstantinos , Sigall-Boneh Rotem , Zmora Oded , de Buck van Overstraeten Anthony , Campmans-Kuijpers Marjo , Ellul Pierre , Katsanos Konstantinos , Kotze Paulo Gustavo , Noor Nurulamin , Schäfli-Thurnherr Judit , Vavricka Stephan , Wall Catherine , Wierdsma Nicolette , Yassin Nuha , Lomer Miranda 
Published: September 2019

AbstractBackground and AimsThe incidence of inflammatory bowel disease [IBD] is rising worldwide and no cure is available. Many patients require surgery and they often present with nutritional deficiencies. Although randomised controlled trials of dietary therapy are lacking, expert IBD centres have long-established interdisciplinary care, including tailored nutritional therapy, to optimise clinical outcomes and resource utilisation. This topical review aims to share expertise and offers current practice recommendations to optimise outcomes of IBD patients who undergo surgery.MethodsA consensus expert panel consisting of dietitians, surgeons, and gastroenterologists, convened by the European Crohn’s and Colitis Organisation, performed a systematic literature review. Nutritional evaluation and dietary needs, perioperative optimis ation, surgical complications, long-term needs, and special situations were critically appraised. Statements were developed using a Delphi methodology incorporating three successive rounds. Current practice positions were set when ≥80% of participants agreed on a recommendation.ResultsA total of 26 current practice positions were formulated which address the needs of IBD patients perioperatively and in the long term following surgery. Routine screening, perioperative optimisation by oral, enteral, or parenteral nutrition, dietary fibre, and supplements were reviewed. IBD-specific situations, including management of patients with a restorative proctocolectomy, an ostomy, strictures, or short-bowel syndrome, were addressed.ConclusionsPerioperative dietary therapy improves the outcomes of IBD patients who undergo a surgical procedure. This topical review shares interdisciplinary expertise and provides guidance to optimise the outcomes of patients with Crohn’s disease and ulcerative colitis. taking advantage of contemporary nutrition science.
Comparative Genomic Analysis of the Pheromone Receptor Class 1 Family (V1R) Reveals Extreme Complexity in Mouse Lemurs (Genus, Microcebus) and a Chromosomal Hotspot across Mammals
Authors: Hunnicutt Kelsie E , Tiley George P , Williams Rachel C , Larsen Peter A , Blanco Marina B , Rasoloarison Rodin M , Campbell C Ryan , Zhu Kevin , Weisrock David W , Matsunami Hiroaki , Yoder Anne D 
Published: September 2019

AbstractSensory gene families are of special interest for both what they can tell us about molecular evolution and what they imply as mediators of social communication. The vomeronasal type-1 receptors (V1Rs) have often been hypothesized as playing a fundamental role in driving or maintaining species boundaries given their likely function as mediators of intraspecific mate choice, particularly in nocturnal mammals. Here, we employ a comparative genomic approach for revealing patterns of V1R evolution within primates, with a special focus on the small-bodied nocturnal mouse and dwarf lemurs of Madagascar (genera Microcebus and Cheirogaleus, respectively). By doubling the existing genomic resources for strepsirrhine primates (i.e. the lemurs and lorises), we find that the highly speciose and morphologically cryptic mouse lemurs have experienced an elaborate proliferation of V1Rs that we argue is functionally related to their capacity for rapid lineage diversification. Contrary to a previous study that found equivalent degrees of V1R diversity in diurnal and nocturnal lemurs, our study finds a strong correlation between nocturnality and V1R elaboration, with nocturnal lemurs showing elaborate V1R repertoires and diurnal lemurs showing less diverse repertoires. Recognized subfamilies among V1Rs show unique signatures of diversifying positive selection, as might be expected if they have each evolved to respond to specific stimuli. Furthermore, a detailed syntenic comparison of mouse lemurs with mouse (genus Mus) and other mammalian outgroups shows that orthologous mammalian subfamilies, predicted to be of ancient origin, tend to cluster in a densely populated region across syntenic chromosomes that we refer to as a V1R “hotspot.”
On discount rates for economic evaluations in global health
Authors: Haacker Markus , Hallett Timothy B , Atun Rifat 
Published: September 2019

AbstractChoices on discount rates have important implications for the outcomes of economic evaluations of health interventions and policies. In global health, such evaluations typically apply a discount rate of 3% for health outcomes and costs, mirroring guidance developed for high-income countries, notably the USA. The article investigates the suitability of these guidelines for global health [i.e. with a focus on low- and middle-income countries (LMICs)] and seeks to identify best practice. Our analysis builds on an overview of the academic literature on discounting in health evaluations, existing academic or government-related guidelines on discounting, a review on discount rates applied in economic evaluations in global health, and cross-country macroeconomic data. The social discount rate generally applied in global health of 3% annually is inconsistent with rates of economic growth experienced outside the most advanced economies. For low- and lower-middle-income countries, a discount rate of at least 5% is more appropriate, and one around 4% for upper-middle-income countries. Alternative approaches—e.g. motivated by the returns to alternative investments or by the cost of financing—could usefully be applied, dependent on policy context. The current practise could lead to systematic bias towards over-valuing the future costs and health benefits of interventions. For health economic evaluations in global health, guidelines on discounting need to be adapted to take account of the different economic contexts of LMICs.