bluuebunny/crossref_metadata_2025_split huggingface dataset:
A redshift-dependent IRX–β dust attenuation relation for TNG50 galaxies
Authors: Schulz Sebastian , Popping Gergö , Pillepich Annalisa , Nelson Dylan , Vogelsberger Mark , Marinacci Federico , Hernquist Lars 
Published: July 2020

ABSTRACT
We study the relation between the UV slope, β, and the ratio between the infrared- and UV luminosities (IRX) of galaxies from TNG50, the latest installment of the IllustrisTNG galaxy formation simulations. We select 7280 star-forming main-sequence (SFMS) galaxies with stellar mass ≥109 M⊙ at redshifts 0 ≤ z ≤ 4 and perform radiative transfer with skirt to model effects of interstellar medium dust on the emitted stellar light. Assuming a Milky Way dust type and a dust-to-metal ratio of 0.3, we find that TNG50 SFMS galaxies generally agree with observationally derived IRX–β relations at z ≲ 1. However, we find a redshift-dependent systematic offset with respect to empirically derived local relations, with the TNG50 IRX–β relation shifting towards lower β and steepening at higher redshifts. This is partially driven by variations in the dust-uncorrected UV slope of galaxies, due to different star formation histories of galaxies selected at different cosmic epochs; we suggest the remainder of the effect is caused by differences in the effective dust attenuation curves of galaxies as a function of redshift. We find a typical galaxy-to-galaxy variation of 0.3 dex in infrared excess (IRX) at fixed β, correlated with intrinsic galaxy properties: galaxies with higher star formation rates, star formation efficiencies, gas metallicities and stellar masses exhibit larger IRX values. We demonstrate a degeneracy between stellar age, dust geometry, and dust composition: z = 4 galaxies with a Small Magellanic Cloud dust type follow the same IRX–β relation as low-redshift galaxies with MW dust. We provide a redshift-dependent fitting function for the IRX–β relation for MW dust based on our models.
On the prediction of DNA-binding preferences of C2H2-ZF domains using structural models: application on human CTCF
Authors: Meseguer Alberto , Årman Filip , Fornes Oriol , Molina-Fernández Ruben , Bonet Jaume , Fernandez-Fuentes Narcis , Oliva Baldo 
Published: July 2020

Abstract
Cis2-His2 zinc finger (C2H2-ZF) proteins are the largest family of transcription factors in human and higher metazoans. To date, the DNA-binding preferences of many members of this family remain unknown. We have developed a computational method to predict their DNA-binding preferences. We have computed theoretical position weight matrices (PWMs) of proteins composed by C2H2-ZF domains, with the only requirement of an input structure. We have predicted more than two-third of a single zinc-finger domain binding site for about 70% variants of Zif268, a classical member of this family. We have successfully matched between 60 and 90% of the binding-site motif of examples of proteins composed by three C2H2-ZF domains in JASPAR, a standard database of PWMs. The tests are used as a proof of the capacity to scan a DNA fragment and find the potential binding sites of transcription-factors formed by C2H2-ZF domains. As an example, we have tested the approach to predict the DNA-binding preferences of the human chromatin binding factor CTCF. We offer a server to model the structure of a zinc-finger protein and predict its PWM.
Seasonal variation in the incidence of primary CNS lymphoma
Authors: Gibson Alec W , Bonm Alipi V , Barber Jason , Graber Jerome J 
Published: July 2020

Abstract

Background
Primary CNS lymphoma is a rare and aggressive cancer that can develop in immunocompetent individuals, but little is known about risk factors and causes of disease. Previous studies have demonstrated seasonal patterns for lymphomas and brain tumors. This study examined the seasonal incidence pattern for primary CNSlymphoma.

Methods
A retrospective review was performed for patients diagnosed with primary CNS lymphoma from 2000 through 2018 at our tertiary referral center. A total of 156 patients were categorized based on month of symptom onset, month of diagnosis, and month of recurrence if they experienced a relapse of their disease. The distributions were then analyzed for seasonal patterns.

Results
There was a significant, bimodal seasonal incidence pattern based on month of symptom onset (P &lt; .001), with peaks in July (n = 19) and December (n = 23) and troughs in March (n = 4) and September (n = 5). There were no significant differences in patients’ sex, age at presentation, length of follow-up, and progression-free survival across months. There were no seasonal patterns based on month of diagnosis (P = .450) or month of disease recurrence (P = .572).

Conclusion
The incidence of primary CNS lymphoma has bimodal peaks in midsummer and early winter, which could provide insight into causative agents and mechanisms of disease.
Effect of fructose instead of glucose or sucrose on cardiometabolic markers: a systematic review and meta-analysis of isoenergetic intervention trials
Authors: Fattore Elena , Botta Francesca , Bosetti Cristina 
Published: June 2020

AbstractContextFree, or added, sugars are considered important determinants in the pandemics of obesity and associated chronic diseases, and fructose has emerged as the sugar of main concern.ObjectiveThe aim of this review was to assess the evidence of the effects of isoenergetic replacement of fructose or high-fructose corn syrup (HFCS) for glucose or sucrose on cardiometabolic markers in controlled dietary intervention trials.Data SourcesThe electronic databases PubMed/MEDLINE, the Cochrane Library, and Embase were searched from 1980 to May 5, 2020.Study SelectionStudies were eligible if they measured at least one of the following outcomes: total cholesterol, low- and high-density lipoprotein cholesterol, triacylglycerols, apolipoprotein A1, apolipoprotein B, systolic blood pressure, diastolic blood pressure, fasting glucose, and body weight.Data ExtractionFor each outcome, the mean values and the corresponding measure of dispersion were extracted after the intervention or control diet.Data AnalysisFixed-effects and random-effects models were used to pool study-specific estimates. Between-study heterogeneity was assessed by the χ2 test and the I2 statistic and publication bias by the Egger test and funnel plots.ResultsTwenty-five studies involving 1744 volunteers were identified. No significant effects were found when fructose or HFCS was substituted for glucose, except for a slight decrease in diastolic blood pressure when fructose was substituted for glucose. Similarly, no effects were found when fructose or HFCS was substituted for sucrose, except for a small increase, of uncertain clinical significance, of apolipoprotein B when HFCS was substituted for sucrose.ConclusionsIsoenergetic substitution of fructose or HFCS for glucose or sucrose has no significant effect on most of the cardiometabolic markers investigated; however, some results were affected by residual between-study heterogeneity and studies with high or unclear risk of bias.Systematic Review RegistrationPROSPERO registration number CRD42016042930.
History of nutrition policy in Japan
Authors: Shobayashi Tokuaki 
Published: July 2020

Abstract
Why has Japan become the longest-lived country in the world? The longevity is often attributed to Japan’s economic growth, but Japan experienced an extended life expectancy prior to achieving such economic growth. During and after the Second World War when the General Headquarters of the Supreme Commander for the Allied Powers was occupying Japan, the welfare administration system was drastically reformed, resulting in dramatic improvements in the hygiene status, which led to an increase in the average life expectancy in Japan. Here, this background is reviewed, along with an explanation of how Japan has become the world's longest-lived country.
Cryptic Patterns of Speciation in Cryptic Primates: Microendemic Mouse Lemurs and the Multispecies Coalescent
Authors: Poelstra Jelmer W , Salmona Jordi , Tiley George P , Schüßler Dominik , Blanco Marina B , Andriambeloson Jean B , Bouchez Olivier , Campbell C Ryan , Etter Paul D , Hohenlohe Paul A , Hunnicutt Kelsie E , Iribar Amaia , Johnson Eric A , Kappeler Peter M , Larsen Peter A , Manzi Sophie , Ralison JosÉ M , Randrianambinina Blanchard , Rasoloarison Rodin M , Rasolofoson David W , Stahlke Amanda R , Weisrock David W , Williams Rachel C , Chikhi LounÈs , Louis Edward E , Radespiel Ute , Yoder Anne D 
Published: July 2020

AbstractMouse lemurs (Microcebus) are a radiation of morphologically cryptic primates distributed throughout Madagascar for which the number of recognized species has exploded in the past two decades. This taxonomic revision has prompted understandable concern that there has been substantial oversplitting in the mouse lemur clade. Here, we investigate mouse lemur diversity in a region in northeastern Madagascar with high levels of microendemism and predicted habitat loss. We analyzed RADseq data with multispecies coalescent (MSC) species delimitation methods for two pairs of sister lineages that include three named species and an undescribed lineage previously identified to have divergent mtDNA. Marked differences in effective population sizes, levels of gene flow, patterns of isolation-by-distance, and species delimitation results were found among the two pairs of lineages. Whereas all tests support the recognition of the presently undescribed lineage as a separate species, the species-level distinction of two previously described species, M. mittermeieri and M. lehilahytsara is not supported—a result that is particularly striking when using the genealogical discordance index (gdi). Nonsister lineages occur sympatrically in two of the localities sampled for this study, despite an estimated divergence time of less than 1 Ma. This suggests rapid evolution of reproductive isolation in the focal lineages and in the mouse lemur clade generally. The divergence time estimates reported here are based on the MSC calibrated with pedigree-based mutation rates and are considerably more recent than previously published fossil-calibrated relaxed-clock estimates. We discuss the possible explanations for this discrepancy, noting that there are theoretical justifications for preferring the MSC estimates in this case. [Cryptic species; effective population size; microendemism; multispecies coalescent; speciation; species delimitation.]
Feed and production efficiency of young crossbred beef cattle stratified on a terminal total merit index1
Authors: Kelly David N , Conroy Stephen B , Murphy Craig P , Sleator Roy D , Berry Donagh P 
Published: July 2020

AbstractFew studies have attempted to quantify the association between a terminal total merit index with phenotypic feed and production efficiency in beef cattle, particularly when feed efficiency is itself explicitly absent as a goal trait in the index. The objective of the present study was to quantify the differences in phenotypic performance for feed intake, feed efficiency, and carcass traits of crossbred bulls, steers, and heifers differing in a terminal total merit index. A validation population of 614 bulls, steers, and heifers that were evaluated for feed intake and efficiency in the same feedlot and subsequently slaughtered at the end of their test period was constructed. The Irish national genetic evaluations for a terminal index of calving performance, docility, feed intake, and carcass traits were undertaken with the phenotypic records of animals present in the validation population masked. The validation population animals were subsequently stratified into four groups, within sex, according to their terminal index value. Mixed models were used to quantify the association between terminal genetic merit and phenotypic performance; whether the associations differed by sex were also investigated. The regression coefficient of phenotypic feed intake, carcass weight, carcass conformation, or carcass fat on its respective estimated breeding values was 0.86 kg dry matter 0.91 kg, 1.01 units, and 1.29 units, respectively, which are close to the expectation of one. On average, cattle in the very high terminal index stratum had a 0.63 kg DM/d lower feed intake, a 25.05 kg heavier carcass, a 1.82 unit better carcass conformation (scale 1 to 15), and a 1.24 unit less carcass fat score (scale 1 to 15), relative to cattle in the very low terminal index stratum. Cattle of superior total genetic merit were also more feed efficient (i.e., had a lower energy conversion ratio, lower residual feed intake, and greater residual gain), had a greater proportion of their live-weight as carcass weight (i.e., better dressing percentage) and were slaughtered at a younger age relative to their inferior total genetic merit counterparts. This study provides validation of an all-encompassing total merit index and demonstrates the benefits of selection on a total merit index for feed and production efficiency, which should impart confidence among stakeholders in the contribution of genetic selection to simultaneous improvements in individual animal performance and efficiency.
Arsenic Directs Stem Cell Fate by Imparting Notch Signaling Into the Extracellular Matrix Niche
Authors: Anguiano Teresa , Sahu Amrita , Qian Baoli , Tang Wan-Yee , Ambrosio Fabrisia , Barchowsky Aaron 
Published: July 2020

Abstract
Compromise of skeletal muscle metabolism and composition may underlie the etiology of cardiovascular and metabolic disease risk from environmental arsenic exposures. We reported that arsenic impairs muscle maintenance and regeneration by inducing maladaptive mitochondrial phenotypes in muscle stem cells (MuSC), connective tissue fibroblasts (CTF), and myofibers. We also found that arsenic imparts a dysfunctional memory in the extracellular matrix (ECM) that disrupts the MuSC niche and is sufficient to favor the expansion and differentiation of fibrogenic MuSC subpopulations. To investigate the signaling mechanisms involved in imparting a dysfunctional ECM, we isolated skeletal muscle tissue and CTF from mice exposed to 0 or 100 μg/l arsenic in their drinking water for 5 weeks. ECM elaborated by arsenic-exposed CTF decreased myogenesis and increased fibrogenic/adipogenic MuSC subpopulations and differentiation. However, treating arsenic-exposed mice with SS-31, a mitochondrially targeted peptide that repairs the respiratory chain, reversed the arsenic-promoted CTF phenotype to one that elaborated an ECM supporting normal myogenic differentiation. SS-31 treatment also reversed arsenic-induced Notch1 expression, resulting in an improved muscle regeneration after injury. We found that persistent arsenic-induced CTF Notch1 expression caused the elaboration of dysfunctional ECM with increased expression of the Notch ligand DLL4. This DLL4 in the ECM was responsible for misdirecting MuSC myogenic differentiation. These data indicate that arsenic impairs muscle maintenance and regenerative capacity by targeting CTF mitochondria and mitochondrially directed expression of dysfunctional regulators in the stem cell niche. Therapies that restore muscle cell mitochondria may effectively treat arsenic-induced skeletal muscle dysfunction and compositional decline.
A Quality Improvement Project to Standardize Surfactant Delivery in the Era of Noninvasive Ventilation
Authors: Kim Jeong Eun , Brewer Mariana , Spinazzola Regina , Wallace Elfriede , Casatelli Joanne , Beachy Joanna , Weinberger Barry , Perveen Shahana 
Published: July 2020

Introduction:
Continuous positive airway pressure (CPAP) and surfactant both improve outcomes for premature infants with respiratory distress syndrome. However, prolonged trials of CPAP, as well as observation periods after intubation, may delay the administration of surfactant. Late surfactant treatment likely increases the incidence of bronchopulmonary dysplasia, which leads to significant morbidity and healthcare utilization.

Methods:
We aimed to decrease time from meeting standard criteria (start of a continuous run of FiO2 > 40% or PaCO2 > 65 for >90 min) to intubation, and from intubation to surfactant administration, for infants <1,500 g or younger than 32 weeks gestation. Retrospective data collection from the electronic medical record assessed those process measures as the primary endpoints. Balancing measures were the adverse outcomes of asymmetric lung disease, the inappropriate position of the endotracheal tube, or pneumothorax on the first x-ray (within 24 h) after surfactant.

Results:
Mean time to intubation for infants 28–32 weeks gestation decreased from 321 to 81 minutes in response to a literature review for physicians and free-text orders for notification. Time to intubation for infants younger than 28 weeks gestation did not change. Administration of surfactant within 1 hour of intubation improved from 78% to 100% after a program for trainees and coordination with radiology. There were no adverse occurrences.

Conclusions:
Educational interventions and targeted process change can successfully implement standard criteria for intubation and surfactant administration for premature infants. Determination of an acceptable range of evidence-based practice is essential for the engagement of medical staff. Timely intubation and surfactant may decrease bronchopulmonary dysplasia.
Church attendance and alloparenting: an analysis of fertility, social support and child development among English mothers
Authors: Shaver John H. , Power Eleanor A. , Purzycki Benjamin G. , Watts Joseph , Sear Rebecca , Shenk Mary K. , Sosis Richard , Bulbulia Joseph A. 
Published: June 2020

Many aspects of religious rituals suggest they provide adaptive benefits. Studies across societies consistently find that investments in ritual behaviour return high levels of cooperation. Another line of research finds that alloparental support to mothers increases maternal fertility and improves child outcomes. Although plausible, whether religious cooperation extends to alloparenting and/or affects child development remains unclear. Using 10 years of data collected from the Avon Longitudinal Study of Parents and Children (ALSPAC), we test the predictions that church attendance is positively associated with social support and fertility (n= 8207 ton= 8209), and that social support is positively associated with fertility and child development (n= 1766 ton= 6561). Results show that: (i) relative to not attending, church attendance is positively related to a woman's social network support and aid from co-religionists, (ii) aid from co-religionists is associated with increased family size, while (iii) fertility declines with extra-religious social network support. Moreover, while extra-religious social network support decreased over time, co-religionist aid remained constant. These findings suggest that religious and secular networks differ in their longevity and have divergent influences on a woman's fertility. We find some suggestive evidence that support to mothers and aid from co-religionists is positively associated with a child's cognitive ability at later stages of development. Findings provide mixed support for the premise that ritual, such as church attendance, is part of a strategy that returns high levels of support, fertility and improved child outcomes. Identifying the diversity and scope of cooperative breeding strategies across global religions presents an intriguing new horizon in the evolutionary study of religious systems.This article is part of the theme issue ‘Ritual renaissance: new insights into the most human of behaviours'.
Initial Feasibility and Clinical Implementation of Daily MR-guided Adaptive Head and Neck Cancer Radiotherapy on a 1.5T MR-Linac System: Prospective R-IDEAL 2a/2b Systematic Clinical Evaluation of Technical Innovation
Authors: McDonald Brigid A. , Vedam Sastry , Yang Jinzhong , Wang Jihong , Castillo Pamela , Lee Belinda , Sobremonte Angela , Ding Yao , Mohamed Abdallah S.R. , Balter Peter , Hughes Neil , Thorwarth Daniela , Nachbar Marcel , Philippens Marielle E.P. , Terhaard Chris H.J. , Zips Daniel , Böke Simon , Awan Musaddiq J. , Christodouleas John , Fuller Clifton D. 
Published: July 2020

AbstractIntroductionThis prospective study is the first report of daily adaptive radiotherapy (ART) for head & neck cancers (HNC) using a 1.5T MR-linac, with particular focus on safety & feasibility and dosimetric results of an on-line rigid registration-based adapt-to-position (ATP) workflow.MethodsTen HNC patients received daily ART on a 1.5T/7MV MR-linac, six using ATP only and four using ATP with one off-line adapt-to-shape re-plan. Setup variability with custom immobilization masks was assessed by calculating the average systematic error (M), standard deviation of the systematic error (∑), and standard deviation of the random error (σ) of the isocenter shifts. Quality assurance was performed with a cylindrical diode array using 3%/3mm γ criteria. Adaptive treatment plans were summed for each patient to compare delivered dose with planned dose from the reference plan. The impact of dosimetric variability between adaptive fractions on the summation plan doses was assessed by tracking the number of optimization constraint violations at each individual fraction.ResultsThe random errors (mm) for the x, y, and z isocenter shifts, respectively, were M = − 0.3, 0.7, 0.1; ∑ = 3.3, 2.6, 1.4; and σ = 1.7, 2.9, 1.0. The median γ pass rate was 99.9% (range: 90.9%-100%). The differences between the reference and summation plan doses were within [-0.61%, 1.78%] for the CTV and [-11.74%, 8.11%] for organs at risk (OARs), though percent increases in OAR dose above 2% only occurred in three cases, each for a single OAR. All cases had at least two fractions with one or more constraint violations. However, in nearly all instances, constraints were still met in the summation plan despite multiple single-fraction violations.ConclusionDaily ART on a 1.5T MR-linac using an on-line ATP workflow is safe and clinically feasible for HNC and results in delivered doses consistent with planned doses.
Temporal placental genome wide expression profiles reflect three phases of utero-placental blood flow during early to mid human gestation
Authors: Breen James , McAninch Dale , Jankovic-Karasoulos Tanja , McCullough Dylan , Smith Melanie D , Bogias K Justinian , Wan Qianhui , Choudhry Awais , Hin Nhi , Pederson Stephen M , Bianco-Miotto Tina , Roberts Claire T 
Published: June 2020

AbstractDuring early human placental development, extravillous cytotrophoblasts (EVT) invade the uterine vasculature to sequester a maternal blood supply. The impact of this on placental gene expression has not been established for normal pregnancy. Using RNA sequencing, we profiled placental chorionic villous tissues from 96 pregnancies at 6-23 weeks of gestation. We identified 1,048 genes that were differentially expressed between 6-10 weeks’ and 11-23 weeks’ of gestation. These are predominantly genes that are enriched in transcription factor signalling, inflammatory response and cell adhesion. Using a co-expression network and gene set enrichment analyses, we reveal three distinct phases of gene expression coincident with phases of maternal blood flow to the placenta that impact immune function and are likely driven by oxygen tension, potentially in a sex-specific manner. These data represent a comprehensive transcriptional profile of early placental development and point to significant environmental, genetic and regulatory triggers that drive gene expression.