bluuebunny/crossref_metadata_2025_split huggingface dataset:
Unsupervised machine learning for the classification of astrophysical X-ray sources
Authors: Pérez-Díaz Víctor Samuel , Martínez-Galarza Juan Rafael , Caicedo Alexander , D’Abrusco Raffaele 
Published: January 2024

ABSTRACT
The automatic classification of X-ray detections is a necessary step in extracting astrophysical information from compiled catalogues of astrophysical sources. Classification is useful for the study of individual objects, statistics for population studies, as well as for anomaly detection, that is, the identification of new unexplored phenomena, including transients and spectrally extreme sources. Despite the importance of this task, classification remains challenging in X-ray astronomy due to the lack of optical counterparts and representative training sets. We develop an alternative methodology that employs an unsupervised machine learning approach to provide probabilistic classes to Chandra Source Catalog sources with a limited number of labelled sources, and without ancillary information from optical and infrared catalogues. We provide a catalogue of probabilistic classes for 8756 sources, comprising a total of 14 507 detections, and demonstrate the success of the method at identifying emission from young stellar objects, as well as distinguishing between small- and large-scale compact accretors with a significant level of confidence. We investigate the consistency between the distribution of features among classified objects and well-established astrophysical hypotheses such as the unified active galactic nucleus model. This provides interpretability to the probabilistic classifier. Code and tables are available publicly through GitHub. We provide a web playground for readers to explore our final classification at https://umlcaxs-playground.streamlit.app.
The miniJPAS survey. Multiwavelength exploration of detected Extreme Emission Line Galaxies
Authors: Breda Iris , Amarantidis Stergios , Vilchez José M , Pérez-Montero Enrique , Kehrig Carolina , Iglesias-Páramo Jorge , Arroyo-Polonio Antonio , Fernández-Ontiveros Juan A , Delgado Rosa M González , Díaz-García Luis A , Abramo Raul , Alcaniz Jailson , Benítez Narciso , Bonoli Silvia , Cenarro Javier A , Cristóbal-Hornillos David , Dupke Renato , Ederoclite Alessandro , Hernán-Caballero Antonio , López-Sanjuan Carlos , Marín-Franch Antonio , de Oliveira Claudia Mendes , Moles Mariano , Sodré Laerte , Taylor Keith , Varela Jesús , Vázquez-Ramió Héctor 
Published: January 2024

ABSTRACT
Extreme Emission Line Galaxies (EELGs) stand as remarkable objects due to their extremely metal poor environment and intense star formation. Considered as local analogues of high-redshift galaxies in the peak of their star-forming activity, they offer insights into conditions prevalent during the early Universe. Assessment of their stellar and gas properties is therefore of critical importance, which requires the assembly of a considerable sample, comprehending a broad redshift range. The Javalambre-Physics of the Accelerating Universe Astrophysical Survey (JPAS) plays a significant role in assembling such a sample, encompassing ∼8000 $\rm deg^2$ and employing 54 narrow-band optical filters. The present work describes the development and subsequent application of the tools that will be employed in the forthcoming JPAS spectrophotometric data, allowing for the massive and automated characterization of EELGs that are expected to be identified. This fully automated pipeline (requiring only the object coordinates from users) constructs Spectral Energy Distributions (SEDs) by retrieving virtually all the available multiwavelength photometric data archives, employs SED fitting tools, and identifies optical emission lines. It was applied to the sample of extreme line emitters identified in the miniJPAS Survey, and its derived physical properties such as stellar mass and age, coupled with fundamental relations, mirror results obtained through spectral modelling of SDSS spectra. Thorough testing using galaxies with documented photometric measurements across different wavelengths confirmed the pipeline’s accuracy, demonstrating its capability for automated analysis of sources with varying characteristics, spanning brightness, morphology, and redshifts. The modular nature of this pipeline facilitates any addition from the user.
Chandra/HETG Doppler velocity measurements in stellar coronal sources
Authors: Bozzo E , Huenemoerder D P , Falanga M , Paltani S , Costantini E , de Plaa J , Gu L 
Published: January 2024

ABSTRACT
Stellar coronal sources have been observed in the past not only for their astrophysical interest in the field of binary system evolution and interaction but also for their invaluable roles as benchmarks for plasma spectral models and as calibration sources for high resolution spectroscopic X-ray instruments. These include the gratings on-board Chandra and XMM-Newton, as well as the new generation of high resolution capable-detectors recently flown on-board XRISM and planned for the future also onboard the Athena and the LEM missions. In our previous paper exploiting Chandra/HETG observations of the prototypical coronal source Capella, it has been shown that the centroid energies of the many X-ray emission lines detected in the spectrum of this object change as a function of time due to the Doppler modulation within the binary. This is an effect that needs to be corrected while performing calibrations of high-resolution X-ray instruments. In this paper, we extend our previous work on Capella to other known stellar coronal sources that have been observed with the Chandra/HETG (11 objects in total). We measure in several objects clear trends in the velocity shifts along the orbit of the primary star, meaning that in these sources one of the two star components is largely dominating the high energy emission. In a number of systems the trend in the velocity shift is not obvious. This can be ascribed to the fact that both stellar components contribute significantly to the X-ray emission.
The contribution of massive haloes to the matter power spectrum in the presence of AGN feedback
Authors: van Loon M L , van Daalen Marcel P 
Published: January 2024

ABSTRACT
The clustering of matter, as measured by the matter power spectrum, informs us about cosmology, dark matter, and baryonic effects on the distribution of matter in the universe. Using cosmological hydrodynamical simulations from the cosmo-OWLS and BAHAMAS simulation projects, we investigate the contribution of power in haloes with various masses, to the full power spectrum, as well as the power ratio between baryonic and dark matter only (DMO) simulations for a matched (between simulations) and an unmatched set of haloes. We find that the presence of AGN feedback suppresses the power on all scales for haloes of all masses examined (1011.25 ≤ M500, crit ≤ $10^{14.75}\, \mathrm{M_\odot }/h$), by ejecting matter from within $r_{500,\mathrm{c}}\,$ to $r_{200,\mathrm{m}}\,$ and potentially beyond in massive haloes (M500, crit ≳ $10^{{13}}\, \mathrm{M_\odot }/h$), and likely impeding the growth of lower-mass haloes as a consequence. A lower AGN feedback temperature changes the behaviour of high-mass haloes (M500, crit ≥ $10^{{13.25}}\, \mathrm{M_\odot }/h$), damping the effects of AGN feedback at small scales, $k\, {{\gtrsim }}\, {{4}}\, h\mathrm{\, Mpc^{-1}}$. For $k\, {{\lesssim }}\, {{3}}\, h\mathrm{\, Mpc^{-1}}$, group-sized haloes ($10^{{14\pm 0.25}}\, \mathrm{M_\odot }/h$) dominate the power spectrum, while on smaller scales the combined contributions of lower-mass haloes to the full power spectrum rise above that of the group-sized haloes. Finally, we present a model for the power suppression due to feedback, which combines observed mean halo baryon fractions with halo mass fractions and halo-matter cross-spectra extracted from DMO simulations to predict the power suppression to per cent level accuracy down to $k\, {{\approx }}\, {{10}}\, h\mathrm{\, Mpc^{-1}}$ without any free parameters.
Long-term outcome of kidney function in patients with ANCA-associated vasculitis
Authors: Sanchez-Alamo Beatriz , Moi Laura , Bajema Ingeborg , Berden Annelies , Flossmann Oliver , Hruskova Zdenka , Jayne David , Wester-Trejo Maria , Wallquist Carin , Westman Kerstin 
Published: January 2024

ABSTRACT

Background
Kidney involvement is common in anti-neutrophil cytoplasm antibody–associated vasculitis (AAV) and the prognosis is determined by the severity of kidney damage. This study focused on long-term kidney outcomes, defining possible risk factors and comparing the performance of three different histological classifications to predict outcomes for patients with AAV.

Methods
The dataset included 848 patients with newly diagnosed AAV who participated in seven randomized controlled trials (RCTs) (1995–2012). Follow-up information was obtained from questionnaires sent to the principal investigators of the original RCTs.

Results
The cumulative incidence of end-stage kidney disease (ESKD) at 5 and 10 years was 17% and 22%, respectively. Patients who developed ESKD had reduced patient survival compared with those with preserved kidney function (hazard ratio 2.8, P &lt; .001). Comparing patients with AAV and kidney involvement with a matched general population, patients with AAV had poor survival outcomes, even in early stages of chronic kidney disease. The main cause of death was infection followed by cardiovascular disease in patients developing ESKD and malignancy in those who did not. Some 34% of patients with initial need for dialysis recovered kidney function after treatment. Thirty-five out of 175 in need of kidney replacement therapy (KRT) during follow-up received a kidney transplant with good outcome; there was 86% patient survival at 10 years.
In the subcohort of 214 patients with available kidney biopsies, three scoring systems were tested: the Berden classification, the Renal Risk Score and the Mayo Clinic Score. The scores highlighted the importance of normal glomeruli and severe glomerulosclerosis on kidney survival (P &lt; .001 and P = .001, respectively). The Renal Risk Score demonstrated a moderate prediction of kidney survival (area under the curve 0.79; standard error 0.03, 95% confidence interval 0.71–0.83).

Conclusions
Early diagnosis of AAV is extremely important. Even milder forms of kidney involvement have an impact on the prognosis. Patients in need of KRT had the lowest survival rates, but kidney transplantation has shown favorable outcomes for eligible AAV patients. The three histologic scoring systems were all identified as independent prognostic factors for kidney outcome.
Psychometric Properties of the FTCD and Brief WISDM: Support for Validity in a Legal-System-Involved Sample
Authors: Bontemps Andrew P , Piper Megan E , Cropsey Karen L 
Published: January 2024

Abstract

Introduction
The Fagerström test for cigarette dependence (FTCD) and Brief Wisconsin index of smoking dependence motives (WISDM) are widely used measures of smoking dependence. The FTCD was previously found to have 1-factor and 2-factor structures and Brief WISDM has been found to have an 11-factor and 11-factor hierarchical structure. As such, the current study sought to further investigate the psychometric properties of the FTCD and Brief WISDM with a novel criminal-legal system-involved sample using both a factor-analytic and an item response theory (IRT) approach.

Aims and Methods
Data from 517 criminal-legal system-involved adults (ie, 18 years of age or older) who smoke from Alabama, USA were analyzed. Confirmatory factor analyses (CFA) were conducted on 1-factor and 2-factor structures of the FTCD and 1-factor, 11-factor, and 11-factor hierarchical structures of the Brief WISDM. IRT analyses investigating item discrimination and threshold parameters were also conducted on the brief WISDM.

Results
The CFA showed poor fit for a single-factor structure and mixed results for two 2-factor results for the FTCD. CFA also showed poor fit for a single-factor and mixed results for the 11-factor model. Initial IRT investigations using the 11-factor model showed strong item discrimination, but non-ordered threshold parameters.

Conclusions
Two-factor structures for the FTCD and the 11-factor model for the Brief WISDM were partially supported in a criminal-legal population, suggesting continued support for the multidimensional structure of the measures. Additionally, exploratory IRT analyses suggested good discrimination across the use spectrum for the Brief WISDM.

Implications
The Fagerström Test of Cigarette Dependence (FTCD) and Brief Wisconsin index of smoking dependence motives (WISDM) are two widely used measures of nicotine dependence, though previous research has shown mixed results for their internal consistency and factor structure. The current study used a unique sample of criminal-legal-involved participants who generally have moderate to high levels of nicotine dependence. The current study found that the FTCD displayed poor internal consistency, a poor fit for a single-factor model, but mixed support for two two-factor models. The Brief-WISDM was found to have strong internal consistency, a poor fit for a single-factor model, but mixed fit for an 11-factor model and good item discrimination.
Birds that breed exclusively on islands have smaller clutches
Authors: Jezierski Michał T 
Published: January 2024

Abstract
The “island syndrome” refers to similarity in the biology of island organisms, but its generality is questionable, as the scope of species and traits examined are often limited. Here, I show that birds breeding exclusively on islands (breeding island endemics) evolved smaller clutches, using a dataset of 4,530 bird species. Using an inclusive definition of a breeding island endemic, which also encompasses migratory species and seabirds, I examine the evolution of clutch sizes in island breeding species using phylogenetic generalized linear models. Across disparate phylogenetic hypotheses, and after accounting for biological and geographical co-variables, I show that breeding island endemic landbirds (470 species) evolved smaller clutch sizes than continental breeding species (3,818 species). I show that the evolution of clutch size follows the expectations of the island syndrome, as among breeding island endemic landbirds there is a positive relationship between clutch size and breeding range area. Finally, I reinforce the view that the island syndrome is a general pattern in birds, spanning diverse phylogenetic and ecological groups, by showing that in a seabird-only dataset (242 species), breeding island endemic seabirds show evolution of smaller clutch sizes. In a model of the full dataset of both landbirds and seabirds (4,530 species) there was no evidence of an interaction of being a seabird with breeding island endemicity, showing that seabirds and landbirds respond in the same way. This study, using more than 40% of all bird species, provides the first evidence of a general evolutionary response in a life history trait, clearly showing the island syndrome as a general evolutionary tendency associated with island environments.
Rural Decline and Spatial Voting Patterns
Authors: Lago Ignacio , Lago-Peñas Santiago 
Published: January 2024

Abstract
How does rural decline affect electoral politics? A well-known argument is that the growing geographical polarisation of populations between prospering major cities and declining hinterlands is emerging as a cleavage of electoral politics in developed countries. But prior work has focussed on specific outcomes of rural decline rather than examining whether the geographical distribution of political attitudes and behaviours within countries has become more uneven in the last decades. Using a measure of party nationalisation capturing spatial differences in electoral support across districts in OECD countries over the last 60 years, we find that a declining rural population increases differences in the geographical distribution of partisan support within countries. Nationalisation determines a party’s orientation toward distribution of public resources and support for region-specific interests.
Comparing planktonic heliozoan abundance in deep and shallow basins of Lake Biwa: exploring optimal growth temperature, food resources and habitat use
Authors: Yoshida Junya , Deb Soumya , Nakano Shin-ichi 
Published: January 2024

Abstract
Heliozoans are ambush protists that inhabit most limnetic systems. However, ecological information about planktonic heliozoans is still limited. In this study, we investigated seasonal changes in planktonic heliozoan abundance in the deep northern and shallow southern basins of Lake Biwa at pelagic stations between August 2020 and December 2021. We compared planktonic heliozoan abundance levels between the two basins and examined the relationship between heliozoan abundance and environmental variables. In both basins, high levels of planktonic heliozoan abundance were detected in autumn, winter and spring. In the south basin, there was a significant positive correlation between planktonic heliozoan abundance and chlorophyll a concentration as well as the abundance of the diatoms Aulacoseira granulata and Aulacoseira ambigua. These results suggest that planktonic heliozoans directly or indirectly consume diatoms and that heliozoan abundance is subjected to bottom-up control. Furthermore, planktonic heliozoan abundance in the south basin was higher than that in the north basin, possibly due to the presence of waterweeds, which can serve as habitat for heliozoans, and the redistribution of planktonic heliozoans through resuspension from lake bottom sediments.
Polyploid plants take cytonuclear perturbations in stride
Authors: Sloan Daniel B , Conover Justin L , Grover Corrinne E , Wendel Jonathan F , Sharbrough Joel 
Published: January 2024

Abstract
Hybridization in plants is often accompanied by nuclear genome doubling (allopolyploidy), which has been hypothesized to perturb interactions between nuclear and organellar (mitochondrial and plastid) genomes by creating imbalances in the relative copy number of these genomes and producing genetic incompatibilities between maternally derived organellar genomes and the half of the allopolyploid nuclear genome from the paternal progenitor. Several evolutionary responses have been predicted to ameliorate these effects, including selection for changes in protein sequences that restore cytonuclear interactions; biased gene retention/expression/conversion favoring maternal nuclear gene copies; and fine-tuning of relative cytonuclear genome copy numbers and expression levels. Numerous recent studies, however, have found that evolutionary responses are inconsistent and rarely scale to genome-wide generalities. The apparent robustness of plant cytonuclear interactions to allopolyploidy may reflect features that are general to allopolyploids such as the lack of F2 hybrid breakdown under disomic inheritance, and others that are more plant-specific, including slow sequence divergence in organellar genomes and preexisting regulatory responses to changes in cell size and endopolyploidy during development. Thus, cytonuclear interactions may only rarely act as the main barrier to establishment of allopolyploid lineages, perhaps helping to explain why allopolyploidy is so pervasive in plant evolution.
Ectopic assembly of an auxin efflux control machinery shifts developmental trajectories
Authors: Aliaga Fandino Ana Cecilia , Jelínková Adriana , Marhava Petra , Petrášek Jan , Hardtke Christian S 
Published: January 2024

AbstractPolar auxin transport in the Arabidopsis (Arabidopsis thaliana) root tip maintains high auxin levels around the stem cell niche that gradually decrease in dividing cells but increase again once they transition toward differentiation. Protophloem differentiates earlier than other proximal tissues and employs a unique auxin “canalization” machinery that is thought to balance auxin efflux with retention. It consists of a proposed activator of PIN-FORMED (PIN) auxin efflux carriers, the cAMP-, cGMP- and Calcium-dependent (AGC) kinase PROTEIN KINASE ASSOCIATED WITH BRX (PAX); its inhibitor, BREVIS RADIX (BRX); and PHOSPHATIDYLINOSITOL-4-PHOSPHATE-5-KINASE (PIP5K) enzymes, which promote polar PAX and BRX localization. Because of a dynamic PAX–BRX–PIP5K interplay, the net cellular output of this machinery remains unclear. In this study, we deciphered the dosage-sensitive regulatory interactions among PAX, BRX, and PIP5K by their ectopic expression in developing xylem vessels. The data suggest that the dominant collective output of the PAX–BRX–PIP5K module is a localized reduction in PIN abundance. This requires PAX-stimulated clathrin-mediated PIN endocytosis upon site-specific phosphorylation, which distinguishes PAX from other AGC kinases. An ectopic assembly of the PAX–BRX–PIP5K module is sufficient to cause cellular auxin retention and affects root growth vigor by accelerating the trajectory of xylem vessel development. Our data thus provide direct evidence that local manipulation of auxin efflux alters the timing of cellular differentiation in the root.
ETHYLENE RESPONSE FACTOR 070 inhibits flowering in Pak-choi by indirectly impairing BcLEAFY expression
Authors: Yu Zhanghong , Chen Xiaoshan , Li Yan , Shah Sayyed Hamad Ahmad , Xiao Dong , Wang Jianjun , Hou Xilin , Liu Tongkun , Li Ying 
Published: January 2024

Abstract
APETALA2/ethylene responsive factors respond to ethylene and participate in many biological and physiological processes, such as plant morphogenesis, stress resistance, and hormone signal transduction. Ethylene responsive factor 070 (BcERF070) is important in flowering. However, the underlying molecular mechanisms of BcERF070 in floral transition in response to ethylene signaling have not been fully characterized. Herein, we explored the function of BcERF070 in Pak-choi [Brassica campestris (syn. Brassica rapa) ssp. chinensis]. Ethylene treatment induced BcERF070 expression and delayed flowering in Pak-choi. Silencing of BcERF070 induced flowering in Pak-choi. BcERF070 interacted with major latex protein-like 328 (BcMLP328), which forms a complex with helix-loop-helix protein 30 (BcbHLH30) to enhance the transcriptional activity of BcbHLH30 on LEAFY (BcLFY), ultimately promoting flowering. However, BcERF070 impaired the BcMLP328–BcbHLH30 complex activation of LEAFY (BcLFY), ultimately inhibiting flowering in Pak-choi. BcERF070 directly promoted the expression of the flowering inhibitor gene B-box 29 (BcBBX29) and delayed flowering by reducing FLOWERING LOCUS T (BcFT) expression. These results suggest that BcERF070 mediates ethylene-reduced flowering by impairing the BcMLP328–BcbHLH30 complex activation of BcLFY and by directly promoting the gene expression of the flowering inhibition factor BcBBX29 to repress BcFT expression. The findings contribute to understanding the molecular mechanisms underlying floral transition in response to ethylene in plants.
Stability in Large Markets
Authors: Jagadeesan Ravi , Vocke Karolina 
Published: January 2024

Abstract
In matching models, pairwise-stable outcomes do not generally exist without substantial restrictions on both preferences and the topology of the network of contracts. We address the foundations of matching markets by developing a matching model with a continuum of agents that allows for arbitrary preferences and network structures. We show that pairwise-stable outcomes are guaranteed to exist. When agents can interact with multiple other counterparties, pairwise stability is too weak of a solution concept, and we argue that a refinement of it called tree stability is the most appropriate solution concept in this setting. Our main results show that tree-stable outcomes exist for arbitrary preferences and network topologies.