Miracle-dz/UniFAR-FTUs huggingface dataset:
Lessons learnt in building VO resources: binding together several VO standards into an operational service

The International Virtual Observatory Alliance (IVOA) developed numerous interoperability standards during the last several years. Most of them are quite simple to implement from the technical point of view and even contain "SIMPLE" in the title. Does it mean that it is also simple to build a working VO resource using those standards? Yes and no. "Yes" because the standards are indeed simple, and "no" because usually one needs to implement a lot more than it was thought in the beginning of the project so the time management of the team becomes difficult. In our presentation we will start with a basic case of a simple spectral data collection. Then we will describe several examples of small" technologically advanced VO resources built in CDS and VO-Paris and will show that many standards are hidden from managers' eyes at the initial stage of the project development. The projects will be: (1) the GalMer database providing access to the results of numerical simulations of galaxy interactions; (2) the full spectrum fitting service that allows one to extract internal kinematics and stellar populations from spectra of galaxies available in the VO. We conclude that: (a) with the existing set of IVOA standards one can already build very advanced VO-enabled archives and tools useful for scientists; (b) managers have to be very careful when estimating the project development timelines for VO-enabled resources.
Seasonal and regional characterization of horizontal stirring in the global ocean

Recent work on Lagrangian descriptors has shown that Lyapunov Exponents can be applied to observed or simulated data to characterize the horizontal stirring and transport properties of the oceanic flow. However, a more detailed analysis of regional dependence and seasonal variability was still lacking. In this paper, we analyze the near-surface velocity field obtained from the Ocean general circulation model For the Earth Simulator (OFES) using Finite-Size Lyapunov Exponents (FSLE). We have characterized regional and seasonal variability. Our results show that horizontal stirring, as measured by FSLEs, is seasonally-varying, with maximum values in Summer time. FSLEs also strongly vary depending on the region: we have first characterized the stirring properties of Northern and Southern Hemispheres, then the main oceanic basins and currents. We have finally studied the relation between averages of FSLE and some Eulerian descriptors such as Eddy Kinetic Energy (EKE) and vorticity (w) over the different regions.
Molecule sublimation as a tracer of protostellar accretion: Evidence for accretion bursts from high angular resolution C18O images

The accretion histories of embedded protostars are an integral part of descriptions of their physical and chemical evolution. In particular, are the accretion rates smoothly declining from the earlier toward later stages or in fact characterized by variations such as intermittent bursts? We aim to characterize the impact of possible accretion variations in a sample of embedded protostars by measuring the size of the inner regions of their envelopes where CO is sublimated and relate those to their temperature profiles dictated by their current luminosities. Using observations from the Submillimeter Array we measure the extents of the emission from the C18O isotopologue toward 16 deeply embedded protostars. We compare these measurements to the predicted extent of the emission given the current luminosities of the sources through dust and line radiative transfer calculations. Eight out of sixteen sources show more extended C18O emission than predicted by the models. The modeling shows that the likely culprit for these signatures is sublimation due to increases in luminosities of the sources by about a factor five or more during the recent 10,000 years - the time it takes for CO to freeze-out again on dust grains. For four of those sources the increase would have had to have been a factor 10 or more. The compact emission seen toward the other half of the sample suggests that C18O only sublimates when the temperature exceeds 30 K - as one would expect if CO is mixed with H2O in the grain ice-mantles. The small-number statistics from this survey suggest that protostars undergo significant bursts about once every 20,000 years. This also illustrates the importance of taking the physical evolutionary histories into account for descriptions of the chemical structures of embedded protostars.
Decoupling of the superconducting and magnetic/structural phase transitions in electron-doped BaFe2As2

Study and comparison of over 30 examples of electron-doped BaFe{sub 2}As{sub 2} for transition metal (TM) = Co, Ni, Cu, and (Co/Cu mixtures) have led to an understanding that the suppression of the structural/antiferromagnetic phase transition to low-enough temperature in these compounds is a necessary condition for superconductivity but not a sufficient one. Whereas the structural/antiferromagnetic transitions are suppressed by the number of TM dopant ions (or changes in the c axis) the superconducting dome exists over a limited range of values of the number of valence electrons added by doping (or values of the a/c ratio). By choosing which combination of dopants is used we can change the relative positions of the upper phase lines and the superconducting dome, even to the extreme limit of suppressing the upper structural and magnetic phase transitions without the stabilization of a lower-temperature superconducting dome.
Quality of life in children with diseases causing central airway obstruction: Reliability and validity of the TAPQOL questionnaire

The aim of this study was to analyse the psychometric performance (reliability and validity) of the TAPQOL questionnaire in measuring the global quality of life in children with central airway obstruction (CAO), which encompasses pathologies with a low prevalence that have a common anatomical or functional affectation.
Recent advances in enzymatic biosensors for point‐of‐care detection of biomolecules

Late state‐of‐the‐art analytical methodologies in chromatography, spectroscopy, and electroanalysis have been developed to meet the challenges of changing environmental and health issues. The modern trends in developing new protocols emphasize economic, portable, nano, or even smaller sample sizes and less time‐consuming processes. This has led to the development of technology‐based biosensors which meet most of the above requirements. The lab‐on‐chip technology exploiting enzyme‐based biosensors has made the analytical processes very efficient, accurate, affordable, and requiring nano‐scale sample sizes. In this review, an attempt is being made to review the literature based on state‐of‐the‐art technology of enzyme‐based biosensors for the detection of biomolecules.
Heliox simulations for initial management of congenital laryngotracheal stenosis

Congenital laryngotracheal stenosis is rare, potentially severe, and difficult to manage. Heliox is a medical gas effective in obstructive airway pathologies, given its physical properties. This study aims to model the interest of Heliox in reducing the respiratory work in congenital laryngotracheal stenosis, using numerical fluid flow simulations, before considering its clinical use.
Multilevel Method for Turbulence Energy Spectrum Estimation by Compressive Sampling

Recent developments in signal processing called Compressive Sampling (CS) show that the measurement and reconstruction of sparse signals often requires fewer samples than is estimated by the sampling theorem. CS is a combination of a linear sampling scheme and a reconstruction method and, typically, the signal is assumed to be sparse, compressible, or having a prior distribution, with the reconstruction error measured in the `2 norm. This thesis investigates the application of CS to turbulence signals, particularly for estimating some statistics or nonlinear functions of the signals. The main original research result of the thesis is a proposed method, Spectrum Estimation by Sparse Optimization (SpESO), which uses a priori information about isotropic homogeneous turbulent flows and the multilevel structure of wavelet transforms to reconstruct energy spectra from compressive measurements, with errors measured on a logarithmic scale. The method is tested numerically on a variety of 1D and 2D turbulence signals, and is able to approximate energy spectra with an order of magnitude fewer samples than with traditional fixed rate sampling. The results demonstrate that SpESO performs much better than Lumped Orthogonal Matching Pursuit (LOMP), and as well or better than wavelet-based best M -term methods in many cases, even though these methods require complete sampling of the signal before compression.
Computational methods to explore chromatin state dynamics

Abstract The human genome is marked by several singular and combinatorial histone modifications that shape the different states of chromatin and its three-dimensional organization. Genome-wide mapping of these marks as well as histone variants and open chromatin regions is commonly carried out via profiling DNA–protein binding or via chromatin accessibility methods. After the generation of epigenomic datasets in a cell type, statistical models can be used to annotate the noncoding regions of DNA and infer the combinatorial histone marks or chromatin states (CS). These methods involve partitioning the genome and labeling individual segments based on their CS patterns. Chromatin labels enable the systematic discovery of genomic function and activity and can label the gene body, promoters or enhancers without using other genomic maps. CSs are dynamic and change under different cell conditions, such as in normal, preneoplastic or tumor cells. This review aims to explore the available computational tools that have been developed to capture CS alterations under two or more cellular conditions.
Don’t stop focusing when it gets harder! The positive effects of focused attention on affective experience at high intensities

ABSTRACT Experiencing negative affect during exercise partially explains high levels of physical inactivity. An important direction for research is to better understand how and why interindividual differences in affective experiences occur while exercising. The dual-mode theory suggests that the interaction of cognitive processes and interoceptive cues influence the affective response. Hence, attentional control in form of adopting an external or internal attentional focus could lead to different affective responses depending on intensity. This study examines possible interactions between self-selected running intensities and attentional focus on affect. Fifty-eight inexperienced runners (30.14 ± 9.19 years; 38% female) ran 9 × 3 min outdoors around a large pond. While running at three intensities, they were instructed to focus on their breathing, on the environment, or did not receive an instruction. Dependent measures were affect, heart rate, and speed. The results revealed a significant interaction between attentional focus and intensity on affect (p = .01, η2 p = .08). At subjectively perceived light intensity, participants’ affective outcomes benefit from non-focusing attention, whereas during hard intensity the opposite seems helpful: to focus on breathing or to the environment. These findings shed new light on the interaction of focusing attention and running intensity to improve the affective experience.
Leveraging machine learning to ascertain the implications of preoperative body mass index on surgical outcomes for 282 patients with preoperative obesity and lumbar spondylolisthesis in the Quality Outcomes Database.

OBJECTIVE Prior studies have revealed that a body mass index (BMI) ≥ 30 is associated with worse outcomes following surgical intervention in grade 1 lumbar spondylolisthesis. Using a machine learning approach, this study aimed to leverage the prospective Quality Outcomes Database (QOD) to identify a BMI threshold for patients undergoing surgical intervention for grade 1 lumbar spondylolisthesis and thus reliably identify optimal surgical candidates among obese patients. METHODS Patients with grade 1 lumbar spondylolisthesis and preoperative BMI ≥ 30 from the prospectively collected QOD lumbar spondylolisthesis module were included in this study. A 12-month composite outcome was generated by performing principal components analysis and k-means clustering on four validated measures of surgical outcomes in patients with spondylolisthesis. Random forests were generated to determine the most important preoperative patient characteristics in predicting the composite outcome. Recursive partitioning was used to extract a BMI threshold associated with optimal outcomes. RESULTS The average BMI was 35.7, with 282 (46.4%) of the 608 patients from the QOD data set having a BMI ≥ 30. Principal components analysis revealed that the first principal component accounted for 99.2% of the variance in the four outcome measures. Two clusters were identified corresponding to patients with suboptimal outcomes (severe back pain, increased disability, impaired quality of life, and low satisfaction) and to those with optimal outcomes. Recursive partitioning established a BMI threshold of 37.5 after pruning via cross-validation. CONCLUSIONS In this multicenter study, the authors found that a BMI ≤ 37.5 was associated with improved patient outcomes following surgical intervention. These findings may help augment predictive analytics to deliver precision medicine and improve prehabilitation strategies.
Dynamics of metabolism and regulation of epigenetics during cardiomyocytes maturation

Maturation is the last step of heart growth that prepares the organ over the lifetime of the mammal for powerful, effective, and sustained pumping. Structural, gene expression, physiological, and functional specialties of cardiomyocytes describe this mechanism as the heart transits from fetus to adult phases. The main cornerstones of maturation of cardiomyocytes are reviewed and primary regulatory mechanisms are summarized to facilitate and organize these cellular activities. During embryonic development, cardiomyocytes proliferate rigorously but leave the cell cycle permanently immediately after the parturition of the child and experience terminal differentiation. The activation of a host of genes specific for the mature heart is correlated with the exit from the cell cycle. Even when exposed to mitogenic stimuli, the bulk of mature cardiomyocytes do not re‐join the cell cycle. The reason for this permanent exit from the cell cycle is shown to be linked with stable switching off of the genes of the cell cycle directly involved in the G2/M transition phase and cytokinesis development. Researchers also trying to explain the molecular mechanism involved in stable inhibition of the gene and described structural changes (epigenetic and chromatin) in this mechanism. Substantial developments in the future with advances in the scientific platforms used for cardiomyocyte maturation research will broaden our understanding of this mechanism and result in better maturation of cardiomyocyte‐derived pluripotent stem cells and effective treatment approaches for cardiovascular diseases.
N-body simulation of a clumpy torus: application to active galactic nuclei

The gravitational properties of a torus are investigated. It is shown that a torus can be formed from test particles orbiting in the gravitational field of a central mass. In this case, a toroidal distribution is achieved because of the significant spread of inclinations and eccentricities of the orbits. To investigate the self-gravity of the torus we consider the N-body problem for a torus located in the gravitational field of a central mass. It is shown that in the equilibrium state the cross-section of the torus is oval with a Gaussian density distribution. The dependence of the obscuring efficiency on torus inclination is found.
THE STAR-FORMING GALAXY CONTRIBUTION TO THE COSMIC MeV AND GeV GAMMA-RAY BACKGROUND

Star-forming galaxies could be major contributors to the cosmic GeV γ-ray background, and they are expected to be MeV-dim because of the “pion bump” falling off below ∼100 MeV. However, there are very few observations of galaxies in the MeV range and other emission processes could be present. We investigate the MeV background from star-forming galaxies by running one-zone models of cosmic ray populations, including inverse Compton and bremsstrahlung, as well as nuclear lines (including 26Al), emission from core-collapse supernovae, and positron annihilation emission, in addition to the pionic emission. We use the Milky Way and M82 as templates of normal and starburst galaxies and compare our models to radio and GeV–TeV γ-ray data. We find that (1) higher gas densities in high-z normal galaxies lead to a strong pion bump, (2) starbursts may have significant MeV emission if their magnetic field strengths are low, and (3) cascades can contribute to the MeV emission of starbursts if they emit mainly hadronic γ-rays. Our fiducial model predicts that most of the unresolved GeV background is from star-forming galaxies, but this prediction is uncertain by an order of magnitude. About ∼2% of the claimed 1 MeV background is diffuse emission from star-forming galaxies; we place a firm upper limit of ≲ 10% based on the spectral shape of the background. The star formation contribution is constrained to be small because its spectrum is peaked, while the observed background is steeply falling with energy through the MeV–GeV range.
Learning from COVID‐19: Cross‐sectional e‐survey of critical care nurses' satisfaction and experiences of their role in the pandemic response across the United Kingdom

Abstract Background Since the start of the global COVID‐19 pandemic in 2019, critical care nurses across the world have been working under extreme levels of pressure. Aim To understand critical care nurses' experiences of and satisfaction with their role in the pandemic response across the United Kingdom (UK). Study Design A cross‐sectional electronic survey of critical care nurses (n = 339) registered as members of the British Association of Critical Care Nurses. Anonymous quantitative and open‐ended question data were collected in March and April 2021 during the height of the second surge of COVID‐19 in the UK via an online questionnaire. Quantitative data were analysed using descriptive statistics and free text responses were collated and analysed thematically. Results There was a response rate of 17.5%. Critical care nurses derived great satisfaction from making a difference during this global crisis and greatly valued teamwork and support from senior nurses. However, nurses consistently expressed concern over the quality of safe patient care, which they perceived to be suboptimal due to staff shortages and a dilution of the specialist skill mix. Together with the high volume of patient deaths, critical care nurses reported that these stressors influenced their personalwell‐being. Conclusions This study provides insights into the key lessons health care leaders must consider when managing the response to the demands and challenges of the ongoing COVID‐19 pandemic. COVID‐19 is unpredictable in its course, and what future variants might mean in terms of transmissibility, severity and resultant pressures to critical care remains unknown. Relevance to Clinical Practice Future responses to the challenges that critical care faces must consider nurses' experiences and create an environment that engenders supportive teamwork, facilitates excellent nursing practice and effective safe patient care where critical care nursing may thrive.
Multilevel Methods for the Poisson-Boltzmann Equation

We consider the numerical solution of the Poisson-Boltzmann equation (PBE), a three-dimensional second order nonlinear elliptic partial differential equation arising in biophysics. This problem has several interesting features impacting numerical algorithms, including discontinuous coefficients representing material interfaces, rapid nonlinearities, and three spatial dimensions. Similar equations occur in various applications, including nuclear physics, semiconductor physics, population genetics, astrophysics, and combustion. In this thesis, we study the PBE, discretizations, and develop multilevel-based methods for approximating the solutions of these types of equations. We first outline the physical model and derive the PBE, which describes the electrostatic potential of a large complex biomolecule lying in a solvent. We next study the theoretical properties of the linearized and nonlinear PBE using standard function space methods; since this equation has not been previously studied theoretically, we provide existence and uniqueness proofs in both the linearized and nonlinear cases. We also analyze box-method discretizations of the PBE, establishing several properties of the discrete equations which are produced. In particular, we show that the discrete nonlinear problem is well-posed. We study and develop linear multilevel methods for interface problems, based on algebraic enforcement of Galerkin or variational conditions, and on coefficient averaging procedures. Using a stencil calculus, we show that in certain simplified cases the two approaches are equivalent, with different averaging procedures corresponding to different prolongation operators. We also develop methods for nonlinear problems based on a nonlinear multilevel method, and on linear multilevel methods combined with a globally convergent damped-inexact-Newton method. We derive a necessary and sufficient descent condition for the inexact-Newton direction, enabling the development of extremely efficient yet robust damped-inexact-Newton-multilevel methods. Multilevel convergence theory is discussed, and we adapt and apply some recent results to the Galerkin-based methods. Numerical results are presented for several test problems, including a nonlinear PBE calculation of the electrostatic potential of Superoxide Dismutase, an enzyme which has recently been linked to Lou Gehrig''s disease. We present a collection of performance statistics and benchmarks for the linear and nonlinear methods on a number of sequential and parallel computers, and discuss the software developed in the course of the research.
Biallelic ADAMTSL4 variants in a Chinese cohort of congenital ectopia lentis: Implications for genotype–phenotype relationships

ADAMTSL4 variants are one of the common causes of congenital ectopia lentis (EL), reported ocular comorbidities of which include iris anomalies, cataract, and glaucoma. However, a genotype–phenotype correlation has not been established. Potentially pathogenic ADAMTSL4 variants were screened from a Chinese cohort of congenital EL using panel‐based next‐generation sequencing followed by multiple bioinformatics analyses. The genotype–phenotype correlation was assessed via a systematic review of ADAMTSL4 variants within our data and those from the literature. A total of 12 variants of ADAMTSL4, including seven frameshift variants, one nonsense variant, two splicing variants, and two missense variants, were found in nine probands. Combing genetic and clinical information from 72 probands in the literature revealed 37 ADAMTSL4 variants known to cause EL, and the ethnic difference was prominent. The lens was inclined to dislocate inferior temporally (22, 27.16%), while the pupil was always located oppositely (9, 81.82%). Several anterior segments anomalies were identified, including ectopia pupillae (15, 18.52%), persistent pupillary membrane (9, 11.10%), poor pupil dilation (4, 30.8%), cataract (13, 24.10%), and glaucoma (8, 13.33%). Genotype–phenotype analysis revealed that truncation variants had higher risks of combined iris anomalies, including either ectopia pupillae or a persistent pupillary membrane (p = 0.007). The data from this study not only extend our knowledge of the ADAMTSL4 variant spectrum but also suggest that deleterious variants of ADAMTSL4 might be associated with severe ocular phenotypes.