bluuebunny/crossref_metadata_2025_split huggingface dataset:
Glacial Aerodynamic Roughness Estimates: Uncertainty, Sensitivity, and Precision in Field Measurements
Authors: Chambers Joshua R. , Smith Mark W. , Quincey Duncan J. , Carrivick Jonathan L. , Ross Andrew N. , James Mike R. 
Published: December 2019

AbstractCalculation of the sensible and latent heat (turbulent) fluxes is required in order to close the surface energy budget of glaciers and model glacial melt. The aerodynamic roughness length, z0, is a key parameter in the bulk approach to calculating sensible heat flux; yet, z0 is commonly considered simply as a tuning parameter or generalized between surfaces and over time. Spatially and temporally distributed observations of z0 over ice are rare. Both direct (from wind towers and sonic anemometers) and indirect (from microtopographic surveys) measurements of z0 are subject to sensitivities and uncertainties that are often unstated or overlooked. In this study, we present a quantitative evaluation of aerodynamic profile‐based and microtopographic methods and their effect on z0 using data collected from Storglaciären and Sydöstra Kaskasatjäkkaglaciären, Tarfala Valley, Arctic Sweden. Aggressive data filters discard most of the wind tower data but still produce realistic z0 values of 1.9 mm and 2 mm. Despite uncertainty introduced by scale and resolution dependence, microtopographic methods produced estimates of z0 comparable to wind tower values and those found on similar surfaces. We conclude that (1) in the absence of direct turbulent flux measurements from sonic anemometers, the profile and microtopographic methods provide realistic z0 values, (2) both 2D and 3D microtopographic methods are dependent on scale, resolution, and the chosen detrending method, and (3) careful calibration of these parameters could enable glacier‐wide investigations of z0 from remotely sensed data, including those increasingly available from satellite platforms.
Finite element approximation of elliptic homogenization problems in nondivergence-form
Authors: Capdeboscq Yves , Sprekeler Timo , Süli Endre 
Published: December 2019

We use uniform W2,p estimates to obtain corrector results for periodic homogenization problems of the form A(x/ε):D2uε = f subject to a homogeneous Dirichlet boundary condition. We propose and rigorously analyze a numerical scheme based on finite element approximations for such nondivergence-form homogenization problems. The second part of the paper focuses on the approximation of the corrector and numerical homogenization for the case of nonuniformly oscillating coefficients. Numerical experiments demonstrate the performance of the scheme.
Effects of task and environmental constraints on axial kinematic synergies during the tennis service in expert players
Authors: Shafizadeh Mohsen , Bonner Stuart , Barnes Andrew , Fraser Jonathan 
Published: December 2019

AbstractThe aims of this study were to examine the effects of task and environmental constraints on axial synergies and to find an association between synergies and arm acceleration as a performance variable. Participants of this study were 10 expert tennis players (age: 34.4 ± 7.46) who voluntarily took part and executed 60 serves under two different conditions: no‐opponent and opponent. An inertial motion unit (IMU) capture system was used to calculate the 3D angular joint motions in the neck, back and lumbar segments. The results of the principal component analysis showed that the redundancy in the axial segments is decomposed into 2 main synergies that are responsible for the loading (backward swing) and firing phase (forward swing). The total variance and loading synergy variance were significantly lower in the topspin service than other service types. The emerged firing synergy was strongly associated with the arm acceleration regardless of service type. In conclusion, the effective strategy to utilise the axial motions in the trunk is through creating functional synergies that have a flexible role based on the type of service and conditions. The topspin service showed less coordination variability relative to other types of service and serving in the opponent condition required participants to change the nature of synergy among the axial segments. These findings support the design of practice that emphasises the importance of more realistic contexts with special attention given to the order of different service types.
A deep learning architecture for metabolic pathway prediction
Authors: Baranwal Mayank , Magner Abram , Elvati Paolo , Saldinger Jacob , Violi Angela , Hero Alfred O 
Published: December 2019

Abstract

Motivation
Understanding the mechanisms and structural mappings between molecules and pathway classes are critical for design of reaction predictors for synthesizing new molecules. This article studies the problem of prediction of classes of metabolic pathways (series of chemical reactions occurring within a cell) in which a given biochemical compound participates. We apply a hybrid machine learning approach consisting of graph convolutional networks used to extract molecular shape features as input to a random forest classifier. In contrast to previously applied machine learning methods for this problem, our framework automatically extracts relevant shape features directly from input SMILES representations, which are atom-bond specifications of chemical structures composing the molecules.

Results
Our method is capable of correctly predicting the respective metabolic pathway class of 95.16% of tested compounds, whereas competing methods only achieve an accuracy of 84.92% or less. Furthermore, our framework extends to the task of classification of compounds having mixed membership in multiple pathway classes. Our prediction accuracy for this multi-label task is 97.61%. We analyze the relative importance of various global physicochemical features to the pathway class prediction problem and show that simple linear/logistic regression models can predict the values of these global features from the shape features extracted using our framework.

Availability and implementation
https://github.com/baranwa2/MetabolicPathwayPrediction.

Supplementary information
Supplementary data are available at Bioinformatics online.
Barn Swallow (Hirundo rustica) fledglings use crop habitat more frequently in relation to its availability than pasture and other habitat types
Authors: Boynton Chloe K , Mahony Nancy A , Williams Tony D 
Published: December 2019

Abstract
Populations of birds that forage on aerial insects have been declining across North America for several decades, but the main causes of and reasons for geographical variation in these declines remains unclear. We examined the habitat use and survival of post-fledging Barn Swallows (Hirundo rustica) near Vancouver, British Columbia, Canada, using VHF radio telemetry. We predicted that fledgling Barn Swallows hatched in higher-quality natal habitat (pasture) would fledge at higher quality, stay closest to the nest, disproportionately use higher-quality habitat during the post-fledge stage, and have higher survival rates in the region. Contrary to our predictions, we found that natal habitat (crop, pasture, or non-agriculture) had no effect on fledgling quality or movement distance. Barn Swallow fledglings used crop habitat more frequently in relation to its availability than other habitat types, including pasture. Barn Swallows had low post-fledging survival rates (0.44; 95% CI: 0.35–0.57), which could negatively influence the population trend of the species in this region. While natal habitat had only minor effects, crop habitat appears to be important for fledgling Barn Swallows and, therefore, a decline in this habitat type could have further negative implications for an already declining species.
The associations between unemployment at a young age and binge drinking and alcohol-related problems
Authors: Thern Emelie , Ramstedt Mats , Svensson Johan 
Published: December 2019

Abstract

Background
Youth unemployment remains at a high stable level in many countries making it a public health problem of importance. The aim was to examine the short-term effect of unemployment at a young age (aged 17–29 years) on self-reported binge drinking and alcohol-related problems.

Methods
We used data from a cross-sectional national study that took place in 2013, with a follow-up in 2014. A sample of young adults aged 17–29 years (n = 1188, response rate of 46.3%) that completed both surveys served as the study sample in the current study. The same self-reported questionnaire, consisting of questions regarding their alcohol habits and sociodemographic information, was used on both occasions. Information on the outcomes of binge drinking and alcohol-related harm were obtained from the 2014 survey. From the 2013 survey, information on individual and family level covariates were collected. Odds ratios (ORs) with 95% confidence intervals (CIs) with employed individuals as the reference group were estimated by logistic regression analysis.

Results
At baseline, results indicate that employed individuals reported the greatest prevalence of weekly binge drinking. In the fully adjusted models, unemployment appeared to be associated with an increased risk of alcohol-related problems (OR 1.37, 95% CI 0.77–2.45); however, this was not the case for weekly binge drinking (OR 0. 94, 95% CI 0.45–1.96).

Conclusion
Unemployment at a young age may be a risk factor for later alcohol-related problems. Thus, targeting youth unemployment could be one element in an effective health policy aimed at reducing rates of alcohol use disorders.
Reflection on modern methods: Revisiting the area under the ROC Curve
Authors: Janssens A Cecile J W , Martens Forike K 
Published: December 2019

Abstract
The area under the receiver operating characteristic (ROC) curve (AUC) is commonly used for assessing the discriminative ability of prediction models even though the measure is criticized for being clinically irrelevant and lacking an intuitive interpretation. Every tutorial explains how the coordinates of the ROC curve are obtained from the risk distributions of diseased and non-diseased individuals, but it has not become common sense that therewith the ROC plot is just another way of presenting these risk distributions. We show how the ROC curve is an alternative way to present risk distributions of diseased and non-diseased individuals and how the shape of the ROC curve informs about the overlap of the risk distributions. For example, ROC curves are rounded when the prediction model included variables with similar effect on disease risk and have an angle when, for example, one binary risk factor has a stronger effect; and ROC curves are stepped rather than smooth when the sample size or incidence is low, when the prediction model is based on a relatively small set of categorical predictors. This alternative perspective on the ROC plot invalidates most purported limitations of the AUC and attributes others to the underlying risk distributions. AUC is a measure of the discriminative ability of prediction models. The assessment of prediction models should be supplemented with other metrics to assess their clinical utility.
Cryptosporidium parvum Elongation Factor 1α Participates in the Formation of Base Structure at the Infection Site During Invasion
Authors: Yu Xue , Guo Fengguang , Mouneimne Rola Barhoumi , Zhu Guan 
Published: December 2019

AbstractBackgroundCryptosporidium is a genus of apicomplexan parasites, the causative agents of cryptosporidiosis in humans and/or animals. Although most apicomplexans parasitize within the host cell cytosols, Cryptosporidium resides on top of host cells, but it is embraced by a double-layer parasitophorous vacuole membrane derived from host cell. There is an electron-dense band to separate the parasite from host cell cytoplasm, making it as an intracellular but extracytoplasmic parasite. However, little is known on the molecular machinery at the host cell-parasite interface.MethodsCryptosporidium parvum at various developmental stages were obtained by infecting HCT-8 cells cultured in vitro. Immunofluorescence assay was used to detect CpEF1α with a polyclonal antibody and host cell F-actin with rhodamine-phalloidin. Recombinant CpEF1α protein was used to evaluate its effect on the invasion by the parasite.ResultsWe discovered that a C parvum translation elongation factor 1α (CpEF1α) was discharged from the invading sporozoites into host cells, forming a crescent-shaped patch that fully resembles the electron-dense band. At the same time, host cell F-actin aggregated to form a globular-shaped plug beneath the CpEF1α patch. The CpEF1α patch remained for most of the time but became weakened and dissolved upon the completion of the invasion process. In addition, recombinant CpEF1α protein could effectively interfere the invasion of sporozoites into host cells.ConclusionsCpEF1α plays a role in the parasite invasion by participating in the formation of electron-dense band at the base of the parasite infection site.
Estimating dominance genetic variances for growth traits in American Angus males using genomic models
Authors: Garcia-Baccino Carolina A , Lourenco Daniela A L , Miller Stephen , Cantet Rodolfo J C , Vitezica Zulma G 
Published: December 2019

Abstract
Estimates of dominance variance for growth traits in beef cattle based on pedigree data vary considerably across studies, and the proportion of genetic variance explained by dominance deviations remains largely unknown. The potential benefits of including nonadditive genetic effects in the genomic model combined with the increasing availability of large genomic data sets have recently renewed the interest in including nonadditive genetic effects in genomic evaluation models. The availability of genomic information enables the computation of covariance matrices of dominant genomic relationships among animals, similar to matrices of additive genomic relationships, and in a more straightforward manner than the pedigree-based dominance relationship matrix. Data from 19,357 genotyped American Angus males were used to estimate additive and dominant variance components for 3 growth traits: birth weight, weaning weight, and postweaning gain, and to evaluate the benefit of including dominance effects in beef cattle genomic evaluations. Variance components were estimated using 2 models: the first one included only additive effects (MG) and the second one included both additive and dominance effects (MGD). The dominance deviation variance ranged from 3% to 8% of the additive variance for all 3 traits. Gibbs sampling and REML estimates showed good concordance. Goodness of fit of the models was assessed by a likelihood ratio test. For all traits, MG fitted the data as well as MGD as assessed either by the likelihood ratio test or by the Akaike information criterion. Predictive ability of both models was assessed by cross-validation and did not improve when including dominance effects in the model. There was little evidence of nonadditive genetic variation for growth traits in the American Angus male population as only a small proportion of genetic variation was explained by nonadditive effects. A genomic model including the dominance effect did not improve the model fit. Consequently, including nonadditive effects in the genomic evaluation model is not beneficial for growth traits in the American Angus male population.
Mitochondrial nucleoid morphology and respiratory function are altered in Drp1-deficient HeLa cells
Authors: Ota Azusa , Ishihara Takaya , Ishihara Naotada 
Published: December 2019

Abstract
Mitochondria are dynamic organelles that frequently divide and fuse with each other. The dynamin-related GTPase protein Drp1 has a key role in mitochondrial fission. To analyse the physiological roles of Drp1 in cultured human cells, we analysed Drp1-deficient HeLa cells established by genome editing using CRISPR/Cas9. Under fluorescent microscopy, not only mitochondria were elongated but their DNA (mtDNA) nucleoids were extremely enlarged in bulb-like mitochondrial structures (‘mito-bulbs’) in the Drp1-deficient HeLa cells. We further found that respiratory activity, as measured by oxygen consumption rates, was severely repressed in Drp1-deficient HeLa cells and that this was reversible by the co-repression of mitochondrial fusion factors. Although mtDNA copy number was not affected, several respiratory subunits were repressed in Drp1-deficient HeLa cells. These results suggest that mitochondrial fission is required for the maintenance of active respiratory activity and the morphology of mtDNA nucleoids in human cells.
The Emergence of the Concept of ‘General Principle of International Law’ in Investment Arbitration Case Law
Authors: Dumberry Patrick 
Published: December 2019

Abstract
This article examines the concept of ‘general principle of international law’ and the way it has so far been used by tribunals in investment cases. It will first outline the nature and meaning of these principles emerging on the international plane and distingue them from other general principles grounded in States’ domestic laws. The empirical analysis of four general principles (burden of proof, estoppel, res judicata and abuse of rights) shows that many tribunals have explicitly recognized them as general principles of international law. The reasoning of other tribunals, the expressions they have used and the international law material they have referred to strongly suggest that they have also come to the same conclusion. Finally, this article considers the reasons why this concept is important to the further development of investment arbitration.
Trusting Through the Moscow-Washington Hotline: A Role Theoretical Explanation of the Hotline's Contribution to Crisis Stability
Authors: Simon Eszter , Simon Agnes 
Published: December 2019

AbstractThis article explores how the Moscow-Washington hotline has contributed to crisis stability. Drawing on symbolic interactionist role theory, the article argues that the hotline provides leaders with an opportunity to engage in altercasting behavior so as to trust each other, even if only temporarily, when they contact each other through the hotline to communicate about a situation they define as a crisis. This function of the hotline is particularly useful when leaders have not managed to develop interpersonal trust between them. This new understanding of the hotline questions the dominant view that it merely facilitates communication, and improves on existing symbolic understandings of the device by offering a conceptualization that explains why the intentions with which it is used to communicate are seen as credible. Furthermore, seeing trust as role contributes to trust scholarship in International Relations by offering a middle ground between defining trust as interests, which are often ambiguous in crises, and as shared identity, which is unattainable between adversaries in the short term. We use two historical cases studies, the Six-Day War and the Yom Kippur War, to illustrate our theoretical claims.
Breast Cancer Risk Assessment and Chemoprevention Use Among Veterans Affairs Primary Care Providers: A National Online Survey
Authors: Bidassie Balmatee , Kovach Amanda , Vallette Marissa A , Merriman Joseph , Park Yeun-Hee Anna , Aggarwal Anita , Colonna Sarah 
Published: December 2019

Abstract

Introduction
Breast cancer is the most common cancer diagnosed among women and the second most common cause of cancer death among women. There are ways to reduce a woman’s risk of breast cancer; however, most eligible women in the United States are neither offered personalized screening nor chemoprevention. Surveys have found that primary care providers are largely unaware of breast cancer risk assessment models or chemoprevention. This survey aims to investigate Veterans Health Administration primary care providers’ comfort level, practice patterns, and knowledge of breast cancer risk assessment and chemoprevention.

Materials and Methods
An online, Research Electronic Data Capture-generated survey was distributed to VHA providers in internal medicine, family medicine, and obstetrics/gynecology. Survey domains were provider demographics, women’s health experience, comfort level, practice patterns, barriers to using risk models and chemoprevention, and knowledge of chemoprevention.

Results
Of the 167 respondents, 33.1% used the Gail model monthly or more often and only 2.4% prescribed chemoprevention in the past 2 years. Most VHA primary care providers did not answer chemoprevention knowledge questions correctly. Designated women’s health providers were more comfortable with risk assessment (P &lt; 0.018) and chemoprevention (P &lt; 0.011) and used both breast cancer risk models (P &lt; 0.0045) and chemoprevention more often (P &lt; 0.153). Reported barriers to chemoprevention were lack of education and provider time.

Conclusions
VHA providers and women Veterans would benefit from a system to ensure that women at increased risk of breast cancer are identified with risk modeling and that risk reduction options, such as chemoprevention, are offered when appropriate. VHA providers requested risk reduction education, which could improve primary care provider comfort level with chemoprevention.
Recurrent Herpes Gladiatorum: Should we be Screening Our Service Members Prior to Close Combat Training?
Authors: Field Robert D , Taylor Bradley M 
Published: December 2019

Abstract
A 19-year-old active duty Marine presented to clinic with a history of a reoccurring vesicular rash on left side of his forehead. The lesion was cultured and identified as herpes simplex virus 1 (HSV-1). Herpes gladiatorum is a recurrent cutaneous infection caused by HSV-1 and spread by skin-to-skin contact. Serious complications have been reported, including blindness from acute retinal necrosis. Outbreaks of herpes gladiatorum have been observed in the high school and collegiate wrestling community for years and to prevent the spread, screening, and treatment guidelines have been implemented by governing bodies of these organizations. Active duty members who participate in the Marine Corps Martial Arts Program and the Army and US Air Force Combatives programs are exposed to similar conditions; however, no uniform screening or treatment protocol exists. To minimize the spread of skin infections, we propose adopting a uniform screening procedure and implementing a standardized form to assist primary care providers in the evaluation and treatment of herpes gladiatorum and other communicable skin diseases commonly seen in close combat training.