bluuebunny/crossref_metadata_2025_split huggingface dataset:
Infectious Etiologies of Intussusception Among Children &lt;2 Years Old in 4 Asian Countries
Authors: Burnett Eleanor , Kabir Furqan , Van Trang Nguyen , Rayamajhi Ajit , Satter Syed M , Liu Jie , Yousafzai Mohammad Tahir , Anh Dang Duc , Basnet Anupama Thapa , Flora Meerjady S , Houpt Eric , Qazi Saqib Hamid , Canh Tran Minh , Rayamajhi Anjana Karki , Saha Bablu K , Saddal Nasir Saleem , Muneer Sehrish , Hung Pham Hoang , Islam Towhidul , Ali Syed Asad , Tate Jacqueline E , Yen Catherine , Parashar Umesh D 
Published: November 2019

Abstract

Background
The etiology of intussusception, the leading cause of bowel obstruction in infants, is unknown in most cases. Adenovirus has been associated with intussusception and slightly increased risk of intussusception with rotavirus vaccination has been found. We conducted a case-control study among children &lt;2 years old in Bangladesh, Nepal, Pakistan, and Vietnam to evaluate infectious etiologies of intussusception before rotavirus vaccine introduction.

Methods
From 2015 to 2017, we enrolled 1-to-1 matched intussusception cases and hospital controls; 249 pairs were included. Stool specimens were tested for 37 infectious agents using TaqMan Array technology. We used conditional logistic regression to estimate odds ratio (OR) and 95% confidence interval (CI) of each pathogen associated with intussusception in a pooled analysis and quantitative subanalyses.

Results
Adenovirus (OR, 2.67; 95% CI, 1.75–4.36) and human herpes virus 6 (OR, 3.50; 95% CI, 1.15–10.63) were detected more frequently in cases than controls. Adenovirus C detection &lt;20 quantification cycles was associated with intussusception (OR, 18.59; 95% CI, 2.45–140.89). Wild-type rotavirus was not associated with intussusception (OR, 1.07; 95% CI, 0.52–2.22).

Conclusions
In this comprehensive evaluation, adenovirus and HHV-6 were associated with intussusception. Future research is needed to better understand mechanisms leading to intussusception, particularly after rotavirus vaccination.
Ubiquitous Intelligent Services for Vehicular Users: A Systematic Mapping
Authors: Zanella Gomes Joneval , Victória Barbosa Jorge Luis , Resin Geyer Claudio Fernando , Santos dos Anjos Julio Cesar , Vicente Canto José , Pessin Gustavo 
Published: November 2019

Abstract
The space inside a vehicle, which people can enjoy while travelling, is becoming more intelligent due to the technological developments within the automotive industry. This has influenced the increase in new services that are intended to fulfil the needs of vehicle users. This article presents a survey on the provisioning of ubiquitous intelligent services for vehicular users. It also identifies clusters of research interest on this subject. To this end, an evaluation of results from six scientific research databases supports these goals. This process initially identified 37 328 publications; after filtering and clustering, the scope of analysis became 39 articles. The main contributions points to (i) the existence of five active research clusters, as a result of the inclusion of a visual clustering step in the systematic mapping protocol; (ii) an indication of a string of studies starting in the late ’90s from traffic issues, intelligent transport systems and profiling, to smart cities, the Internet of Things, big data, fog computing and internet of vehicles in recent years; and (iii) that the main challenges associated with the implementation of ubiquitous intelligent services for vehicular users are related to data security, infrastructure, connectivity and high mobility.
Revision of Simulium rufibasis (Diptera: Simuliidae) in Japan and Korea: Chromosomes, DNA, and Morphology
Authors: Adler Peter H , Fukuda Masako , Takaoka Hiroyuki , Reeves Will K , Kim Sam-Kyu , Otsuka Yasushi 
Published: November 2019

Abstract
The widespread nominal black fly Simulium (Simulium) rufibasis Brunetti was reexamined morphologically, chromosomally, and molecularly to determine the status of populations in Japan and Korea with respect to S. rufibasis from the type locality in India and to all other known species in the S. (S.) tuberosum species-group. Morphological comparisons established that the species previously known as S. rufibasis in Japan and Korea is distinct from all other species. Consequently, it was described and illustrated as a new species, Simulium (S.) yamatoense. Simulium yokotense Shiraki, formerly a synonym of S. rufibasis, was morphologically reevaluated and considered a species unplaced to species-group in the subgenus Simulium. Chromosomal analyses of S. yamatoense sp. nov. demonstrated that it is unique among all cytologically known species of the S. tuberosum group and is the sister species of the Taiwanese species tentatively known as S. (S.) arisanum Shiraki. Populations of S. yamatoense sp. nov. included two cytoforms, based on the sex chromosomes. Cytoform A, including topotypical representatives, was found in Kyushu, Japan, whereas cytoform B was found in Korea and Honshu, Japan. Molecular analysis based on the COI mitochondrial gene generally corroborated morphological and chromosomal data that S. yamatoense sp. nov. is a distinct species and, like the chromosomal data, indicate that it is most closely related to S. arisanum, with interspecific genetic distance of 2.92–4.63%.
Cefdinir Use in the Kentucky Medicaid Population: A Priority for Outpatient Antimicrobial Stewardship
Authors: Wattles Bethany , Vidwan Navjyot , Ghosal Soutik , Feygin Yana , Creel Liza , Myers John , Woods Charles , Smith Michael 
Published: November 2019

Abstract
Cefdinir is frequently prescribed for pediatric infections despite lack of first-line indications. We reviewed Kentucky Medicaid claims from 2012 through 2016. Cefdinir prescriptions and spending significantly increased over the study period. Upper respiratory infections accounted for the majority of use. Inappropriate cefdinir use should be a priority for stewardship efforts.
Travel-associated STI amongst HIV and non-HIV infected travellers
Authors: Nouchi Agathe , Caby Fabienne , Palich Romain , Monsel Gentiane , Caumes and Eric 
Published: November 2019

AbstractBackgroundThe incidence of sexually transmitted infections (STI) is increasing in Western countries whilst travel plays a major role in STI dissemination worldwide. However, there is no study distinguishing HIV-positive and HIV-negative travellers.MethodsWe retrospectively evaluated the epidemiological, clinical and biological characteristics of the patients diagnosed with a travel-related STI between 2008 and 2016. We describe and compare the spectrum of STI diagnosed amongst HIV-positive and negative travellers.MethodsOverall, 163 travel-related STI were identified in 140 patients (89% male, 54% men having sex with men, 40% HIV-positive). Symptoms occurred during travel in 39% of them, otherwise the median time between return and symptoms’ onset was 13 days. Amongst the 84 HIV-negative travellers, the main STI were primary HIV infections (n = 36, 38%), Neisseria gonorrhoeae (NG) infections (17%) and primary herpes infection (14, vs 1.5% amongst HIV-positive travellers, P = 0.01). The regions of exposure to HIV were concordant with the known geographical distribution of HIV subtypes. Amongst the 56 HIV-positive travellers, the main STI were syphilis (43, vs 6% amongst HIV-negative travellers, P = 0.01), Chlamydia trachomatis (CT) infections (22, vs 13% amongst HIV-negative travellers, P = 0.08), NG infections (13%) and acute hepatitis C (12, vs 1% amongst HIV-negative travellers, P = 0.01), with a predominance of anal forms for both CT and NG infections.ConclusionsThe spectrum of STI diagnosed in returning travellers is broad with important differences according to HIV status. In our setting, primary HIV infection was the leading STI in non-HIV infected patients, which suggests that pre-exposure prophylaxis may have a role in HIV prevention in at-risk travellers.
Responses of water accumulation and solute metabolism in tomato fruit to water scarcity and implications for main fruit quality variables
Authors: Hou Xuemin , Zhang Wendong , Du Taisheng , Kang Shaozhong , Davies William J 
Published: November 2019

AbstractFruit is important for human health, and applying deficit irrigation in fruit production is a strategy to regulate fruit quality and support environmental sustainability. Responses of different fruit quality variables to deficit irrigation have been widely documented, and much progress has been made in understanding the mechanisms of these responses. We review the effects of water shortage on fruit water accumulation considering water transport from the parent plant into the fruit determined by hydraulic properties of the pathway (including xylem water transport and transmembrane water transport regulated by aquaporins) and the driving force for water movement. We discuss water relations and solute metabolism that affect the main fruit quality variables (e.g. size, flavour, nutrition, and firmness) at the cellular level under water shortage. We also summarize the most recent advances in the understanding of responses of the main fruit quality variables to water shortage, considering the effects of variety, the severity of water deficit imposed, and the developmental stage of the fruit. We finally identify knowledge gaps and suggest avenues for future research. This review provides new insights into the stress physiology of fleshy fruit, which will be beneficial for the sustainable production of high-quality fruit under deficit irrigation.
The minimum of the time-delay wavefront error in Adaptive Optics
Authors: Doelman Niek 
Published: November 2019

Abstract
An analytical expression is given for the minimum of the time-delay induced wavefront error (also known as the servo-lag error) in Adaptive Optics systems under temporal prediction filtering. The analysis is based on the von Kármán model for the spectral density of refractive index fluctuations and the hypothesis of frozen flow. An optimal, temporal predictor can achieve up to a factor 1.77 more reduction of the wavefront phase variance compared to the zero-order prediction strategy, which is commonly used in Adaptive Optics systems. Alternatively, an optimal predictor can allow for a 1.41 times longer time-delay to arrive at the same residual phase variance. Generally, the performance of the optimal, temporal predictor depends on the very product of time-delay, wind speed and the reciprocal of turbulence outer scale.
AT 2018cow VLBI: no long-lived relativistic outflow
Authors: Bietenholz Michael F , Margutti Raffaella , Coppejans Deanne , Alexander Kate D , Argo Megan , Bartel Norbert , Eftekhari Tarraneh , Milisavljevic Dan , Terreran Giacomo , Berger Edo 
Published: November 2019

ABSTRACT
We report on Very Long Baseline Interferometry (VLBI) observations of the fast and blue optical transient (FBOT), AT 2018cow. At ∼62 Mpc, AT 2018cow is the first relatively nearby FBOT. The nature of AT 2018cow is not clear, although various hypotheses from a tidal disruption event to different kinds of supernovae have been suggested. It had a very fast rise time (3.5 d) and an almost featureless blue spectrum, although high photospheric velocities (40 000 km s−1) were suggested early on. The X-ray luminosity was very high, ∼1.4 × 1043 erg s−1, larger than those of ordinary supernovae (SNe), and more consistent with those of SNe associated with gamma-ray bursts. Variable hard X-ray emission hints at a long-lived ‘central engine.’ It was also fairly radio luminous, with a peak 8.4-GHz spectral luminosity of ∼4 × 1028 erg s−1 Hz−1, allowing us to make VLBI observations at ages between 22 and 287 d. We do not resolve AT 2018cow. Assuming a circularly symmetric source, our observations constrain the average apparent expansion velocity to be ${\lt}0.49\, c$ by t = 98 d (3σ limit). We also constrain the proper motion of AT 2018cow to be ${\lt}0.51\, c$. Since the radio emission generally traces the fastest ejecta, our observations make the presence of a long-lived relativistic jet with a lifetime of more than 1 month very unlikely.
Emission spectra of light-pollution sources determined from the light-scattering spectrometry of the night sky
Authors: Kocifaj Miroslav , Kundracik František , Bilý Ondrej 
Published: November 2019

ABSTRACT
The emission spectrum of a light-pollution source is a determining factor for modelling artificial light at night. The spectral composition of skyglow is normally derived from the initial spectra of all artificial light sources contributing to the diffuse illumination of an observation point. However, light scattering in the ambient atmosphere imposes a wavelength-specific distortion on the optical signals captured by the measuring device. The nature of the emission, the spectra and the light-scattering phenomena not only control the spectral properties of the ground-reaching radiation, but also provide a unique tool for remote diagnosis and even identification of the emission spectra of the light-polluting sources. This is because the information contained in the night-sky brightness is preferably measured in directions towards a glowing dome of light over the artificial source of light. We have developed a new method for obtaining the emission spectra using remote terrestrial sensing of the bright patches of sky associated with a source. Field experiments conducted in Vienna and Bratislava have been used to validate the theoretical model and the retrieval method. These experiments demonstrate that the numerical inversion is successful even if the signal-to-noise ratio is small. The method for decoding the emission spectra by the light-scattering spectrometry of a night sky is a unique approach that enables for (i) a systematic characterization of the light-pollution sources over a specific territory, and (ii) a significant improvement in the numerical prediction of skyglow changes that we can expect at observatories.
Are galactic star formation and quenching governed by local, global, or environmental phenomena?
Authors: Bluck Asa F L , Maiolino Roberto , Sánchez Sebastian F , Ellison Sara L , Thorp Mallory D , Piotrowska Joanna M , Teimoorinia Hossen , Bundy Kevin A 
Published: November 2019

ABSTRACT
We present an analysis of star formation and quenching in the SDSS-IV MaNGA-DR15, utilizing over 5 million spaxels from ∼3500 local galaxies. We estimate star formation rate surface densities (ΣSFR) via dust corrected H α flux where possible, and via an empirical relationship between specific star formation rate (sSFR) and the strength of the 4000 Å break (D4000) in all other cases. We train a multilayered artificial neural network (ANN) and a random forest (RF) to classify spaxels into ‘star-forming’ and ‘quenched’ categories given various individual (and groups of) parameters. We find that global parameters (pertaining to the galaxy as a whole) perform collectively the best at predicting when spaxels will be quenched, and are substantially superior to local/spatially resolved and environmental parameters. Central velocity dispersion is the best single parameter for predicting quenching in central galaxies. We interpret this observational fact as a probable consequence of the total integrated energy from active galactic neucleus (AGN) feedback being traced by the mass of the black hole, which is well known to correlate strongly with central velocity dispersion. Additionally, we train both an ANN and RF to estimate ΣSFR values directly via regression in star-forming regions. Local/spatially resolved parameters are collectively the most predictive at estimating ΣSFR in these analyses, with stellar mass surface density at the spaxel location (Σ*) being by far the best single parameter. Thus, quenching is fundamentally a global process but star formation is governed locally by processes within each spaxel.
Machine Learning Methods for Predicting Human-Adaptive Influenza A Viruses Based on Viral Nucleotide Compositions
Authors: Li Jing , Zhang Sen , Li Bo , Hu Yi , Kang Xiao-Ping , Wu Xiao-Yan , Huang Meng-Ting , Li Yu-Chang , Zhao Zhong-Peng , Qin Cheng-Feng , Jiang Tao 
Published: November 2019

Abstract
Each influenza pandemic was caused at least partly by avian- and/or swine-origin influenza A viruses (IAVs). The timing of and the potential IAVs involved in the next pandemic are currently unpredictable. We aim to build machine learning (ML) models to predict human-adaptive IAV nucleotide composition. A total of 217,549 IAV full-length coding sequences of the PB2 (polymerase basic protein-2), PB1, PA (polymerase acidic protein), HA (hemagglutinin), NP (nucleoprotein), and NA (neuraminidase) segments were decomposed for their codon position-based mononucleotides (12 nts) and dinucleotides (48 dnts). A total of 68,742 human sequences and 68,739 avian sequences (1:1) were resampled to characterize the human adaptation-associated (d)nts with principal component analysis (PCA) and other ML models. Then, the human adaptation of IAV sequences was predicted based on the characterized (d)nts. Respectively, 9, 12, 11, 13, 10 and 9 human-adaptive (d)nts were optimized for the six segments. PCA and hierarchical clustering analysis revealed the linear separability of the optimized (d)nts between the human-adaptive and avian-adaptive sets. The results of the confusion matrix and the area under the receiver operating characteristic curve indicated a high performance of the ML models to predict human adaptation of IAVs. Our model performed well in predicting the human adaptation of the swine/avian IAVs before and after the 2009 H1N1 pandemic. In conclusion, we identified the human adaptation-associated genomic composition of IAV segments. ML models for IAV human adaptation prediction using large IAV genomic data sets can facilitate the identification of key viral factors that affect virus transmission/pathogenicity. Most importantly, it allows the prediction of pandemic influenza.
Allele-specific single-cell RNA sequencing reveals different architectures of intrinsic and extrinsic gene expression noises
Authors: Sun Mengyi , Zhang Jianzhi 
Published: November 2019

Abstract
Gene expression noise refers to the variation of the expression level of a gene among isogenic cells in the same environment, and has two sources: extrinsic noise arising from the disparity of the cell state and intrinsic noise arising from the stochastic process of gene expression in the same cell state. Due to the low throughput of the existing method for measuring the two noise components, the architectures of intrinsic and extrinsic expression noises remain elusive. Using allele-specific single-cell RNA sequencing, we here estimate the two noise components of 3975 genes in mouse fibroblast cells. Our analyses verify predicted influences of several factors such as the TATA-box and microRNA targeting on intrinsic or extrinsic noises and reveal gene function-associated noise trends implicating the action of natural selection. These findings unravel differential regulations, optimizations, and biological consequences of intrinsic and extrinsic noises and can aid the construction of desired synthetic circuits.
Accelerated FDPS: Algorithms to use accelerators with FDPS
Authors: Iwasawa Masaki , Namekata Daisuke , Nitadori Keigo , Nomura Kentaro , Wang Long , Tsubouchi Miyuki , Makino Junichiro 
Published: November 2019

Abstract
We describe algorithms implemented in FDPS (Framework for Developing Particle Simulators) to make efficient use of accelerator hardware such as GPGPUs (general-purpose computing on graphics processing units). We have developed FDPS to make it possible for researchers to develop their own high-performance parallel particle-based simulation programs without spending large amounts of time on parallelization and performance tuning. FDPS provides a high-performance implementation of parallel algorithms for particle-based simulations in a “generic” form, so that researchers can define their own particle data structure and interparticle interaction functions. FDPS compiled with user-supplied data types and interaction functions provides all the necessary functions for parallelization, and researchers can thus write their programs as though they are writing simple non-parallel code. It has previously been possible to use accelerators with FDPS by writing an interaction function that uses the accelerator. However, the efficiency was limited by the latency and bandwidth of communication between the CPU and the accelerator, and also by the mismatch between the available degree of parallelism of the interaction function and that of the hardware parallelism. We have modified the interface of the user-provided interaction functions so that accelerators are more efficiently used. We also implemented new techniques which reduce the amount of work on the CPU side and the amount of communication between CPU and accelerators. We have measured the performance of N-body simulations on a system with an NVIDIA Volta GPGPU using FDPS and the achieved performance is around 27% of the theoretical peak limit. We have constructed a detailed performance model, and found that the current implementation can achieve good performance on systems with much smaller memory and communication bandwidth. Thus, our implementation will be applicable to future generations of accelerator system.
Taxa–area and distance–decay relationships of unicellular eukaryotes along an elevation gradient of mountainous freshwater ecosystems
Authors: Macingo Sofia C , Kormas Konstantinos A , Oikonomou Andreas , Karayanni Hera 
Published: November 2019

AbstractUnicellular eukaryotes have pivotal ecological roles in aquatic ecosystems by participating in biogeochemical processes and structuring microbial food webs. However, revealing their biogeographical patterns remains challenging, as it is reflected in the rather limited available knowledge. In this study, two central patterns, the taxa–area and the distance–decay relationships, were tested for freshwater unicellular eukaryotes. Sampling was performed in 31 mountainous freshwater ecosystems in Thessaly (Greece). Sampling sites had different geohydromorphological characteristics (altitude, 124–704 m; depth, 0.3–1 m; surface area, 188–123 000 m2; geographical distances, 0.03–48.4 km). Unicellular eukaryote diversity was assessed by 18S rRNA gene diversity with high-throughput sequencing. Five supergroups (Stramenopiles, Alveolata, Rhizaria, Archaeplastida and Opisthokonta) were found with the most abundant taxa being Stramenopiles and Alveolata. Aquatic unicellular eukaryotes showed statistically significant but weak DDR and TAR. This can be attributed to the large proportion of specialists (91.9% of operational taxonomic units according to Levin’s index). These results indicate that although mountainous pools and ponds can host high diversity of unicellular eukaryotes, the shaping of their communities is mainly regulated by niche-specific processes and environmental filtering and to a lesser extent by species dispersion processes.