bluuebunny/crossref_metadata_2025_split huggingface dataset:
Basilisk: Bayesian hierarchical inference of the galaxy–halo connection using satellite kinematics – I. Method and validation
Authors: van den Bosch Frank C , Lange Johannes U , Zentner Andrew R 
Published: July 2019

ABSTRACT
We present a Bayesian hierarchical inference formalism (Basilisk) to constrain the galaxy–halo connection using satellite kinematics. Unlike traditional methods, Basilisk does not resort to stacking the kinematics of satellite galaxies in bins of central luminosity, and does not make use of summary statistics, such as satellite velocity dispersion. Rather, Basilisk leaves the data in its raw form and computes the corresponding likelihood. In addition, Basilisk can be applied to flux-limited, rather than volume-limited samples, greatly enhancing the quantity and dynamic range of the data. And finally, Basilisk is the only available method that simultaneously solves for halo mass and orbital anisotropy of the satellite galaxies, while properly accounting for scatter in the galaxy–halo connection. Basilisk uses the conditional luminosity function to model halo occupation statistics, and assumes that satellite galaxies are a relaxed tracer population of the host halo’s potential with kinematics that obey the spherical Jeans equation. We test and validate Basilisk using mocks of varying complexity, and demonstrate that it yields unbiased constraints on the galaxy–halo connection and at a precision that rivals galaxy–galaxy lensing. In particular, Basilisk accurately recovers the full PDF of the relation between halo mass and central galaxy luminosity, and simultaneously constrains the orbital anisotropy of the satellite galaxies. Basilisk ’s inference is not affected by potential velocity bias of the central galaxies, or by slight errors in the inferred, radial profile of satellite galaxies that arise as a consequence of interlopers and sample impurity.
The Kelvin–Helmholtz instability and smoothed particle hydrodynamics
Authors: Tricco Terrence S 
Published: July 2019

ABSTRACT
We perform simulations of the Kelvin–Helmholtz instability using smoothed particle hydrodynamics (SPH). The instability is studied both in the linear and strongly non-linear regimes. The smooth, well-posed initial conditions of Lecoanet et al. (2016) are used, along with an explicit Navier–Stokes viscosity and thermal conductivity to enforce the evolution in the non-linear regime. We demonstrate convergence to the reference solution using SPH. The evolution of the vortex structures and the degree of mixing, as measured by a passive scalar ‘colour’ field, match the reference solution. Tests with an initial density contrast produce the correct qualitative behaviour. The $\mathcal {L}_2$ error of the SPH calculations decreases as the resolution is increased. The primary source of error is numerical dissipation arising from artificial viscosity, and tests with reduced artificial viscosity have reduced $\mathcal {L}_2$ error. A high-order smoothing kernel is needed in order to resolve the initial velocity amplitude of the seeded mode and inhibit excitation of spurious modes. We find that standard SPH with an artificial viscosity has no difficulty in correctly modelling the Kelvin–Helmholtz instability and yields convergent solutions.
Optical follow-up of the tidal disruption event iPTF16fnl: new insights from X-shooter observations
Authors: Onori F , Cannizzaro G , Jonker P G , Fraser M , Kostrzewa-Rutkowska Z , Martin-Carrillo A , Benetti S , Elias-Rosa N , Gromadzki M , Harmanen J , Mattila S , Strizinger M D , Terreran G , Wevers T 
Published: July 2019

ABSTRACT
We present the results from Nordic Optical Telescope and X-shooter follow-up campaigns of the tidal disruption event (TDE) iPTF16fnl, covering the first ∼100 d after the transient discovery. We followed the source photometrically until the TDE emission was no longer detected above the host galaxy light. The bolometric luminosity evolution of the TDE is consistent with an exponential decay with e-folding constant t0 = 17.6 ± 0.2 d. The early-time spectra of the transient are dominated by broad He ii λ4686, H $\beta$, H $\alpha$, and N iii λ4100 emission lines. The latter is known to be produced together with the N iii λ4640 in the Bowen fluorescence mechanism. Due to the medium-resolution X-shooter spectra we have been able to separate the Bowen blend contribution from the broad He ii emission line. The detection of the Bowen fluorescence lines in iPTF16fnl place this transient among the N-rich TDE subset. In the late-time X-shooter spectra, narrow emission lines of [O iii] and [N ii] originating from the host galaxy are detected, suggesting that the host galaxy harbours a weak active galactic nucleus in its core. The properties of all broad emission lines evolve with time. The equivalent widths follow an exponential decay compatible with the bolometric luminosity evolution. The full width at half-maximum of the broad lines decline with time and the line profiles develop a narrow core at later epochs. Overall, the optical emission of iPTF16fnl can be explained by being produced in an optically thick region in which high densities favour the Bowen fluorescence mechanism and where multiple electron scatterings are responsible for the line broadening.
Zoom-in cosmological hydrodynamical simulation of a star-forming barred, spiral galaxy at redshift z = 2
Authors: Vincenzo Fiorenzo , Kobayashi Chiaki , Yuan Tiantian 
Published: July 2019

ABSTRACTWe present gas and stellar kinematics of a high-resolution zoom-in cosmological chemodynamical simulation, which fortuitously captures the formation and evolution of a star-forming barred spiral galaxy, from redshift z ∼ 3 to z ∼ 2 at the peak of the cosmic star formation rate. The galaxy disc grows by accreting gas and substructures from the environment. The spiral pattern becomes fully organized when the gas settles from a thick (with vertical dispersion σv > 50 km s−1) to a thin (σv ∼ 25 km s−1) disc component in less than 1 Gyr. Our simulated disc galaxy also has a central X-shaped bar, the seed of which formed by the assembly of dense gas-rich clumps by z ∼ 3. The star formation activity in the galaxy mainly happens in the bulge and in several clumps along the spiral arms at all redshifts, with the clumps increasing in number and size as the simulation approaches z = 2. We find that stellar populations with decreasing age are concentrated towards lower galactic latitudes, being more supported by rotation, and having also lower velocity dispersion; furthermore, the stellar populations on the thin disc are the youngest and have the highest average metallicities. The pattern of the spiral arms rotates like a solid body with a constant angular velocity as a function of radius, which is much lower than the angular velocity of the stars and gas on the thin disc; moreover, the angular velocity of the spiral arms steadily increases as a function of time, always keeping its radial profile constant. The origin of our spiral arms is also discussed.
L’importance des relations : comment les cliniciens peuvent soutenir des pratiques parentales positives pendant la petite enfance
Authors: Williams Robin C , Biscaro Anne , Clinton Jean 
Published: July 2019

RésuméIl est essentiel que l’enfant forme des liens d’attachement stables avec au moins un adulte en bonne santé pour développer des capacités d’adaptation optimales. Les professionnels de la santé de première ligne, tels que les pédiatres et les médecins de famille, peuvent y contribuer en soutenant les parents dans leur milieu de pratique. Le clinicien peut profiter de chaque rencontre pour s’informer auprès des parents des relations et des comportements des enfants, des habitudes quotidiennes et du fonctionnement global de la famille. Le présent document de principes, qui porte sur les enfants de 0 à six ans, décrit les principes de base pour soutenir des pratiques parentales positives et recommande des pratiques en cabinet pour promouvoir des relations parents-enfant stables, mobiliser les familles et établir un climat de confiance avec les parents. Les pleurs, le sommeil et les comportements difficiles sont décrits comme des occasions pour le clinicien de donner des conseils préventifs et réceptifs aux besoins des parents.
Associations between family characteristics and influenza vaccination coverage among children
Authors: Ding Xiaofei , Tian Changwei , Wang Hua , Wang Wenming , Luo Xiaoming 
Published: July 2019

Abstract

Background
To assess the associations between family characteristics and influenza vaccination coverage among children.

Methods
Data were used from the National Health Interview Survey 2011–2016.

Results
The number of children ranged from 10 720 to 12 991 per year from 2011 to 2016. After adjustment for the high-risk status of influenza complications, sex, age, region, race and office visits of children, children of adults who received influenza vaccination were 3.83–4.79 times (the lowest and the highest odds ratios from 2011 to 2016) more likely to be immunized for influenza. Health insurance (1.36–1.61) was also associated with vaccination in children. However, the education level of family adults (0.59–0.79) and marital status of being widowed/divorced/separated (0.74–0.79) were negatively associated with vaccination uptake in children. The following characteristics were not major concerns with influenza vaccination in children: class of worker, years on the job, physical activity, drinking, smoking, hepatitis B immunization, number of family members aged ≥65 years and the ratio of family income to the poverty threshold. Overall, results from the pooled analysis (2011–2016) were consistent with the above-mentioned findings.

Conclusions
Promoting parental influenza immunization and access to health insurance may be the most effective tools to promote the coverage of influenza vaccine among children.
Neural Circuitry of Novelty Salience Processing in Psychosis Risk: Association With Clinical Outcome
Authors: Modinos Gemma , Allen Paul , Zugman Andre , Dima Danai , Azis Matilda , Samson Carly , Bonoldi Ilaria , Quinn Beverly , Gifford George W G , Smart Sophie E , Antoniades Mathilde , Bossong Matthijs G , Broome Matthew R , Perez Jesus , Howes Oliver D , Stone James M , Grace Anthony A , McGuire Philip 
Published: July 2019

Abstract
Psychosis has been proposed to develop from dysfunction in a hippocampal-striatal-midbrain circuit, leading to aberrant salience processing. Here, we used functional magnetic resonance imaging (fMRI) during novelty salience processing to investigate this model in people at clinical high risk (CHR) for psychosis according to their subsequent clinical outcomes. Seventy-six CHR participants as defined using the Comprehensive Assessment of At-Risk Mental States (CAARMS) and 31 healthy controls (HC) were studied while performing a novelty salience fMRI task that engaged an a priori hippocampal-striatal-midbrain circuit of interest. The CHR sample was then followed clinically for a mean of 59.7 months (~5 y), when clinical outcomes were assessed in terms of transition (CHR-T) or non-transition (CHR-NT) to psychosis (CAARMS criteria): during this period, 13 individuals (17%) developed a psychotic disorder (CHR-T) and 63 did not. Functional activation and effective connectivity within a hippocampal-striatal-midbrain circuit were compared between groups. In CHR individuals compared to HC, hippocampal response to novel stimuli was significantly attenuated (P = .041 family-wise error corrected). Dynamic Causal Modelling revealed that stimulus novelty modulated effective connectivity from the hippocampus to the striatum, and from the midbrain to the hippocampus, significantly more in CHR participants than in HC. Conversely, stimulus novelty modulated connectivity from the midbrain to the striatum significantly less in CHR participants than in HC, and less in CHR participants who subsequently developed psychosis than in CHR individuals who did not become psychotic. Our findings are consistent with preclinical evidence implicating hippocampal-striatal-midbrain circuit dysfunction in altered salience processing and the onset of psychosis.
Excess weight mediates changes in HDL pool that reduce cholesterol efflux capacity and increase antioxidant activity
Authors: de Lima-Junior Jose Carlos , Virginio Vitor W.M. , Moura Filipe A. , Bertolami Adriana , Bertolami Marcelo , Coelho-Filho Otavio R , Zanotti Ilaria , Nadruz Wilson , de Faria Eliana Cotta , de Carvalho Luiz Sergio F. , Sposito Andrei C 
Published: July 2019

AbstractObjectiveObesity-related decline in high-density lipoprotein (HDL) functions such as cholesterol efflux capacity (CEC) has supported the notion that this lipoprotein dysfunction may contribute for atherogenesis among obese patients. Besides, potentially other HDL protective actions may be affected with weight gain and these changes may occur even before the obesity range.MethodsLipid profile, body mass index (BMI), biochemical measurements, and carotid intima-media thickness (cIMT) were obtained in this cross-sectional study with 899 asymptomatic individuals. HDL functions were measured in a subgroup (n=101).ResultsIndividuals with increased HDL-C had an attenuated increase in cIMT with elevation of BMI. CEC, HDL-C, HDL size and HDL-antioxidant activity were negatively associated with cIMT. BMI was inversely associated with HDL-mediated inhibition of platelet aggregation and CEC, but surprisingly it was directly associated with the antioxidant activity. Thus, even in non-obese, non-diabetic individuals, increased BMI is associated with a wide change in protective functions of HDL, reducing CEC and increasing antioxidant activity. In these subjects, decreased HDL concentration, size or function are related to increased atherosclerotic burden.ConclusionOur findings demonstrate that in non-obese, non-diabetic individuals, the increasing values of BMI are associated with impaired protective functions of HDL and concomitant increase in atherosclerotic burden.
fMRI as an outcome measure in clinical trials: A systematic review in clinicaltrials.gov
Authors: Sadraee Alaleh , Paulus Martin P. , Ekhtiari Hamed 
Published: July 2019

AbstractBackgroundFunctional magnetic resonance imaging (fMRI) is quickly becoming a significant outcome measure for clinical trials and as more than one thousand trials with fMRI as an outcome measure were registered in clinicaltrials.gov at the time of writing this article. However, 93% of these registered trials are still not completed with published results and there is no picture available about methodological dimensions of these ongoing trials with fMRI as an outcome measure.MethodsWe collected trials that use fMRI as an outcome measure by searching “fMRI” in the ClinicalTrials.gov registry on October 13 2018 and reviewing each trial’s record entry. Eligible trials’ characteristics were extracted and summarized.ResultsIn total, 1386 clinical trials were identified that reported fMRI in their outcome measures with fMRI as the only primary outcome in 33% of them. 82% of fMRI trials were started after 2011. The most frequent intervention was drug (29%). 57% of trials had parallel assignment design and 20% were designed for cross over assignment. For task-based fMRI, cognitive systems (46%) based on RDoC was the most frequent domain of tasks, followed by positive valence systems (19%), systems for social processing (10%) and sensorimotor systems (5%). Less than one-third of trials (28%) registered at least one region of interest for their analysis. Food cue reactivity task, pain perception task, n-back task and monetary incentive delay task were recruited in more than 25 registered trials.ConclusionThe number of fMRI trials (fMRI as an outcome measure) with both task and rest protocols is growing rapidly. Different RDoC domains are covered by various tasks in fMRI trials. However, our study suggests the need of greater harmony and better standardization for registration of fMRI details on both methods and analysis which would allow for more effective comparison across studies in systematic reviews and also help the validation of results towards having fMRI as a biomarker in the future.
The mechanosensitive ion channel TRAAK is localized to the mammalian node of Ranvier
Authors: Brohawn Stephen G. , Wang Weiwei , Schwarz Jürgen R. , Handler Annie , Campbell Ernest B. , MacKinnon Roderick 
Published: July 2019

ABSTRACTTRAAK is a membrane tension-activated K+channel that has been associated through behavioral studies to mechanical nociception. We used specific monoclonal antibodies in mice to show that TRAAK is localized exclusively to nodes of Ranvier, the action potential propagating elements of myelinated nerve fibers. Approximately 80 percent of myelinated nerve fibers throughout the central and peripheral nervous system contain TRAAK in an all-nodes or no-nodes per axon fashion. TRAAK is not observed at the axon initial segment where action potentials are first generated. We used polyclonal antibodies, the TRAAK inhibitor RU2 and node clamp amplifiers to demonstrate the presence and functional properties of TRAAK in rat nerve fibers. TRAAK contributes to the ‘leak’ K+current in mammalian nerve fiber conduction by hyperpolarizing the resting membrane potential, thereby increasing Na+channel availability for action potential propagation. Mechanical gating in TRAAK might serve a neuroprotective role by counteracting mechanically-induced ectopic action potentials. Alternatively, TRAAK may open in response to mechanical forces in the nodal membrane associated with depolarization during saltatory conduction and thereby contribute to repolarization of the node for subsequent spikes.
Taxon appearance from extraction and amplification steps demonstrates the value of multiple controls in tick microbiota analysis
Authors: Lejal Emilie , Estrada-Peña Agustín , Marsot Maud , Cosson Jean-François , Rué Olivier , Mariadassou Mahendra , Midoux Cédric , Vayssier-Taussat Muriel , Pollet Thomas 
Published: July 2019

AbstractBackgroundThe development of high throughput sequencing technologies has substantially improved analysis of bacterial community diversity, composition, and functions. Over the last decade, high throughput sequencing has been used extensively to identify the diversity and composition of tick microbial communities. However, a growing number of studies are warning about the impact of contamination brought along the different steps of the analytical process, from DNA extraction to amplification. In low biomass samples, e.g. individual tick samples, these contaminants may represent a large part of the obtained sequences, and thus generate considerable errors in downstream analyses and in the interpretation of results. Most studies of tick microbiota either do not mention the inclusion of controls during the DNA extraction or amplification steps, or consider the lack of an electrophoresis signal as an absence of contamination. In this context, we aimed to assess the proportion of contaminant sequences resulting from these steps. We analyzed the microbiota of individual Ixodes ricinus ticks by including several categories of controls throughout the analytical process: crushing, DNA extraction, and DNA amplification.ResultsControls yielded a significant number of sequences (1,126 to 13,198 mean sequences, depending on the control category). Some operational taxonomic units (OTUs) detected in these controls belong to genera reported in previous tick microbiota studies. In this study, these OTUs accounted for 50.9% of the total number of sequences in our samples, and were considered contaminants. Contamination levels (i.e. the percentage of sequences belonging to OTUs identified as contaminants) varied with tick stage and gender: 76.3% of nymphs and 75% of males demonstrated contamination over 50%, while most females (65.7%) had rates lower than 20%. Contamination mainly corresponded to OTUs detected in crushing and DNA extraction controls, highlighting the importance of carefully controlling these steps.ConclusionHere, we showed that contaminant OTUs from extraction and amplification steps can represent more than half the total sequence yield in sequencing runs, and lead to unreliable results when characterizing tick microbial communities. We thus strongly advise the routine use of negative controls in tick microbiota studies, and more generally in studies involving low biomass samples.
A polygenic and phenotypic risk prediction for Polycystic Ovary Syndrome evaluated by Phenome-wide association studies
Authors: Joo Yoonjung Yoonie , Actkins Ky’Era , Pacheco Jennifer A. , Basile Anna O. , Carroll Robert , Crosslin David R. , Day Felix , Denny Joshua C. , Velez Edwards Digna R. , Hakonarson Hakon , Harley John B. , Hebbring Scott J , Ho Kevin , Jarvik Gail P. , Jones Michelle , Karderi Tugce , Mentch Frank D. , Meun Cindy , Namjou Bahram , Pendergrass Sarah , Ritchie Marylyn D. , Stanaway Ian B. , Urbanek Margrit , Walunas Theresa L. , Smith Maureen , Chisholm Rex L. ,   International PCOS Consortium, Kho Abel N. , Davis Lea , Hayes M. Geoffrey 
Published: July 2019

AbstractPurposeAs many as 75% of patients with Polycystic ovary syndrome (PCOS) are estimated to be unidentified in clinical practice. Utilizing polygenic risk prediction, we aim to identify the phenome-wide comorbidity patterns characteristic of PCOS to improve accurate diagnosis and preventive treatment.Methods and FindingsLeveraging the electronic health records (EHRs) of 124,852 individuals, we developed a PCOS risk prediction algorithm by combining polygenic risk scores (PRS) with PCOS component phenotypes into a polygenic and phenotypic risk score (PPRS). We evaluated its predictive capability across different ancestries and perform a PRS-based phenome-wide association study (PheWAS) to assess the phenomic expression of the heightened risk of PCOS. The integrated polygenic prediction improved the average performance (pseudo-R2) for PCOS detection by 0.228 (61.5-fold), 0.224 (58.8-fold), 0.211 (57.0-fold) over the null model across European, African, and multi-ancestry participants respectively. The subsequent PRS-powered PheWAS identified a high level of shared biology between PCOS and a range of metabolic and endocrine outcomes, especially with obesity and diabetes: ‘morbid obesity’, ‘type 2 diabetes’, ‘hypercholesterolemia’, ‘disorders of lipid metabolism’, ‘hypertension’ and ‘sleep apnea’ reaching phenome-wide significance.ConclusionsOur study has expanded the methodological utility of PRS in patient stratification and risk prediction, especially in a multifactorial condition like PCOS, across different genetic origins. By utilizing the individual genome-phenome data available from the EHR, our approach also demonstrates that polygenic prediction by PRS can provide valuable opportunities to discover the pleiotropic phenomic network associated with PCOS pathogenesis.