bluuebunny/crossref_metadata_2025_split huggingface dataset:
The King Can Do No Wrong’s Travels and Travails Across the Common Law World
Authors: Fortin Marie-France 
Published: May 2024

Abstract
This chapter examines understandings of the king can do no wrong and their evolution in the United States, Ireland, and Australia. The first section of this chapter focusses on how American law retained the feudal element of the king’s immunity from suit while rejecting other understandings of the king can do no wrong. It argues that the American doctrine of sovereign immunity rests on a premise that is most un-English––the sovereign’s status as above the law. The second section recounts how the Republic of Ireland’s courts rejected the king can do no wrong understood as a relic of a feudal monarchical past incompatible with the constitutional commitments of a sovereign, democratic state. The third section analyses understandings of the king can do no wrong in Australia, where legal thinking offers an interesting perspective on the Commonwealth’s capacity to do wrong and its liability for a tort at common law.
Hamilton ParticiNation in Diversity and Its Discontents
Authors: Preston Carrie J 
Published: May 2024

Abstract
Lin-Manuel Miranda’s Hamilton adapts and redeploys familiar genres, including stories of founding fathers, plays about presidents, and the musical genres of R&B, rap, and Broadway, to create a message of diversity that appeals across cultural and political divides. Revisionary rather than revolutionary, Hamilton takes forms that audiences already love and combines them in ways that suggest a radical stance on race, gender, and sexuality that the musical does not deliver (failing even to meet the Bechdel test). At the same time, the more radical para-Hamilton performances extend audience engagement with the show and allow audiences to participate in somewhat more revolutionary versions of Hamilton.
scX: a user-friendly tool for scRNAseq exploration
Authors: Waichman Tomás V , Vercesi M L , Berardino Ariel A , Beckel Maximiliano S , Giacomini Damiana , Rasetto Natalí B , Herrero Magalí , Di Bella Daniela J , Arlotta Paola , Schinder Alejandro F , Chernomoretz Ariel 
Published: May 2024

Abstract

Motivation
Single-cell RNA sequencing (scRNAseq) has transformed our ability to explore biological systems. Nevertheless, proficient expertise is essential for handling and interpreting the data.

Results
In this article, we present scX, an R package built on the Shiny framework that streamlines the analysis, exploration, and visualization of single-cell experiments. With an interactive graphic interface, implemented as a web application, scX provides easy access to key scRNAseq analyses, including marker identification, gene expression profiling, and differential gene expression analysis. Additionally, scX seamlessly integrates with commonly used single-cell Seurat and SingleCellExperiment R objects, resulting in efficient processing and visualization of varied datasets. Overall, scX serves as a valuable and user-friendly tool for effortless exploration and sharing of single-cell data, simplifying some of the complexities inherent in scRNAseq analysis.

Availability and implementation
Source code can be downloaded from https://github.com/chernolabs/scX. A docker image is available from dockerhub as chernolabs/scx.
Integrated convolution and self-attention for improving peptide toxicity prediction
Authors: Jiao Shihu , Ye Xiucai , Sakurai Tetsuya , Zou Quan , Liu Ruijun 
Published: May 2024

Abstract

Motivation
Peptides are promising agents for the treatment of a variety of diseases due to their specificity and efficacy. However, the development of peptide-based drugs is often hindered by the potential toxicity of peptides, which poses a significant barrier to their clinical application. Traditional experimental methods for evaluating peptide toxicity are time-consuming and costly, making the development process inefficient. Therefore, there is an urgent need for computational tools specifically designed to predict peptide toxicity accurately and rapidly, facilitating the identification of safe peptide candidates for drug development.

Results
We provide here a novel computational approach, CAPTP, which leverages the power of convolutional and self-attention to enhance the prediction of peptide toxicity from amino acid sequences. CAPTP demonstrates outstanding performance, achieving a Matthews correlation coefficient of approximately 0.82 in both cross-validation settings and on independent test datasets. This performance surpasses that of existing state-of-the-art peptide toxicity predictors. Importantly, CAPTP maintains its robustness and generalizability even when dealing with data imbalances. Further analysis by CAPTP reveals that certain sequential patterns, particularly in the head and central regions of peptides, are crucial in determining their toxicity. This insight can significantly inform and guide the design of safer peptide drugs.

Availability and implementation
The source code for CAPTP is freely available at https://github.com/jiaoshihu/CAPTP.
Genomic and transcriptomic significance of multiple primary lung cancers detected by next-generation sequencing in clinical settings
Authors: Yao Meihong , Chen Hu , Chen Zui , Wang Yingying , Shi Dongliang , Wu Dan , Li Wen , Huang Jianping , Chen Guizhen , Zheng Qiaoling , Ye Zhengtao , Zheng Chenxin , Yang Yinghong 
Published: May 2024

Abstract
Effective diagnosis and understanding of the mechanism of intrapulmonary metastasis (IM) from multiple primary lung cancers (MPLC) aid clinical management. However, the actual detection panels used in the clinic are variable. Current research on tumor microenvironment (TME) of MPLC and IM is insufficient. Therefore, additional investigation into the differential diagnosis and discrepancies in TME between two conditions is crucial. Two hundred and fourteen non-small cell lung cancer patients with multiple tumors were enrolled and 507 samples were subjected to DNA sequencing (NGS 10). Then, DNA and RNA sequencing (master panel) were performed on the specimens from 32 patients, the TME profiles between tumors within each patient and across patients and the differentially expressed genes were compared. Four patients were regrouped with NGS 10 results. Master panel resolved the classifications of six undetermined patients. The TME in MPLC exhibited a high degree of infiltration by natural killer (NK) cells, CD56dim NK cells, endothelial cells, etc., P &lt; 0.05. Conversely, B cells, activated B cells, regulatory cells, immature dendritic cells, etc., P &lt; 0.001, were heavily infiltrated in the IM. NECTIN4 and LILRB4 mRNA were downregulated in the MPLC (P &lt; 0.0001). Additionally, NECTIN4 (P &lt; 0.05) and LILRB4 were linked to improved disease-free survival in the MPLC. In conclusion, IM is screened from MPLC by pathology joint NGS 10 detections, followed by a large NGS panel for indistinguishable patients. A superior prognosis of MPLC may be associated with an immune-activating TME and the downregulation of NECTIN4 and LILRB4 considered as potential drug therapeutic targets.
Aerostasis to limit air leak following extended pleurectomy–decortication
Authors: Provoost An-Lies , Bouckaert Andreas , Vanluyten Cedric , Barbarossa Annalisa , Nackaerts Kristiaan , Weynand Birgit , Coolen Johan , Bouneb Sofian , Theisen-Lauk Olivia , Opitz Isabelle , Nafteux Philippe , Ceulemans Laurens J 
Published: May 2024

Abstract
Extended pleurectomy–decortication is a cytoreductive surgical treatment for malignant pleural mesothelioma. Prolonged air leak remains a major postoperative challenge, lengthening hospital stay and increasing morbidity. In this video report, we present a stepwise approach for visceral decortication and introduce the concept of aerostasis by construction of an artificial neopleura. Our results suggest that improved aerostasis results in shortened air leak duration.
Altered Serotonin 1B Receptor Binding After Escitalopram for Depression Is Correlated With Treatment Effect
Authors: Gärde M , Matheson G J , Varnäs K , Svenningsson P , Hedman-Lagerlöf E , Lundberg J , Farde L , Tiger M 
Published: May 2024

Abstract

Background
Major depressive disorder (MDD) is commonly treated with selective serotonin reuptake inhibitors (SSRIs). SSRIs inhibit the serotonin transporter (5-HTT), but the downstream antidepressant mechanism of action of these drugs is poorly understood. The serotonin 1B (5-HT1B) receptor is functionally linked to 5-HTT and 5-HT1B receptor binding and 5-HT1B receptor mRNA is reduced in the raphe nuclei after SSRI administration in primates and rodents, respectively. The effect of SSRI treatment on 5-HT1B receptor binding in patients with MDD has not been examined previously. This positron emission tomography (PET) study aimed to quantify brain 5-HT1B receptor binding changes in vivo after SSRI treatment for MDD in relation to treatment effect.

Methods
Eight unmedicated patients with moderate to severe MDD underwent PET with the 5-HT1B receptor radioligand [11C]AZ10419369 before and after 3 to 4 weeks of treatment with the SSRI escitalopram 10 mg daily. Depression severity was assessed at time of PET and after 6 to 7 weeks of treatment with the Montgomery-Åsberg Depression Rating Scale.

Results
We observed a significant reduction in [11C]AZ10419369 binding in a dorsal brainstem (DBS) region containing the median and dorsal raphe nuclei after escitalopram treatment (P = .036). Change in DBS [11C]AZ10419369 binding correlated with Montgomery-Åsberg Depression Rating Scale reduction after 3-4 (r = 0.78, P = .021) and 6-7 (r = 0.94, P &lt; .001) weeks’ treatment.

Conclusions
Our findings align with the previously reported reduction of 5-HT1B receptor binding in the raphe nuclei after SSRI administration and support future studies testing change in DBS 5-HT1B receptor binding as an SSRI treatment response marker.
Growth rates of marine prokaryotes are extremely diverse, even among closely related taxa
Authors: Deulofeu-Capo Ona , Sebastián Marta , Auladell Adrià , Cardelús Clara , Ferrera Isabel , Sánchez Olga , Gasol Josep M 
Published: May 2024

Abstract
Marine prokaryotes play crucial roles in ocean biogeochemical cycles, being their contribution strongly influenced by their growth rates. Hence, elucidating the variability and phylogenetic imprint of marine prokaryotes' growth rates are crucial for better determining the role of individual taxa in biogeochemical cycles. Here, we estimated prokaryotic growth rates at high phylogenetic resolution in manipulation experiments using water from the northwestern Mediterranean Sea. Experiments were run in the four seasons with different treatments that reduced growth limiting factors: predators, nutrient availability, viruses, and light. Single-amplicon sequence variants (ASVs)-based growth rates were calculated from changes in estimated absolute abundances using total prokaryotic abundance and the proportion of each individual ASV. The trends obtained for growth rates in the different experiments were consistent with other estimates based on total cell-counts, catalyzed reporter deposition fluorescence in situ hybridization subcommunity cell-counts or metagenomic-operational taxonomic units (OTUs). Our calculations unveil a broad range of growth rates (0.3–10 d−1) with significant variability even within closely related ASVs. Likewise, the impact of growth limiting factors changed over the year for individual ASVs. High numbers of responsive ASVs were shared between winter and spring seasons, as well as throughout the year in the treatments with reduced nutrient limitation and viral pressure. The most responsive ASVs were rare in the in situ communities, comprising a large pool of taxa with the potential to rapidly respond to environmental changes. Essentially, our results highlight the lack of phylogenetic coherence in the range of growth rates observed, and differential responses to the various limiting factors, even for closely related taxa.
Siderophores and competition for iron govern myxobacterial predation dynamics
Authors: Contreras-Moreno Francisco Javier , Moraleda-Muñoz Aurelio , Marcos-Torres Francisco Javier , Cuéllar Virginia , Soto María José , Pérez Juana , Muñoz-Dorado José 
Published: May 2024

Abstract
Bacterial predators are decisive organisms that shape microbial ecosystems. In this study, we investigated the role of iron and siderophores during the predatory interaction between two rhizosphere bacteria: Myxococcus xanthus, an epibiotic predator, and Sinorhizobium meliloti, a bacterium that establishes nitrogen-fixing symbiosis with legumes. The results show that iron enhances the motility of the predator and facilitates its predatory capability, and that intoxication by iron is not used by the predator to prey, although oxidative stress increases in both bacteria during predation. However, competition for iron plays an important role in the outcome of predatory interactions. Using combinations of predator and prey mutants (nonproducers and overproducers of siderophores), we have investigated the importance of competition for iron in predation. The results demonstrate that the competitor that, via the production of siderophores, obtains sufficient iron for growth and depletes metal availability for the opponent will prevail in the interaction. Consequently, iron fluctuations in soils may modify the composition of microbial communities by altering the activity of myxobacterial predators. In addition, siderophore overproduction during predation can alter soil properties, affecting the productivity and sustainability of agricultural operations.
Surgical approach through the anterior scalene muscle resection for invasive tumours in the supraclavicular fossa (with video)
Authors: Matsumoto Yoshifumi , Kobayashi Kenya , Eguchi Kohtaro , Watanabe Takane , Sakai Azusa , Omura Go , Yoshimoto Seiichi 
Published: May 2024

Abstract

Background
The supraclavicular fossa contains many vital organs to be preserved, such as the brachial plexus, subclavian artery and vertebral artery. Various surgical methods have been reported. However, no well-standardized surgical procedure has been established.

Methods
Between 2010 and 2020, we performed 28 surgical treatments of the superior mediastinum and supraclavicular fossa. Of these, we retrospectively reviewed seven cases of supraclavicular invasion using a unified surgical technique in which the anterior scalene muscle was resected, and the inter-scalene triangle was approached.

Results
We performed claviculectomy in four cases and a transmanubrial approach in three cases. In all cases, by resecting the anterior scalene muscle, the brachial plexus, subclavian artery and vertebral artery were preserved. There were no critical postoperative complications other than tracheostomy and lymphatic leakage. Median bleeding amount and operative time were 438 (range; 76–1144) ml and 328 (range; 246–615) minutes, respectively.

Conclusions
The anterior scalene muscle resection method might be a safe and standardized method for preserving the brachial plexus, subclavian artery and vertebral artery.
Estimating the population size of persons contending with homelessness using electronic health records
Authors: Dong Gracia Y , Moselle Kenneth , Robertson Stanley , Brown Patrick , Cowen Laura L E 
Published: May 2024

Abstract
The majority of attempts to enumerate the homeless population rely on point-in-time or shelter counts, which can be costly and inaccurate. As an alternative, we use electronic health records from the Vancouver Island Health Authority, British Columbia, Canada from 2013 to 2022 to identify adults contending with homelessness based on their self-reported housing status. We estimate the annual population size of this population using a flexible open-population capture–recapture model that takes into account (1) the age and gender structure of the population, including aging across detection occasions, (2) annual recruitment into the population, (3) behavioural-response, and (4) apparent survival in the population, including emigration and incorporating known deaths. With this model, we demonstrate how to perform model selection for the inclusion of covariates. We then compare our estimates of annual population size with reported point-in-time counts of homeless populations on Vancouver Island over the same time period, and find that using data extracts from electronic health records gives comparable estimates. We find similarly comparable results using only a subset of interaction data, when using only ER interactions, suggesting that even if cross-continuum data is not available, reasonable estimates of population size can still be found using our method.
Implications of palustrine wetland configuration on the biodiversity of urban aquatic macroinvertebrate communities
Authors: Toroitich Caleb , Njuguna Mugwima , Karanja Dennis 
Published: May 2024

Abstract
Aquatic macroinvertebrates (AM) have a special ecological niche in the functionality of urban wetland communities. This class of animals also play a crucial role in urban environmental and water quality assessments through bio-indication and bio-monitoring. However, the continued loss and isolation of palustrine wetlands, driven by urbanization and other anthropogenic processes, result in reduced biodiversity of macroinvertebrate communities. This study sought to determine how palustrine wetland configuration affect biodiversity structure of AM in Nairobi. Wetland configuration attributes of area, perimeter, shape, and edge were examined. For wetland biodiversity, family richness and Shannon index of diversity were assessed. It was hypothesized that wetland configuration affects the biodiversity of AM. From a population of 303 wetlands, this study used heterogeneous sampling to identify and investigate 31 palustrine wetlands spread across the city of Nairobi. Data were collected using observation checklists and archival review. Correlations and multiple regression analysis were performed in IBM SPSS Statistics 21. It was found that wetland configuration significantly affected the biodiversity of AM at R2 = 0.587, F (6, 23) = 5.447, P &lt; 0.001. The study highlights the need to identify the optimum wetland configuration pattern for the biotic enhancement and conservation of AM in palustrine wetland habitats in urban landscapes. Consequently, the ecological stability of urban wetland communities, their accessibility, as well as the innate affection by urban residents, become a desired conservation goal in urban planning and design.
Meningioma: International Consortium on Meningiomas consensus review on scientific advances and treatment paradigms for clinicians, researchers, and patients
Authors: Wang Justin Z , Landry Alexander P , Raleigh David R , Sahm Felix , Walsh Kyle M , Goldbrunner Roland , Yefet Leeor S , Tonn Jörg C , Gui Chloe , Ostrom Quinn T , Barnholtz-Sloan Jill , Perry Arie , Ellenbogen Yosef , Hanemann C Oliver , Jungwirth Gerhard , Jenkinson Michael D , Tabatabai Ghazaleh , Mathiesen Tiit I , McDermott Michael W , Tatagiba Marcos , la Fougère Christian , Maas Sybren L N , Galldiks Norbert , Albert Nathalie L , Brastianos Priscilla K , Ehret Felix , Minniti Giuseppe , Lamszus Katrin , Ricklefs Franz L , Schittenhelm Jens , Drummond Katharine J , Dunn Ian F , Pathmanaban Omar N , Cohen-Gadol Aaron A , Sulman Erik P , Tabouret Emeline , Le Rhun Emelie , Mawrin Christian , Moliterno Jennifer , Weller Michael , Bi Wenya (Linda) , Gao Andrew , Yip Stephen , Niyazi Maximilian ,   The International Consortium on Meningiomas (ICOM), Aldape Kenneth , Wen Patrick Y , Short Susan , Preusser Matthias , Nassiri Farshad , Zadeh Gelareh 
Published: May 2024

Abstract
Meningiomas are the most common primary intracranial tumors in adults and are increasing in incidence due to the aging population and increased access to neuroimaging. While most exhibit nonmalignant behavior, a subset of meningiomas are biologically aggressive and are associated with treatment resistance, resulting in significant neurologic morbidity and even mortality. In recent years, meaningful advances in our understanding of the biology of these tumors have led to the incorporation of molecular biomarkers into their grading and prognostication. However, unlike other central nervous system (CNS) tumors, a unified molecular taxonomy for meningiomas has not yet been established and remains an overarching goal of the Consortium to Inform Molecular and Practical Approaches to CNS Tumor Taxonomy-Not Official World Health Organization (cIMPACT-NOW) working group. Additionally, clinical equipoise still remains on how specific meningioma cases and patient populations should be optimally managed. To address these existing gaps, members of the International Consortium on Meningiomas including field-leading experts, have prepared this comprehensive consensus narrative review directed toward clinicians, researchers, and patients. Included in this manuscript are detailed overviews of proposed molecular classifications, novel biomarkers, contemporary treatment strategies, trials on systemic therapies, health-related quality-of-life studies, and management strategies for unique meningioma patient populations. In each section, we discuss the current state of knowledge as well as ongoing clinical and research challenges to road map future directions for further investigation.
Transcription factors Pbr3RAV2 and PbrTTG1 regulate pear resistance to Botryosphaeria dothidea via the autophagy pathway
Authors: Sun Xun , Wang Fei , Wang Yun , Zhang Ye , Zhang Yue , Liu Yuting , Sun Xiaolei , Qi Kaijie , Xie Zhihua , Zhang Shaoling 
Published: May 2024

Abstract
Pear ring rot, caused by Botryosphaeria dothidea, is the most serious disease of pear (Pyrus spp.) trees. However, the molecular mechanisms underlying pear resistance to B. dothidea remain elusive. In this study, we demonstrated that the pear AuTophagy-related Gene 1a (PbrATG1a) plays a key role in autophagic activity and resistance to B. dothidea. Stable overexpression of PbrATG1a enhanced resistance to B. dothidea in pear calli. Autophagy activity was greater in PbrATG1a-overexpressing calli than in wild-type calli. We used yeast 1-hybrid screening to identify a transcription factor, related to ABI3 and VP1 (Pbr3RAV2), that binds the promoter of PbrATG1a and enhances pear resistance to B. dothidea by regulating autophagic activity. Specifically, the overexpression of Pbr3RAV2 enhanced resistance to B. dothidea in pear calli, while transient silencing of Pbr3RAV2 resulted in compromised resistance to B. dothidea in Pyrus betulifolia. In addition, we identified Transparent Testa Glabra 1 (PbrTTG1), which interacts with Pbr3RAV2. Pathogen infection enhanced the interaction between Pbr3RAV2 and PbrTTG1. The Pbr3RAV2–PbrTTG1 complex increased the binding capacity of Pbr3RAV2 and transcription of PbrATG1a. In addition to providing insights into the molecular mechanisms underlying pear disease resistance, these findings suggest potential genetic targets for enhancing disease resistance in pear.
Diabolical devil’s advocates and the weaponization of illocutionary force
Authors: Terzian Giulia , Corbalán María Inés 
Published: May 2024

Abstract
A standing presumption in the literature is that devil’s advocacy is an inherently beneficial argumentative move; and that those who take on this role in conversation are paradigms of argumentative virtue. Outside academic circles, however, devil’s advocacy has acquired something of a notorious reputation: real-world conversations are rife with self-proclaimed devil’s advocates who are anything but virtuous. Motivated by this observation, in this paper we offer the first in-depth exploration of non-ideal devil’s advocacy. We draw on recent analyses of two better known discursive practices—mansplaining and trolling—to illuminate some of the signature traits of vicious devil’s advocacy. Building on this comparative examination, we show that all three practices trade on a manipulation of illocutionary force; and we evaluate their respective options for securing plausible deniability.