bluuebunny/crossref_metadata_2025_split huggingface dataset:
Delayed appearance and evolution of coronal lines in the TDE AT2019qiz
Authors: Short P , Lawrence A , Nicholl M , Ward M , Reynolds T M , Mattila S , Yin C , Arcavi I , Carnall A , Charalampopoulos P , Gromadzki M , Jonker P G , Kim S , Leloudas G , Mandel I , Onori F , Pursiainen M , Schulze S , Villforth C , Wevers T 
Published: July 2023

ABSTRACT
Tidal disruption events (TDEs) occur when a star gets torn apart by a supermassive black hole as it crosses its tidal radius. We present late-time optical and X-ray observations of the nuclear transient AT2019qiz, which showed the typical signs of an optical-UV transient class commonly believed to be TDEs. Optical spectra were obtained 428, 481, and 828 rest-frame days after optical light-curve peak, and a UV/X-ray observation coincided with the later spectrum. The optical spectra show strong coronal emission lines, including [Fe vii], [Fe x], [Fe xi], and [Fe xiv]. The Fe lines rise and then fall, except [Fe xiv] that appears late and rises. We observe increasing flux of narrow H α and H β and a decrease in broad H α flux. The coronal lines have full width at half-maximum ranging from ∼150−300 km s−1, suggesting they originate from a region between the broad- and narrow-line emitting gas. Between the optical flare and late-time observation, the X-ray spectrum softens dramatically. The 0.3–1 keV X-ray flux increases by a factor of ∼50, while the hard X-ray flux decreases by a factor of ∼6. Wide-field Infrared Survey Explorer fluxes also rose over the same period, indicating the presence of an infrared echo. With AT2017gge, AT2019qiz is one of two examples of a spectroscopically confirmed optical-UV TDE showing delayed coronal line emission, supporting speculations that Extreme Coronal Line Emitters in quiescent galaxies can be echos of unobserved past TDEs. We argue that the coronal lines, narrow lines, and infrared emission arise from the illumination of pre-existing material likely related to either a previous TDE or active galactic nucleus activity.
The occurrence rate of quiescent radio emission for ultracool dwarfs using a generalized semi-analytical Bayesian framework
Authors: Kao Melodie M , Shkolnik Evgenya L 
Published: July 2023

ABSTRACT
We present a generalized analytical Bayesian framework for calculating the occurrence rate of steady emission (or absorption) in astrophysical objects. As a proof-of-concept, we apply this framework to non-flaring quiescent radio emission in ultracool (≤M7) dwarfs. Using simulations, we show that our framework recovers the simulated radio occurrence rate to within 1–5 per cent for sample sizes of 10–100 objects when averaged over an ensemble of trials and simulated occurrence rates for our assumed luminosity distribution models. In contrast, existing detection rate studies may underpredict the simulated rate by 51–66 per cent because of sensitivity limits. Using all available literature results for samples of 82 ultracool M dwarfs, 74 L dwarfs, and 23 T/Y dwarfs, we find that the maximum-likelihood quiescent radio occurrence rate is between $15^{+4}_{-4}$ and $20^{+6}_{-5}$ per cent, depending on the luminosity prior that we assume. Comparing each spectral type, we find occurrence rates of $17^{+9}_{-7}$–$25^{+13}_{-10}$ per cent for M dwarfs, $10^{+5}_{-4}$–$13^{+7}_{-5}$ per cent for L dwarfs, and $23^{+11}_{-9}$–$29^{+13}_{-11}$ per cent for T/Y dwarfs. We rule out potential selection effects and speculate that age and/or rotation may account for tentative evidence that the quiescent radio occurrence rate of L dwarfs may be suppressed compared to M and T/Y dwarfs. Finally, we discuss how we can harness our occurrence rate framework to carefully assess the possible physics that may be contributing to observed occurrence rate trends.
Mapping the milky way’s stellar halo with 2D data
Authors: Chen Anda , Li Zhigang , Wang Yougang , Gong Yan , Chen Xuelei , Long Richard J 
Published: July 2023

ABSTRACT
We propose a new method for measuring the spatial density distribution of the stellar halo of the Milky Way. Our method is based on a pairwise statistic of the distribution of stars in the sky, the angular two-point correlation function (ATPCF). The ATPCF utilizes two-dimensional data of stars only and is therefore immune to the large uncertainties in the determination of distances to stars. We test our method using mock stellar data coming from various models including the single power-law (SPL) and the broken power-law (BPL) density profiles. We also test the influence of axisymmetric flattening factors using both constant and varying values. We find that the ATPCF is a powerful tool for recovering the spatial distributions of the stellar haloes in our models. We apply our method to observational data from the type ab RR Lyrae catalogue in the Catalina Survey Data Release 1. In the 3-parameter BPL model, we find that $s_{1}=2.46_{-0.20}^{+0.18}, s_{2}=3.99_{-1.33}^{+0.75}$, and $r_{0}=31.11_{-5.88}^{+7.61}$, which are in good agreement with previous results. We also find that introducing an extra parameter, the radially varying flattening factor, greatly improves our ability to model accurately the observed data distribution. This implies perhaps that the stellar halo of the Milky Way should be regarded as oblate.
CCR4 predicts the efficacy of abatacept in rheumatoid arthritis patients through the estimation of Th17 and Treg cell abundance
Authors: Tanaka Shigeru , Etori Keishi , Hattori Koto , Tamura Jun , Ikeda Kei , Kageyama Takahiro , Meguro Kazuyuki , Iwamoto Taro , Iwata Arifumi , Furuta Shunsuke , Suto Akira , Suzuki Kotaro , Nakajima Hiroshi 
Published: July 2023

ABSTRACT

Objectives
Predicting the efficacy of biological disease–modifying antirheumatic drugs is challenging. In this study, we aimed to explore markers that predict the efficacy of abatacept in rheumatoid arthritis (RA) patients.

Methods
Thirty RA patients receiving abatacept were recruited, and peripheral blood mononuclear cells from the participants were subjected to DNA microarray analysis. The expression of CC chemokine receptor 4 (CCR4), which was selected by the result of DNA microarray, was determined by flow cytometry in 16 newly diagnosed treatment-naïve RA patients. CCR4 expression on each helper T-cell subset was also measured.

Results
CCR4 was upregulated in the abatacept responder. The expression levels of CCR4 were significantly correlated with the improvement of the Clinical Disease Activity Index. CCR4 expression was predominantly observed in CD4+ T cells in peripheral blood mononuclear cells. The percentage of CCR4-expressing CD4+ T cells was significantly higher in RA patients than in healthy individuals. Interestingly, Th17 and Treg cells expressed high levels of CCR4 compared to non-Th17-related helper T cells.

Conclusions
CCR4 is a Th17- and Treg-related gene, and the high CCR4 expression in peripheral blood samples may predict the efficacy of abatacept in RA.
Detecting intragenic trans-splicing events from non-co-linearly spliced junctions by hybrid sequencing
Authors: Chen Yu-Chen , Chen Chia-Ying , Chiang Tai-Wei , Chan Ming-Hsien , Hsiao Michael , Ke Huei-Mien , Tsai Isheng Jason , Chuang Trees-Juen 
Published: July 2023

Abstract
Trans-spliced RNAs (ts-RNAs) are a type of non-co-linear (NCL) transcripts that consist of exons in an order topologically inconsistent with the corresponding DNA template. Detecting ts-RNAs is often interfered by experimental artifacts, circular RNAs (circRNAs) and genetic rearrangements. Particularly, intragenic ts-RNAs, which are derived from separate precursor mRNA molecules of the same gene, are often mistaken for circRNAs through analyses of RNA-seq data. Here we developed a bioinformatics pipeline (NCLscan-hybrid), which integrated short and long RNA-seq reads to minimize false positives and proposed out-of-circle and rolling-circle long reads to distinguish between intragenic ts-RNAs and circRNAs. Combining NCLscan-hybrid screening and multiple experimental validation steps successfully confirmed that four NCL events, which were previously regarded as circRNAs in databases, originated from trans-splicing. CRISPR-based endogenous genome modification experiments further showed that flanking intronic complementary sequences can significantly contribute to ts-RNA formation, providing an efficient/specific method to deplete ts-RNAs. We also experimentally validated that one ts-RNA (ts-ARFGEF1) played an important role for p53-mediated apoptosis through affecting the PERK/eIF2a/ATF4/CHOP signaling pathway in breast cancer cells. This study thus described both bioinformatics procedures and experimental validation steps for rigorous characterization of ts-RNAs, expanding future studies for identification, biogenesis, and function of these important but understudied transcripts.
NAT10-mediated N4-acetylcytidine mRNA modification regulates self-renewal in human embryonic stem cells
Authors: Liu Rucong , Wubulikasimu Zibaguli , Cai Runze , Meng Fanyi , Cui Qinghua , Zhou Yuan , Li Yang 
Published: July 2023

Abstract
NAT10-catalyzed N4-acetylcytidine (ac4C) has emerged as a vital post-transcriptional modulator on the coding transcriptome by promoting mRNA stability. However, its role in mammalian development remains unclear. Here, we found that NAT10 expression positively correlates with pluripotency in vivo and in vitro. High throughput ac4C-targeted RNA immunoprecipitation sequencing (ac4C-RIP-seq), NaCNBH3-based chemical ac4C sequencing (ac4C-seq) and liquid chromatography-tandem mass spectrometry (LC–MS/MS) assays revealed noticeable ac4C modifications in transcriptome of hESCs, among which transcripts encoding core pluripotency transcription factors are favorable targets of ac4C modification. Further validation assays demonstrate that genetic inactivation of NAT10, the ac4C writer enzyme, led to ac4C level decrease on target genes, promoted the core pluripotency regulator OCT4 (POU5F1) transcript decay, and finally impaired self-renewal and promoted early differentiation in hESCs. Together, our work presented here elucidates a previously unrecognized interconnectivity between the core pluripotent transcriptional network for the maintenance of human ESC self-renewal and NAT10-catalyzed ac4C RNA epigenetic modification.
4Disability Studies
Authors: Dilodovico Amanda 
Published: July 2023

AbstractThis review of disability studies literature published in 2022 examines the field’s current investment in points of departure from ableist and neurotypical access to communication, work, and care. Such topics have been central to practices and theoretical concepts within disability justice movements, the neurodiversity movement, and the space of disability studies scholarship for at least the past fifteen years. While the literature surveyed in this review builds on that corpus, it is also imbued, whether explicitly or implicitly, with the continuing effects of the Covid-19 pandemic, the rhetorical impacts of the 2020 US presidential election and the responses or lack thereof to the longstanding accessibility needs of disabled and neurodivergent populations illuminated through global lockdowns. The review considers Akemi Nishida’s Just Care: Messy Entanglements of Disability, Dependency and Desire, Joshua St. Pierre’s Cheap Talk: Disability and the Politics of Communication, and the spring 2022 special issue on ‘Sex Work and Disability’ from Disability Studies Quarterly.
A tenuis relationship: traditional taxonomy obscures systematics and biogeography of the ‘Acropora tenuis’ (Scleractinia: Acroporidae) species complex
Authors: Bridge Tom C L , Cowman Peter F , Quattrini Andrea M , Bonito Victor E , Sinniger Frederic , Harii Saki , Head Catherine E I , Hung Julia Y , Halafihi Tuikolongahau , Rongo Teina , Baird Andrew H 
Published: July 2023

Abstract
Molecular phylogenetics has fundamentally altered our understanding of the taxonomy, systematics and biogeography of corals. Recently developed phylogenomic techniques have started to resolve species-level relationships in the diverse and ecologically important genus Acropora, providing a path to resolve the taxonomy of this notoriously problematic group. We used a targeted capture dataset (2032 loci) to investigate systematic relationships within an Acropora clade containing the putatively widespread species Acropora tenuis and its relatives. Using maximum likelihood phylogenies and genetic clustering of single nucleotide polymorphisms from specimens, including topotypes, collected across the Indo-Pacific, we show ≥ 11 distinct lineages in the clade, only four of which correspond to currently accepted species. Based on molecular, morphological and geographical evidence, we describe two new species; Acropora rongoi n. sp. and Acropora tenuissima n. sp. and remove five additional nominal species from synonymy. Systematic relationships revealed by our molecular phylogeny are incongruent with traditional morphological taxonomy and demonstrate that characters traditionally used to delineate species boundaries and infer evolutionary history are homoplasies. Furthermore, we show that species within this clade have much smaller geographical ranges and, consequently, population sizes than currently thought, a finding with profound implications for conservation and management of reef corals.
CE: Nursing Care for Patients After Ostomy Surgery
Authors: Cross Heidi H. 
Published: July 2023

ABSTRACTWhen patients who undergo ostomy surgery do not have access to an ostomy care nurse, staff nurses must assume responsibility for providing ostomy care and educational support. However, many staff nurses may lack the necessary knowledge and skills to provide this type of care. This article details the basics of pre- and postoperative care and patient education for nurses who encounter patients with two of the most common types of ostomy surgery of the bowel: colostomy and ileostomy. It covers the care of a new stoma and provides information about emptying and changing the pouch, nutritional and lifestyle considerations, and possible complications.
A New Classification for Adipose-derived Stromal-cell Systems
Authors: Copcu H. Eray 
Published: July 2023

SummaryObtaining regenerative cells from adipose tissue and their clinical use has become one of the most popular subjects of plastic surgery. However, there is no accepted classification in terms of methods. In this study, classification is proposed for the first time as a new idea. Accordingly, stromal cells can be obtained from adipose tissue by two approaches: direct methods for the bonds between parenchymal and stromal cells, and indirect methods, which target parenchymal cells rather than strong bonds, and increase the stromal cell ratio relatively. These methods can also be subclassified as fat (+), fat (−), fat (±) in terms of using the remaining fat in the final product as a graft. Direct methods include adinizing and enzymatic techniques; indirect methods include emulsification and micro-fragmentation/micronization techniques. In the enzymatic method, the fat tissue in the final product is considered dirty because it contains enzymes and must be discarded. That is why it is a fat (−) method. The adinizing method using ultra-sharp blades is fat (+) because the adipose tissue after the procedure can be used. Because the fat tissue is exposed to blunt pressure in emulsification techniques, it cannot be used as a graft. Thus, these are fat (−) methods. In micronization techniques using filter systems, there may still be intact adipocytes; therefore, it should be classified as fat (±). Adinizing provides both the highest efficiency and the full use of the end product. This classification will guide clinicians in terms of choosing the right product.
Evaluation of Community Benefit Activities Among Nonprofit Hospitals, 2018-2021
Authors: Yeager Valerie A. , Burns Ashlyn , Singh Simone R. , Cronin Cory E. , Franz Berkeley 
Published: July 2023

Objective:
This study examined approaches that nonprofit hospitals use to evaluate community benefit activities in the Community Health Needs Assessment/Implementation Plan (CHNA/IP) process.

Design:
Content analysis of CHNAs/IPs completed between 2018 and 2021 from a 20% stratified random sample (n = 503) of US nonprofit hospitals.

Main Outcome Measures:
A coding sheet was used to record details about the evaluation content reported by hospitals in their CHNAs/IPs. Evaluation was coded into 4 categories: (1) no mention of evaluation; (2) description of evaluation without reporting any measures; (3) reporting reach (number of people served) only; and (4) reporting social/health outcomes. For logistic regression analyses, categories 1 and 2 were grouped together into “no evaluation measures” and categories 3 and 4 were grouped into “evaluation measures” for binary comparison. Multinomial logistic regression was also used to individually examine categories 3 and 4 compared with no evaluation measures.

Results:
While a majority of nonprofit hospitals (71.4%, n = 359) mentioned evaluation in their CHNAs, almost half (49.7%, n = 250) did not report any evaluation measures. Among the 50.3% (n = 253) of hospitals that reported evaluation measures, 67.2% (n = 170) only reported reach. Fewer than 1 in 5 hospitals (16.5%, n = 83) reported social/health outcomes. Hospitals that hired a consultant (adjusted odds ratio [AOR] = 1.61; 95% confidence interval [CI], 1.08-2.43) and system members (AOR = 1.76; 95% CI, 1.12-2.75) had higher odds of reporting evaluation measures. Using hospitals that reported no measures as the base category, system members (AOR = 7.71; 95% CI, 2.97-20.00) also had significantly higher odds of reporting social/health outcomes, while rural locations had lower odds (AOR = 0.43; 95% CI, 0.20-0.94).

Conclusions:
Although hospitals are required to evaluate the impact of actions taken to address the health needs identified in their CHNAs, few hospitals are reporting social/health outcomes of such activities. This represents a missed opportunity, as health/social outcomes could be used to inform the allocation of resources to maximize community benefits and the expansion of successful community initiatives.
Efficacy of Combined Conjoint Fascial Sheath and Levator Muscle Composite Flap Suspension for Congenital Severe Ptosis
Authors: Shi Junhu , Liu Zhaochuan , Li Yadi , Song Lihua , Li Yan , Yang Jianwei , Pang Runhui , Zhang Hongbin , Xiao Li , Bai Ping 
Published: July 2023

Background:
Conjoint fascial sheath (CFS) suspension has been gradually recognized and accepted for the treatment of congenital severe blepharoptosis in recent years. To address the problem of postoperative upper eyelid position regression of only CFS suspension, the authors designed and implemented a CFS combined levator muscle (LM) complex flap, and analyzed the surgical efficacy of CFS with LM (CFS+LM) compared with frontalis myofascial flap (FMF) suspension surgery.

Methods:
Patients diagnosed with congenital severe ptosis and LM function of 4 mm or less were enrolled. The patients were assigned to either the CFS+LM group or the FMF group, to compare and statistically analyze the postoperative effects of CFS+LM versus FMF suspension.

Results:
Data from 182 patients (220 eyes) were collected in this study, including 89 patients (103 eyes) in the CFS+LM group and 93 patients (117 eyes) in the FMF group. The full correction rate, patient satisfaction, postoperative upper eyelid excursion, and lagophthalmos in the CFS+LM group were significantly better than those in the FMF group. The eyelid retraction rate was significantly higher in the FMF group than in the CFS+LM group. The complication rate in the CFS+LM group was significantly lower than that in the FMF group.

Conclusions:
CFS+LM suspension had better outcomes than FMF suspension. Considering that the CFS tissue could be weak in patients younger than 5 years and have poor muscle elasticity in patients with LM function less than or equal to 1 mm, FMF suspension is recommended first. For patients older than 5 years with severe ptosis, CFS+LM suspension is recommended.

CLINICAL QUESTION/LEVEL OF EVIDENCE:
Therapeutic, III.
PheMIME: An Interactive Web App and Knowledge Base for Phenome-Wide, Multi-Institutional Multimorbidity Analysis
Authors: Zhang Siwei , Strayer Nick , Vessels Tess , Choi Karmel , Wang Geoffrey W , Li Yajing , Bejan Cosmin A , Hsi Ryan S , Bick Alexander G. , Velez Edwards Digna R , Savona Michael R , Philips Elizabeth J , Pulley Jill , Self Wesley H , Hopkins Wilkins Consuelo , Roden Dan M , Smoller Jordan W. , Ruderfer Douglas M , Xu Yaomin 
Published: July 2023

ABSTRACTMotivationMultimorbidity, characterized by the simultaneous occurrence of multiple diseases in an individual, is an increasing global health concern, posing substantial challenges to healthcare systems. Comprehensive understanding of disease-disease interactions and intrinsic mechanisms behind multimorbidity can offer opportunities for innovative prevention strategies, targeted interventions, and personalized treatments. Yet, there exist limited tools and datasets that characterize multimorbidity patterns across different populations. To bridge this gap, we used large-scale electronic health record (EHR) systems to develop the Phenome-wide Multi-Institutional Multimorbidity Explorer (PheMIME), which facilitates research in exploring and comparing multimorbidity patterns among multiple institutions, potentially leading to the discovery of novel and robust disease associations and patterns that are interoperable across different systems and organizations.ResultsPheMIME integrates summary statistics from phenome-wide analyses of disease multimorbidities. These are currently derived from three major institutions: Vanderbilt University Medical Center, Mass General Brigham, and the UK Biobank. PheMIME offers interactive exploration of multimorbidity through multi-faceted visualization. Incorporating an enhanced version of associationSubgraphs, PheMIME enables dynamic analysis and inference of disease clusters, promoting the discovery of multimorbidity patterns. Once a disease of interest is selected, the tool generates interactive visualizations and tables that users can delve into multimorbidities or multimorbidity networks within a single system or compare across multiple systems. The utility of PheMIME is demonstrated through a case study on schizophrenia.Availability and implementationThe PheMIME knowledge base and web application are accessible athttps://prod.tbilab.org/PheMIME/. A comprehensive tutorial, including a use-case example, is available athttps://prod.tbilab.org/PheMIME_supplementary_materials/.Furthermore, the source code for PheMIME can be freely downloaded fromhttps://github.com/tbilab/PheMIME.Data availability statementThe data underlying this article are available in the article and in its online web application or supplementary material.