bluuebunny/crossref_metadata_2025_split huggingface dataset:
Redox-driven control of magnetism and structure of polycrystalline PrBaCo2O5+δ
Authors: Heo Yunseok , Annas Dicky , Park Kang Hyun , Jeen Hyoungjeen 
Published: December 2020

Abstract
Controlling oxygen contents (0.25 ≤ δ ≤ 0.83) and its associated structural and magnetic properties in polycrystalline PrBaCo2O5+δ
are presented. To control oxygen contents, heat treatments were performed using tube furnace in controlled gas environment. Through temperature dependent reductive annealing, oxygen vacancies are formed in PBCO, and changes of associated properties such as lattice expansion and stabilization of antiferromagnetism are observed. When we performed oxidative annealing, oxygens are intercalated into PBCO. This results in stabilization of ferromagnetism. At last, we checked reversibility through consecutive redox reactions. The structural and magnetic phase transitions occur nearly reversibly. Thus, we could control oxygen contents and associated structural and magnetic properties reversibly through conventional gas reaction.
Estimating the Effect of Social Distancing Interventions on COVID-19 in the United States
Authors: Olney Andrew M , Smith Jesse , Sen Saunak , Thomas Fridtjof , Unwin H Juliette T 
Published: December 2020

AbstractSince its global emergence in 2020, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused multiple epidemics in the United States. When medical treatments for the virus were still emerging and a vaccine was not yet available, state and local governments sought to limit its spread by enacting various social-distancing interventions, such as school closures and lockdowns; however, the effectiveness of these interventions was unknown. We applied an established, semimechanistic Bayesian hierarchical model of these interventions to the spread of SARS-CoV-2 from Europe to the United States, using case fatalities from February 29, 2020, up to April 25, 2020, when some states began reversing their interventions. We estimated the effects of interventions across all states, contrasted the estimated reproduction numbers before and after lockdown for each state, and contrasted the predicted number of future fatalities with the actual number of fatalities as a check of the model’s validity. Overall, school closures and lockdowns were the only interventions modeled that had a reliable impact on the time-varying reproduction number, and lockdown appears to have played a key role in reducing that number to below 1.0. We conclude that reversal of lockdown without implementation of additional, equally effective interventions will enable continued, sustained transmission of SARS-CoV-2 in the United States.
TSPTFBS: a Docker image for trans-species prediction of transcription factor binding sites in plants
Authors: Liu Lifen , Zhang Ge , He Shoupeng , Hu Xuehai 
Published: December 2020

Abstract

Motivation
Both the lack or limitation of experimental data of transcription factor binding sites (TFBS) in plants and the independent evolutions of plant TFs make computational approaches for identifying plant TFBSs lagging behind the relevant human researches. Observing that TFs are highly conserved among plant species, here we first employ the deep convolutional neural network (DeepCNN) to build 265 Arabidopsis TFBS prediction models based on available DAP-seq (DNA affinity purification sequencing) datasets, and then transfer them into homologous TFs in other plants.

Results
DeepCNN not only achieves greater successes on Arabidopsis TFBS predictions when compared with gkm-SVM and MEME but also has learned its known motif for most Arabidopsis TFs as well as cooperative TF motifs with protein–protein interaction evidences as its biological interpretability. Under the idea of transfer learning, trans-species prediction performances on ten TFs of other three plants of Oryza sativa, Zea mays and Glycine max demonstrate the feasibility of current strategy.

Availability and implementation
The trained 265 Arabidopsis TFBS prediction models were packaged in a Docker image named TSPTFBS, which is freely available on DockerHub at https://hub.docker.com/r/vanadiummm/tsptfbs. Source code and documentation are available on GitHub at: https://github.com/liulifenyf/TSPTFBS.

Supplementary information
Supplementary data are available at Bioinformatics online.
Assortative pairing for boldness and consequences for reproductive success in Montagu’s harrier
Authors: Rabdeau Juliette , Badenhausser Isabelle , Gaffard Agathe , Mangelinck Camille , Moreau Jérôme , Bretagnolle Vincent , Monceau Karine 
Published: December 2020

AbstractBehavioural combination within pairs depending on personality and plasticity might influence reproductive success. However, studies testing this hypothesis are rare, especially in the case of monogamous species with bi-parental care in which the sexes exhibit different behavioural roles. In this study, we investigated the pairing patterns for both boldness and boldness plasticity in Montagu’s harriers (Circus pygargus), a species with sex-specific care, and the consequences for their reproductive success. We measured individual boldness and plasticity for both sexes, and we assessed the pairing pattern in the Montagu’s harrier population for these two traits. We calculated four indices to characterize the behavioural association within pairs: pair boldness, boldness similarity within pairs, pair plasticity and plasticity similarity within pairs. The relationship between the behaviour of the parents and the reproductive success was then tested through these four indices. We found a pattern of assortative pairing based on both boldness and plasticity in the Montagu’s harrier population. Within-pair similarity of plasticity had a significant effect on the reproductive success, which was higher for less similar pairs than for more similar pairs. Our results question the origin of this pairing pattern and suggest that ecological constraint and not sexual selection could be the major driver.
Growth Differentiation Factor (GDF)-15 and Cardiometabolic Outcomes among Older Adults: The Atherosclerosis Risk in Communities Study
Authors: Echouffo-Tcheugui Justin B , Daya Natalie , Matsushita Kunihiro , Wang Dan , Ndumele Chiadi E , Al Rifai Mahmoud , Hoogeveen Ron C , Ballantyne Christie M , Selvin Elizabeth 
Published: December 2020

Abstract

Introduction
Laboratory studies suggest an involvement of growth differentiation factor 15 (GDF-15) in metabolic dysregulation. However, the utility of GDF-15 for assessing risk of cardiometabolic outcomes has not been rigorously examined among older adults.

Methods
We conducted a cross-sectional analysis of older adults who attended visit 6 (2016–2017) of the Atherosclerosis Risk in Communities (ARIC) Study. We used multivariable logistic regression to quantify cross-sectional associations of GDF-15 (in quartiles) with prevalent diabetes, obesity, atherosclerotic cardiovascular disease (ASCVD), subclinical myocardial stress/injury (assessed by NT-proB-type Natriuretic Peptide [NT-proBNP] and high-sensitivity cardiac troponin T [hs-cTnT]), and heart failure (HF).

Results
Among 3792 ARIC study participants (mean age 80 years, 59% women, 23% Blacks and 77% Whites, mean GDF-15: 2094.9 pg/mL [SD: 1395.6]), higher GDF-15 concentrations (highest vs. lowest quartile) were positively associated with diabetes (adjusted odds ratio [aOR]:] : 2.48, 95% CI : 1.89, 3.26), ASCVD (aOR: 1.57, 95% CI: 1.16, 2.11), increased hscTnT (aOR: 2.27, 95%CI: 1.54, 3.34), increased NT-proBNP (aOR: 1.98, 95%CI: 1.46, 2.70), and HF (aOR: 3.22, 95%CI : 2.13, 4.85), in models adjusted for demographics and traditional cardiovascular risk factors.

Conclusions
In this sample of older US black and whites, increased GDF-15 was positively associated with diabetes, ASCVD, HF, and markers of subclinical myocardial stress or injury. These results illustrate the diverse aspects of the link between GDF-15 and diseases states, and its potential utility as robust biomarker of adverse cardiometabolic outcomes.
Disability Incidence Rates for Men and Women in 23 Countries: Evidence on Health Effects of Gender Inequality
Authors: Lee Jinkook , Meijer Erik , Phillips Drystan , Hu Peifeng 
Published: December 2020

AbstractBackgroundInequality in gender varies across social contexts, which may influence the health of both men and women. Based on theories of gender as a social system, we examine whether systematic gender inequality at the macro-level influences health of men and women.MethodUsing harmonized panel data from the Gateway to Global Aging Data in 23 high- and middle-income countries (N = 168 873), we estimate disability prevalence and incidence for men and women ages 55–89 (2000–2016). Within each country or geographic region, we also investigate gender differences in age gradients of the probability of disability onset. We, then, pool data from all countries and test the hypothesis that gender inequality increases the probability of disability onset.ResultsWe found substantial cross-country variation in disability incidence rates, and this variation is greater for women than for men. Among ages 65–69, disability incidence rates ranged from 0.4 to 5.0 for men and from 0.5 to 9.4 for women. Our within-country analysis showed significant gender differences in age gradients of the probability of disability onset in the United States, Korea, Southern Europe, Mexico, and China, but not in Northern, Central, and Eastern Europe, England, and Israel. Testing hypothesized effects of gender inequality, we find that gender inequality is significantly associated with the probability of disability onset for women, but not for men.ConclusionsMacro-level societal gender inequality is significantly associated with the probability of disability onset for women. Reducing and eliminating gender inequality is crucial to achieving good health for women.
Temporal Analysis of Serial Donations Reveals Decrease in Neutralizing Capacity and Justifies Revised Qualifying Criteria for Coronavirus Disease 2019 Convalescent Plasma
Authors: Girardin Roxie C , Dupuis Alan P , Payne Anne F , Sullivan Timothy J , Strauss Donna , Parker Monica M , McDonough Kathleen A 
Published: December 2020

Abstract

Background
Coronavirus disease 2019 (COVID-19) convalescent plasma (CCP) received an Emergency Use Authorization by the US Food and Drug Administration (FDA). CCP with a signal-to-cutoff ratio of ≥12 using the Ortho VITROS severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) immunoglobulin G (IgG) test (OVSARS2IgG) is permitted to be labeled “high titer.” Little is known about the relationship between OVSARS2IgG ratio and neutralizing capacity of plasma/sera against genuine SARS-CoV-2.

Methods
Nine hundred eighty-one samples from 196 repeat CCP donors 0–119 days post–initial donation (DPID) were analyzed. Neutralizing capacity was assessed for 50% (PRNT50) and 90% (PRNT90) reduction of infectious virus using the gold standard plaque reduction neutralization test (PRNT). A subset of 91 donations was evaluated by OVSARS2IgG and compared to PRNT titers for diagnostic accuracy.

Results
Of donations, 32.7%/79.5% (PRNT90/PRNT50) met a 1:80 titer initially but only 14.0%/48.8% (PRNT90/PRNT50) met this cutoff ≥85 DPID. Correlation of OVSARS2IgG results to neutralizing capacity allowed extrapolation to CCP therapy results. CCP with OVSARS2IgG ratios equivalent to a therapeutically beneficial group had neutralizing titers of ≥1:640 (PRNT50) and/or ≥1:80 (PRNT90). Specificity and positive predictive value of the OVSARS2IgG for qualifying highly neutralizing CCP was optimal using ratios significantly greater than the FDA cutoff.

Conclusions
This information provides a basis for refining the recommended properties of CCP used to treat COVID-19.
Deep propensity network using a sparse autoencoder for estimation of treatment effects
Authors: Ghosh Shantanu , Bian Jiang , Guo Yi , Prosperi Mattia 
Published: December 2020

AbstractObjectiveDrawing causal estimates from observational data is problematic, because datasets often contain underlying bias (eg, discrimination in treatment assignment). To examine causal effects, it is important to evaluate what-if scenarios—the so-called “counterfactuals.” We propose a novel deep learning architecture for propensity score matching and counterfactual prediction—the deep propensity network using a sparse autoencoder (DPN-SA)—to tackle the problems of high dimensionality, nonlinear/nonparallel treatment assignment, and residual confounding when estimating treatment effects.Materials and MethodsWe used 2 randomized prospective datasets, a semisynthetic one with nonlinear/nonparallel treatment selection bias and simulated counterfactual outcomes from the Infant Health and Development Program and a real-world dataset from the LaLonde’s employment training program. We compared different configurations of the DPN-SA against logistic regression and LASSO as well as deep counterfactual networks with propensity dropout (DCN-PD). Models’ performances were assessed in terms of average treatment effects, mean squared error in precision on effect’s heterogeneity, and average treatment effect on the treated, over multiple training/test runs.ResultsThe DPN-SA outperformed logistic regression and LASSO by 36%–63%, and DCN-PD by 6%–10% across all datasets. All deep learning architectures yielded average treatment effects close to the true ones with low variance. Results were also robust to noise-injection and addition of correlated variables. Code is publicly available at https://github.com/Shantanu48114860/DPN-SAz.Discussion and ConclusionDeep sparse autoencoders are particularly suited for treatment effect estimation studies using electronic health records because they can handle high-dimensional covariate sets, large sample sizes, and complex heterogeneity in treatment assignments.
Compensatory Abilities of Canola in Response to Swede Midge (Diptera: Cecidomyiidae) Damage
Authors: Muzzatti Matthew J , Mori Boyd A , Hallett Rebecca H 
Published: December 2020

Abstract
Swede midge (Contarinia nasturtii Kieffer) is an invasive, economic pest of canola (Brassica napus L.) that threatens production throughout Canada. Swede midge has up to four overlapping generations, placing canola at risk of multiple infestations in the field. The relationship between single and multiple swede midge infestations at different canola stages, and the resulting impacts on yield, are unknown. Laboratory experiments were conducted to evaluate the impact of single and multiple infestations of swede midge on four plant stages of canola: three-leaf, seven-leaf, primary bud, and secondary bud. Previously, the seven-leaf and primary bud stages were considered vulnerable to swede midge, but we determined that the secondary bud stage is also vulnerable. Evidence of compensation by canola in response to herbivory by swede midge was discovered. Compensation occurred mainly through increased production of tertiary racemes and pods and was maximized with exposure of 4.5–6.5 female midges per plant. Although compensation may increase potential yield, it also results in uneven crop maturation resulting in delayed harvest and yield loss. Consequently, to prevent delays in maturation and harvest, insecticides should be applied before these densities are reached.
Self-assembly of nickel icosahedrons and truncated octahedral nanocrystals on a SrTiO3 (111) support
Authors: Rasheed Atif 
Published: December 2020

Abstract
Nickel nanocrystals have received much attention for their ferromagnetic properties. The crystal properties are strongly dependent on their facets and therefore detailed study of their morphology, facets and orientation is critical for magnetic applications. In this work, equilibrium crystal shapes of self-assembled nickel nanocrystals on the (111) termination of strontium titanate (SrTiO3) at room temperature and under ultra-high vacuum (UHV) conditions have been investigated using scanning tunneling microscope. SrTiO3 (111) substrate was sputtered (0.5 keV, 2.5 µA, 10 min) and annealed (900°C, 1 h) under UHV conditions. Three different periodicities were observed: 2.21 ± 0.01 nm corresponding to (4 × 4) reconstruction, 3.31 ± 0.02 nm corresponding to (6 × 6) reconstruction and 2.85 ± 0.05 nm, rotated at 30° with respect to (4 × 4) reconstruction, corresponding to (3√3 × 3√3)R30° reconstruction. Nickel (∼1 ml) was deposited using an e-beam evaporator on the substrate preheated to 320°C and the sample was post-annealed multiple times. Nickel took platonic shapes of supported icosahedron comprising of (111) facets and truncated octahedron comprising of (001) and (111) facets. Based on surface energy ratios of truncated octahedrons at equilibrium, the work of adhesion was calculated to be 3.889 ± 0.167 J/m2.
Natural Area Forests in US Cities: Opportunities and Challenges
Authors: Pregitzer Clara C , Charlop-Powers Sarah , Bradford Mark A 
Published: December 2020

AbstractNot all urban greenspace is the same. Natural area forests can provision more benefits than designed landscapes, and healthy natural area forests can provide more benefits than degraded and invaded forests. Yet there is little information about the scale of natural areas in cities and their management systems. We used data sets on city parkland from across the United States and surveyed practitioners to understand urban natural area forest extent and management. We find that urban natural areas are a dominant greenspace landcover, accounting for 68% of total city parkland across 96 of the most populous cities in the United States in 2019. In the same cities over a five-year period (2014–2019), natural area parkland decreased by 4% (15,264 hectares). At municipal scales, most cities are managing forested natural areas to conserve native species. Across the 108 organizations and 92 cities that responded to our online survey, many different management interventions are being used to steer forest structure and composition. These activities and their outcomes are being tracked nearly 70% of the time by the managing organizations, suggesting a strong data basis for adaptive management. However, challenges exist: 94% of organizations cite invasive species and limited funding as primary challenges. Lack of data and low public awareness of the value of natural areas are also considered primary challenges by more than 70% of the organizations surveyed. As cities embark on efforts to expand and improve greenspace, protecting natural area parkland from development and addressing the challenges managers of these ecosystems face are two very important goals.
Is the Meckel diverticulum still a bad boy in general surgery? Case report of an intestinal obstruction managed through a single-port access and review of the literature
Authors: Bauci Gabriele , Kolb Walter , Janczak Joanna 
Published: December 2020

Abstract
In our institution single-port diagnostic laparoscopy is the routine procedure for patients with acute abdominal emergencies. Here, we present a case of intestinal obstruction due to a torqued Meckel diverticulum successfully managed through a single-port incision.
Delayed rabies post-exposure prophylaxis treatment among Dutch travellers during their stay abroad: a comprehensive analysis
Authors: Verdoes Loes , Luppino Floriana S , Wallinga Prof Jacco , Visser Prof Leo G 
Published: December 2020

Abstract

Background
After an animal-associated injury (AAI) in rabies-endemic regions, post-exposure prophylaxis (PEP) is needed to prevent infection.1,2 PEP consists of rabies vaccinations (RV) and in some cases also additional rabies immune globulins (RIG). Not always PEP medication, and RIG in particular, is accessible. Along with an increased number of exposure notifications among Dutch travellers, this might lead to treatment delay and thus to increased health risks. Until now, research mainly focused on factors associated with exposition, but none on which factors are associated with PEP delay. This study aimed to identify which general sample characteristics are associated with PEP delay while being abroad.

Methods
A quantitative retrospective observational study was conducted. The study population consisted of insured Dutch international travellers who actively contacted their medical assistance company (2015–2019) because of an animal-associated injury (AAI) (N = 691). The association between general sample characteristics and delay of different PEP treatments was studied using survival analysis.

Results
Travellers without pre-exposure prophylaxis (PrEP) had an increased hazard, and therefore a shorter delay, for receiving their first RV as compared to travellers with PrEP (HR:1.11, 95%CI:1.01–1.22). The travellers needing both RV and RIG had a decreased hazard, and therefore a longer delay, as compared to travellers only needing RV (HR:0.81, 95%CI:0.67–0.96). General sample characteristic associated with RIG administration delay was travel destination. Travellers to Central and South America, East Mediterranean and Europe had a decreased hazard, and therefore a longer delay, for receiving RIG treatments relative to travellers to South East Asia (HR:0.31, 95%CI:0.13–0.70; HR:0.34, 95%CI:0.19–0.61; HR:0.46, 95%CI:0.24–0.89; HR:0.48, 95%CI:0.12–0.81, respectively).

Conclusions
Our results suggest that the advice for PrEP should be given based on travel destination, as this was found to be the main factor for PEP delay, among travellers going to rabies-endemic countries.
Analysing the radio flux density profile of the M31 galaxy: a possible dark matter interpretation
Authors: Chan Man Ho , Yeung Chu Fai , Cui Lang , Leung Chun Sing 
Published: December 2020

Abstract
Some recent studies have examined the gamma-ray flux profile of our Galaxy to determine the signal of dark matter annihilation. However, the results are controversial and no confirmation is obtained. In this article, we study the radio flux density profile of the M31 galaxy and show that it could manifest a possible signal of dark matter annihilation. By comparing the likelihoods between the archival observed radio flux density profile data and the predicted radio flux density profile contributed by dark matter and stellar emission, we can constrain the relevant dark matter parameters. Specifically, for the thermal annihilation cross section via the $b\bar{b}$ channel, the best-fit value of dark matter mass is ∼30 GeV, which is consistent with the results of many recent studies. We expect that this method would become another useful way to constrain dark matter, which is complementary to the traditional radio analyses and the other indirect detections.