bluuebunny/crossref_metadata_2025_split huggingface dataset:
Effect Size Guidelines, Sample Size Calculations, and Statistical Power in Gerontology
Authors: Brydges Christopher R 
Published: September 2019

Abstract

Background and Objectives
Researchers typically use Cohen’s guidelines of Pearson’s r = .10, .30, and .50, and Cohen’s d = 0.20, 0.50, and 0.80 to interpret observed effect sizes as small, medium, or large, respectively. However, these guidelines were not based on quantitative estimates and are only recommended if field-specific estimates are unknown. This study investigated the distribution of effect sizes in both individual differences research and group differences research in gerontology to provide estimates of effect sizes in the field.

Research Design and Methods
Effect sizes (Pearson’s r, Cohen’s d, and Hedges’ g) were extracted from meta-analyses published in 10 top-ranked gerontology journals. The 25th, 50th, and 75th percentile ranks were calculated for Pearson’s r (individual differences) and Cohen’s d or Hedges’ g (group differences) values as indicators of small, medium, and large effects. A priori power analyses were conducted for sample size calculations given the observed effect size estimates.

Results
Effect sizes of Pearson’s r = .12, .20, and .32 for individual differences research and Hedges’ g = 0.16, 0.38, and 0.76 for group differences research were interpreted as small, medium, and large effects in gerontology.

Discussion and Implications
Cohen’s guidelines appear to overestimate effect sizes in gerontology. Researchers are encouraged to use Pearson’s r = .10, .20, and .30, and Cohen’s d or Hedges’ g = 0.15, 0.40, and 0.75 to interpret small, medium, and large effects in gerontology, and recruit larger samples.
Are We There Yet? Immersive Virtual Reality to Improve Cognitive Function in Dementia and Mild Cognitive Impairment
Authors: Sayma Meelad , Tuijt Remco , Cooper Claudia , Walters Kate 
Published: September 2019

Abstract

Background and Objectives
Cognitive training therapies may delay cognitive deterioration in dementia. There is potential to enhance delivery through immersive virtual reality (IVR), as removing potential distractors for cognitively impaired individuals can enhance their experience, resulting in increased engagement. Evidence in this field is emerging and not yet synthesized. We aimed to summarize research investigating the use of IVR in dementia to evaluate the current extent of use, acceptability, feasibility, and potential effectiveness. We also aimed to identify gaps in current research and to create a set of recommendations in utilizing this therapy.

Research Design and Methods
A systematic literature review was conducted. Our review was registered with PROSPERO, registration number: CRD42019122295. We undertook searches of five databases, article references, and citations. Key authors in the field of health care VR were also contacted to identify additional papers. Articles were assessed for inclusion by two researchers independently. Data were extracted using standardized forms.

Results
Our search identified a total of 2,824 citations, following screening for duplicates and application of inclusion and exclusion criteria, five studies were included for analysis. Included studies were heterogeneous, with small sample sizes and mixed outcomes.

Discussion and Implications
We were unable to reach definitive conclusions over the use, acceptability, and effectiveness of IVR for dementia and mild cognitive impairment. Future studies should focus on ensuring their interventions are truly immersive, developing more robust controls and account for the rapid rate of obsolescence in digital technologies.
The use of linear mixed effects models to investigate local adaptation in marine fish subpopulations: case study, changing spawning times of common sole (Solea solea)
Authors: Fincham Jennifer I , Barry Jon 
Published: September 2019

Abstract
Populations along environmental gradients have the potential to adapt to their own local environments. It is important to understand these adaptations in fisheries stocks to fully inform fisheries management strategies. With this is mind, sea temperatures are an important cue in timing for many marine species, including sole in the North-East Atlantic Ocean. We used spawning data and modelled sea surface temperature (SST) data from sole subpopulations to examine the possibility of local adaptation of their spawning times to rising temperature. Climate window analysis was used, in a linear mixed model using mean spawning week and SST, to investigate statistically significant differences between subpopulations of sole. There was no evidence of local adaptation to changing temperatures for these subpopulations. This suggests that their spawning-time reaction to changing temperatures is currently due to their subpopulation’s mean plasticity. Using climate window analysis and modelled temperature data we have demonstrated a method of examining spawning changes in marine populations along a temperature gradient. Recruitment and spawning success are key elements of fisheries population models which contribute to fisheries management. Further understanding of the influence of temperature on recruitment will help inform future modelling.
Assessment of interactions between 205 breast cancer susceptibility loci and 13 established risk factors in relation to breast cancer risk, in the Breast Cancer Association Consortium
Authors: Kapoor Pooja Middha , Lindström Sara , Behrens Sabine , Wang Xiaoliang , Michailidou Kyriaki , Bolla Manjeet K , Wang Qin , Dennis Joe , Dunning Alison M , Pharoah Paul D P , Schmidt Marjanka K , Kraft Peter , García-Closas Montserrat , Easton Douglas F , Milne Roger L , Chang-Claude Jenny ,   on behalf of Breast Cancer Association Consortium
Published: September 2019

Abstract

Background
Previous gene-environment interaction studies of breast cancer risk have provided sparse evidence of interactions. Using the largest available dataset to date, we performed a comprehensive assessment of potential effect modification of 205 common susceptibility variants by 13 established breast cancer risk factors, including replication of previously reported interactions.

Methods
Analyses were performed using 28 176 cases and 32 209 controls genotyped with iCOGS array and 44 109 cases and 48 145 controls genotyped using OncoArray from the Breast Cancer Association Consortium (BCAC). Gene-environment interactions were assessed using unconditional logistic regression and likelihood ratio tests for breast cancer risk overall and by estrogen-receptor (ER) status. Bayesian false discovery probability was used to assess the noteworthiness of the meta-analysed array-specific interactions.

Results
Noteworthy evidence of interaction at ≤1% prior probability was observed for three single nucleotide polymorphism (SNP)-risk factor pairs. SNP rs4442975 was associated with a greater reduction of risk of ER-positive breast cancer [odds ratio (OR)int = 0.85 (0.78-0.93), Pint = 2.8 x 10–4] and overall breast cancer [ORint = 0.85 (0.78-0.92), Pint = 7.4 x 10–5) in current users of estrogen-progesterone therapy compared with non-users. This finding was supported by replication using OncoArray data of the previously reported interaction between rs13387042 (r2 = 0.93 with rs4442975) and current estrogen-progesterone therapy for overall disease (Pint = 0.004). The two other interactions suggested stronger associations between SNP rs6596100 and ER-negative breast cancer with increasing parity and younger age at first birth.

Conclusions
Overall, our study does not suggest strong effect modification of common breast cancer susceptibility variants by established risk factors.
Molecular and genetic basis of azole antifungal resistance in the opportunistic pathogenic fungusCandida albicans
Authors: Nishimoto Andrew T , Sharma Cheshta , Rogers P David 
Published: September 2019

AbstractCandida albicans is an opportunistic yeast and the major human fungal pathogen in the USA, as well as in many other regions of the world. Infections with C. albicans can range from superficial mucosal and dermatological infections to life-threatening infections of the bloodstream and vital organs. The azole antifungals remain an important mainstay treatment of candidiasis and therefore the investigation and understanding of the evolution, frequency and mechanisms of azole resistance are vital to improving treatment strategies against this organism. Here the organism C. albicans and the genetic changes and molecular bases underlying the currently known resistance mechanisms to the azole antifungal class are reviewed, including up-regulated expression of efflux pumps, changes in the expression and amino acid composition of the azole target Erg11 and alterations to the organism’s typical sterol biosynthesis pathways. Additionally, we update what is known about activating mutations in the zinc cluster transcription factor (ZCF) genes regulating many of these resistance mechanisms and review azole import as a potential contributor to azole resistance. Lastly, investigations of azole tolerance in C. albicans and its implicated clinical significance are reviewed.
Serum and peritoneal exudate concentrations after high doses of β-lactams in critically ill patients with severe intra-abdominal infections: an observational prospective study
Authors: Leon Lisa , Guerci Philippe , Pape Elise , Thilly Nathalie , Luc Amandine , Germain Adeline , Butin-Druoton Anne-Lise , Losser Marie-Reine , Birckener Julien , Scala-Bertola Julien , Novy Emmanuel 
Published: September 2019

Abstract

Background
Critically ill patients with severe intra-abdominal infections (IAIs) requiring surgery may undergo several pharmacokinetic (PK) alterations that can lead to β-lactam underdosage.

Objectives
To measure serum and peritoneal exudate concentrations of β-lactams after high doses and optimal administration schemes.

Methods
This observational prospective study included critically ill patients with suspicion of IAI who required surgery and a β-lactam antibiotic as empirical therapy. Serum and peritoneal exudate concentrations were measured during surgery and after a 24 h steady-state period. The PK/pharmacodynamic (PD) target was to obtain serum β-lactam concentrations of 100% fT&gt;4×MIC based on a worst-case scenario (based on the EUCAST highest epidemiological cut-off values) before bacterial documentation (a priori) and redefined following determination of the MIC for the isolated bacteria (a posteriori). Registered with ClinicalTrials.gov (NCT03310606).

Results
Forty-eight patients were included with a median (IQR) age of 64 (53–74) years and a SAPS II of 40 (32–65). The main diagnosis was secondary nosocomial peritonitis. Piperacillin/tazobactam was the most administered β-lactam antibiotic (75%). The serum/peritoneal piperacillin/tazobactam ratio was 0.88 (0.64–0.97) after a 24 h steady-state period. Prior to bacterial documentation, 16 patients (33.3%) achieved the a priori PK/PD target. The identification of microorganisms was available for 34 patients (71%). Based on the MIC for isolated bacteria, 78% of the patients achieved the serum PK/PD target.

Conclusions
In severe IAIs, high doses of β-lactams ensured 100% fT&gt;4×MIC in the serum for 78% of critically ill patients with severe IAIs within the first 24 h. In order to define optimal β-lactam dosing, the PK/PD target should take into account the tissue penetration and local ecology.
Diffusion-Weighted MRI of the Breast in Women with a History of Mantle Radiation: Does Radiation Alter Apparent Diffusion Coefficient?
Authors: Bajaj Punam , Iacconi Chiara , Dershaw David D , Morris Elizabeth A 
Published: September 2019

Abstract

Objective
Fibrosis from chest irradiation could lower the apparent diffusion coefficient (ADC) of breast tissue. ADC values of normal breast tissue in high-risk women who underwent mantle radiation before age 30 years were compared with a screening control group matched for breast fibroglandular tissue (FGT).

Methods
In this retrospective study, we reviewed 21 women with a history of mantle radiation who underwent breast MRI examinations between 2008 and 2013, and 20 nonirradiated patients (control group) imaged during the same period with matching FGT and similar age. The women were dichotomized into low FGT (10/20, 50%) and high-FGT (10/20, 50%) groups, based on BI-RADS descriptors. All MRI examinations included diffusion-weighted imaging (DWI) (b = 0, 1000); ADC maps were generated and evaluated on PACS workstations by two radiologists in agreement. Region of interest markers were placed on ADC maps in visualized breast tissue in the retroareolar region of each breast. The ADC value was averaged for the right and left breast in each patient included in the study. The Wilcoxon signed-rank test was used to compare the ADC values in the irradiated patients and the matched control patients.

Results
The median breast ADC was lower in the irradiated group (1.32 × 10-3mm2/sec) than in the control group (1.62 × 10-3mm2/sec; P = 0.0089). Low FGT in the irradiated group had a lower median ADC (1.25 × 10-3mm2/sec) than it did in the control group (1.53 × 10-3mm2/sec). Irradiated high-FGT breasts had a median ADC (1.52 × 10-3mm2/sec), as compared with nonirradiated control patients with high FGT (1.82 × 10-3mm2/sec).

Conclusion
Previously irradiated breasts have lower ADC values than do nonirradiated breasts.
Properties of electrostatic correcting systems with annular apertures
Authors: Kodama Tetsuji , Kawasaki Tadahiro , Ikuta Takashi 
Published: September 2019

Abstract
Image formation in electron microscopes with circular hole and annular apertures is studied theoretically. The apertures—the circular hole aperture being negative with respect to the annular aperture—produce an additional electrostatic field that exerts a force on the electrons directed toward the optical axis. The resulting deflection angle decreases with increasing distance from the optical axis. This electrostatic field results in a correcting effect of the unavoidable spherical aberration of round electron lenses; the deflection toward the optical axis increases stronger than linearly with increasing distance from the optical axis. Analytical formulae are given for the correcting effect of circular hole and annular apertures. The expressions are based on the Davisson–Calbick formula, which is used to calculate focal length of a simple electrostatic lens.
Counter-rhetoric and sources of enduring conflict in contested organizational fields: A case study of mental health professionals
Authors: Fincham Robin , Forbes Tom 
Published: September 2019

Abstract
As a means by which actors justify beliefs and practices, rhetoric has a key institutional role. In contested settings, where multiple groups and the logics associated with them interact, research has highlighted rhetorical strategies that exploit rival systems. The account we develop expands on these ideas and suggests they embrace forms of counter-rhetoric, or arguments that delegitimize a rival’s logic and refine and reframe others’ values. We use these categories to explore the case of a local mental health service, an area of health policy known for problematic diagnosis and treatment. Here groups of medical and social-care providers were required to work together in a system of intensive inter-professional relations and clashing logics. Our analysis focuses on this interaction, exploring the language-based nature of logics and sources of conflict between logics that are asserted in counter-rhetorical forms.
The Milky Way’s halo and subhaloes in self-interacting dark matter
Authors: Robles Victor H , Kelley Tyler , Bullock James S , Kaplinghat Manoj 
Published: September 2019

ABSTRACT
We perform high-resolution simulations of an MW-like galaxy in a self-interacting cold dark matter model with elastic cross-section over mass of $1~\rm cm^2\, g^{-1}$ (SIDM) and compare to a model without self-interactions (CDM). We run our simulations with and without a time-dependent embedded potential to capture effects of the baryonic disc and bulge contributions. The CDM and SIDM simulations with the embedded baryonic potential exhibit remarkably similar host halo profiles, subhalo abundances, and radial distributions within the virial radius. The SIDM host halo is denser in the centre than the CDM host and has no discernible core, in sharp contrast to the case without the baryonic potential (core size ${\sim}7 \, \rm kpc$). The most massive subhaloes (with $V_{\mathrm{peak}}\gt 20 \, \rm km\, s^{-1}$) in our SIDM simulations, expected to host the classical satellite galaxies, have density profiles that are less dense than their CDM analogues at radii less than 500 pc but the deviation diminishes for less massive subhaloes. With the baryonic potential included in the CDM and SIDM simulations, the most massive subhaloes do not display the too-big-to-fail problem. However, the least dense among the massive subhaloes in both these simulations tend to have the smallest pericenter values, a trend that is not apparent among the bright MW satellite galaxies.
Multi-wavelength observations of protoplanetary discs as a proxy for the gas disc mass
Authors: Veronesi B , Lodato G , Dipierro G , Ragusa E , Hall C , Price D J 
Published: September 2019

Abstract
Recent observations of protoplanetary discs reveal disc substructures potentially caused by embedded planets. We investigate how the gas surface density in discs changes the observed morphology in scattered light and dust continuum emission. Assuming that disc substructures are due to embedded protoplanets, we combine hydrodynamical modelling with radiative transfer simulations of dusty protoplanetary discs hosting planets. The response of different dust species to the gravitational perturbation induced by a planet depends on the drag stopping time — a function of the generally unknown local gas density. Small dust grains, being stuck to the gas, show spirals. Larger grains decouple, showing progressively more axisymmetric (ring-like) substructure as decoupling increases with grain size or with the inverse of the gas disc mass. We show that simultaneous modelling of scattered light and dust continuum emission is able to constrain the Stokes number, St. Hence, if the dust properties are known, this constrains the local gas surface density, Σgas, at the location of the structure, and hence the total gas mass. In particular, we found that observing ring-like structures in mm-emitting grains requires St ≳ 0.4 and therefore Σgas ≲ 0.4 g/cm2. We apply this idea to observed protoplanetary discs showing substructures both in scattered light and in the dust continuum.
The evolution of Earth’s magnetosphere during the solar main sequence
Authors: Carolan S , Vidotto A A , Loesch C , Coogan P 
Published: September 2019

ABSTRACT
As a star spins-down during the main sequence, its wind properties are affected. In this work, we investigate how Earth’s magnetosphere has responded to the change in the solar wind. Earth’s magnetosphere is simulated using 3D magnetohydrodynamic models that incorporate the evolving local properties of the solar wind. The solar wind, on the other hand, is modelled in 1.5D for a range of rotation rates Ω from 50 to 0.8 times the present-day solar rotation (Ω⊙). Our solar wind model uses empirical values for magnetic field strengths, base temperature, and density, which are derived from observations of solar-like stars. We find that for rotation rates ≃10 Ω⊙, Earth’s magnetosphere was substantially smaller than it is today, exhibiting a strong bow shock. As the Sun spins-down, the magnetopause standoff distance varies with Ω−0.27 for higher rotation rates (early ages, ≥1.4 Ω⊙) and with Ω−2.04 for lower rotation rates (older ages, &lt;1.4 Ω⊙). This break is a result of the empirical properties adopted for the solar wind evolution. We also see a linear relationship between the magnetopause distance and the thickness of the shock on the subsolar line for the majority of the evolution (≤10 Ω⊙). It is possible that a young fast rotating Sun would have had rotation rates as high as 30–50 Ω⊙. In these speculative scenarios, at 30 Ω⊙, a weak shock would have been formed, but for 50 Ω⊙, we find that no bow shock could be present around Earth’s magnetosphere. This implies that with the Sun continuing to spin-down, a strong shock would have developed around our planet and remained for most of the duration of the solar main sequence.
Screening maps of the local Universe I – Methodology
Authors: Shao Shi , Li Baojiu , Cautun Marius , Wang Huiyuan , Wang Jie 
Published: September 2019

ABSTRACT
We introduce the LOCal Universe Screening Test Suite (locusts) project, an effort to create ‘screening maps’ in the nearby Universe to identify regions in our neighbourhood which are screened, i.e. regions where deviations from General Relativity (GR) are suppressed, in various modified gravity (MG) models. In these models, deviations from the GR force law are often stronger for smaller astrophysical objects, making them ideal test beds of gravity in the local Universe. However, the actual behaviour of the modified gravity force also depends on the environment of the objects, and to make accurate predictions one has to take the latter into account. This can be done approximately using luminous objects in the local Universe as tracers of the underlying dark matter field. Here, we propose a new approach that takes advantage of state-of-the-art Bayesian reconstruction of the mass distribution in the Universe, which allows us to solve the modified gravity equations and predict the screening effect more accurately. This is the first of a series of works, in which we present our methodology and some qualitative results of screening for a specific MG model, f(R) gravity. Applications to test models using observations and extensions to other classes of models will be studied in future works.
Hypervelocity stars from star clusters hosting intermediate-mass black holes
Authors: Fragione Giacomo , Gualandris Alessia 
Published: September 2019

ABSTRACT
Hypervelocity stars (HVSs) represent a unique population of stars in the Galaxy reflecting properties of the whole Galactic potential. Determining their origin is of fundamental importance to constrain the shape and mass of the dark halo. The leading scenario for the ejection of HVSs is an encounter with the supermassive black hole in the Galactic centre. However, new proper motions from the Gaia mission indicate that only the fastest HVSs can be traced back to the Galactic centre and the remaining stars originate in the disc or halo. In this paper, we study HVSs generated by encounters of stellar binaries with an intermediate-mass black hole (IMBH) in the core of a star cluster. For the first time, we model the effect of the cluster orbit in the Galactic potential on the observable properties of the ejected population. HVSs generated by this mechanism do not travel on radial orbits consistent with a Galactic centre origin, but rather point back to their parent cluster, thus providing observational evidence for the presence of an IMBH. We also model the ejection of high-velocity stars from the Galactic population of globular clusters, assuming that they all contain an IMBH, including the effects of the cluster’s orbit and propagation of the star in the Galactic potential up to detection. We find that high-velocity stars ejected by IMBHs have distinctive distributions in velocity, Galactocentric distance and Galactic latitude, which can be used to distinguish them from runaway stars and stars ejected from the Galactic Centre.