bluuebunny/crossref_metadata_2025_split huggingface dataset:
Adding 6-month parameters for the prediction of kidney prognosis in ANCA-associated glomerulonephritis
Authors: Boud'hors Charlotte , Riou Jérémie , Fage Nicolas , Samoreau Clément , Desouche Alice , Gatault Philippe , Bridoux Frank , Martin Cécile , Wacrenier Samuel , Vinatier Emeline , Djema Assia , Henry Nicolas , Croué Anne , Piccoli Giorgina Barbara , Copin Marie-Christine , Augusto Jean-François , Brilland Benoît ,   the Maine-Anjou Registry Research Group, Augusto Jean-François , Beauvillain Céline , Brilland Benoit , Coindre Jean-Philippe , Copin Marie-Christine , Cousin Maud , Croué Anne , Djema Assia , Guibert Fanny , Henry Nicolas , Piccoli Giorgina Barbara , Pouteau Lise-Marie , Wacrenier Samuel , Vinatier Emeline 
Published: July 2023

ABSTRACT

Background
Antineutrophil-cytoplasmic antibody (ANCA)-associated vasculitis (AAV) with kidney involvement (AAV-GN) frequently evolves to end-stage kidney disease (ESKD) despite aggressive immunosuppressive treatment. Several risk scores have been used to assess renal prognosis. We aimed to determine whether kidney function and markers of AAV-GN activity after 6 months could improve the prediction of ESKD.

Methods
This retrospective and observational study included adult patients with AAV-GN recruited from six French nephrology centers (including from the Maine-Anjou AAV registry). The primary outcome was kidney survival. Analyses were conducted in the whole population and in a sub-population that did not develop ESKD early in the course of the disease.

Results
When considering the 102 patients with all data available at diagnosis, Berden classification and Renal Risk Score (RRS) were not found to be better than kidney function [estimated glomerular filtration rate (eGFR)] alone at predicting ESKD (C-index = 0.70, 0.79, 0.82, respectively). Multivariables models did not indicate an improved prognostic value when compared with eGFR alone.
When considering the 93 patients with all data available at 6 months, eGFR outperformed Berden classification and RRS (C-index = 0.88, 0.62, 0.69, respectively) to predict ESKD. RRS performed better when it was updated with the eGFR at 6 months instead of the baseline eGFR. While 6-month proteinuria was associated with ESKD and improved ESKD prediction, hematuria and serological remission did not.

Conclusion
This work suggests the benefit of the reassessment of the kidney prognosis 6 months after AAV-GN diagnosis. Kidney function at this time remains the most reliable for predicting kidney outcome. Of the markers tested, persistent proteinuria at 6 months was the only one to slightly improve the prediction of ESKD.
A Break Of Barrier To Classical Differential Fault Attack On The Nonce-Based Authenticated Encryption Algorithm
Authors: Liu Shuai , Ren Jizhou , Guan Jie , Hu Bin , Ma Sudong , Bai Hao 
Published: July 2023

Abstract
It had always been believed that there was an inherent barrier to Differential Fault Attack (DFA) on the nonce-based authenticated encryption algorithm. At CHES 2016, Saha et al. proposed an Internal Differential Fault Attack on a parallelizable counter-mode algorithm. They induce the attack to classical DFA at the expense of one more fault injection in every encryption process. In this paper, we propose the DFA on HYENA, which is a nonce-based authenticated encryption mode for GIFT-128. Our work is the first pure classical DFA on a nonce-based authenticated encryption algorithm with only one fault injected in every decryption process. Firstly, we give the DFA on GIFT-128 with a fault injected into the 39th-round input. Based on this work, we inject a fault in the underlying GIFT-128 of a HYENA decryption process and make this decryption process still generate the correct tag and output plaintext. This makes the necessary conditions of DFA satisfied. Experiments show that at most 56 key bits of HYENA can be recovered with only a few faulty ciphertexts. In addition, our fault injection is easier to achieve than most other work about fault attack, because the injection location is relatively random and the fault type can be arbitrary. It should be noted that the left 72 key bits cannot be recovered in this way.
Bleeding risk and P2Y12 inhibitors in all-comer patients with ST-segment elevation myocardial infarction treated with percutaneous coronary intervention: a single-centre cohort study
Authors: Jacobsen Mia Ravn , Jabbari Reza , Engstrøm Thomas , Grove Erik Lerkevang , Glinge Charlotte , Pedersen Frants , Holmvang Lene , Køber Lars , Torp-Pedersen Christian , Maeng Michael , Veien Karsten , Freeman Phillip , Charlot Mette Gitz , Kelbæk Henning , Sørensen Rikke 
Published: July 2023

Abstract

Aims
To characterize and follow patients with ST-segment elevation myocardial infarction (STEMI) at high bleeding risk (HBR) according to the predicting bleeding complications in patients undergoing stent implantation and subsequent dual antiplatelet therapy (PRECISE-DAPT) score, and to examine the use of P2Y12 inhibitors and the subsequent risk of major adverse cardiovascular events (MACE) and bleeding.

Methods and results
This single-centre cohort study included 6179 consecutive STEMI patients who underwent percutaneous coronary intervention (PCI) at Copenhagen University Hospital, Rigshospitalet, between 2009 and 2016. Individual linkage to nationwide registries was conducted to obtain information on diagnoses, claimed drugs, and vital status. Of the 5532 (89.5%) patients with available PRECISE-DAPT scores, 33.0% were at HBR and more often elderly and female with more comorbidities than non-HBR patients. One-year cumulative incidence rates per 100 person-years were 8.7 and 2.1 for major bleeding and 36.8 and 8.3 for MACE in HBR and non-HBR patients, respectively. Among the 4749 (85.8%) patients who survived and collected a P2Y12 inhibitor ≤7 days from discharge, 68.2% of HBR patients were treated with ticagrelor or prasugrel and 31.8% with clopidogrel, while 18.2% non-HBR patients were treated with clopidogrel. Adherence was high for all (&gt;75% days coverage). The risk of MACE was lower in ticagrelor- and prasugrel-treated patients than in clopidogrel-treated patients without differences in major bleeding.

Conclusion
One-third of PCI-treated all-comer patients with STEMI were at HBR according to the PRECISE-DAPT score and were more often treated with potent P2Y12 inhibitors instead of clopidogrel. Thus, ischaemic risk may be weighted over bleeding risk in STEMI patients at HBR.
Determine atrial fibrillation burden with a photoplethysmographic mobile sensor: the atrial fibrillation burden trial: detection and quantification of episodes of atrial fibrillation using a cloud analytics service connected to a wearable with photoplethysmographic sensor
Authors: Reissenberger Pamela , Serfözö Peter , Piper Diana , Juchler Norman , Glanzmann Sara , Gram Jasmin , Hensler Karina , Tonidandel Hannah , Börlin Elena , D’Souza Marcus , Badertscher Patrick , Eckstein Jens 
Published: July 2023

Abstract

Aims
Recent studies suggest that atrial fibrillation (AF) burden (time AF is present) is an independent risk factor for stroke. The aim of this trial was to study the feasibility and accuracy to identify AF episodes and quantify AF burden in patients with a known history of paroxysmal AF with a photoplethysmography (PPG)-based wearable.

Methods and results
In this prospective, single-centre trial, the PPG-based estimation of AF burden was compared with measurements of a conventional 48 h Holter electrocardiogram (ECG), which served as the gold standard. An automated algorithm performed PPG analysis, while a cardiologist, blinded for the PPG data, analysed the ECG data. Detected episodes of AF measured by both methods were aligned timewise.Out of 100 patients recruited, 8 had to be excluded due to technical issues. Data from 92 patients were analysed [55.4% male; age 73.3 years (standard deviation, SD: 10.4)]. Twenty-five patients presented AF during the study period. The intraclass correlation coefficient of total AF burden minutes detected by the two measurement methods was 0.88. The percentage of correctly identified AF burden over all patients was 85.1% and the respective parameter for non-AF time was 99.9%.

Conclusion
Our results demonstrate that a PPG-based wearable in combination with an analytical algorithm appears to be suitable for a semiquantitative estimation of AF burden in patients with a known history of paroxysmal AF.

Trial Registration number
NCT04563572.
Identifying and assessing intensive and extensive technologies in European dairy farming
Authors: Latruffe Laure , Niedermayr Andreas , Desjeux Yann , Dakpo K Herve , Ayouba Kassoum , Schaller Lena , Kantelhardt Jochen , Jin Yan , Kilcline Kevin , Ryan Mary , O’Donoghue Cathal 
Published: July 2023

Abstract
In order to tackle climate change and biodiversity loss, the European Union (EU) promotes extensive farming. However, identifying such farms across countries and assessing their performance for policy purposes remains challenging. This paper combines a latent class stochastic frontier model (LCSFM) with a novel nested metafrontier approach. The resulting model enables the identification of intensive and extensive farms across countries, estimation of farm efficiency and identification of different technology gaps. Based on Farm Accountancy Data Network data of French, Irish and Austrian dairy farms,we find poorer environmental but better economic performance of intensive farms, compared to extensive farms. The largest productivity differences stem from technology gaps and not from inefficiency. The approach enables a more nuanced analysis of sources of inefficiency to assist policy design for future green payments in the EU.
When ecological transitions are not so infrequent: independent colonizations of athalassohaline water bodies by Arcellidae (Arcellinida; Amoebozoa), with descriptions of four new species
Authors: Useros Fernando , González-Miguéns Rubén , Soler-Zamora Carmen , Lara Enrique 
Published: July 2023

Abstract
The salinity and humidity barriers divide biodiversity and strongly influence the distribution of organisms. Crossing them opens the possibility for organisms to colonize new niches and diversify, but requires profound physiological adaptations and is supposed to happen rarely in evolutionary history. We tested the relative importance of each ecological barrier by building the phylogeny, based on mitochondrial cytochrome oxidase gene (COI) sequences, of a group of microorganisms common in freshwater and soils, the Arcellidae (Arcellinida; Amoebozoa). We explored the biodiversity of this family in the sediments of athalassohaline water bodies (i.e. of fluctuating salinity that have non-marine origins). We found three new aquatic species, which represent, to the best of our knowledge, the first reports of Arcellinida in these salt-impacted ecosystems, plus a fourth terrestrial one in bryophytes. Culturing experiments performed on Arcella euryhalina sp. nov. showed similar growth curves in pure freshwater and under 20 g/L salinity, and long-term survival at 50 g/L, displaying a halotolerant biology. Phylogenetic analyses showed that all three new athalassohaline species represent independent transition events through the salinity barrier by freshwater ancestor, in contrast to the terrestrial species, which are monophyletic and represent a unique ecological transition from freshwater to soil environments.
The Use and Performance of Sealed Bid versus Oral Timber Auctions by State Forestry Agencies: A Minnesota Case Study
Authors: Kilgore Michael A 
Published: July 2023

AbstractState governments are responsible for the stewardship and management of more than 28 million ha of forest land in the United States. This study presents the findings of an in-depth examination of the characteristics and performance of sealed bid and oral auctions using records from more than a thousand tracts offered for sale by the Minnesota Department of Natural Resources, which administers one of the nation’s most robust state timber sale programs. The study found that although tracts offered for sale through oral and sealed bid auctions sold at the same rate and are undifferentiated with respect to nearly all characteristics, sealed bid tracts generated significantly higher winning prices and additional revenue per hectare than tracts sold using oral auctions. Logging businesses were more likely to win sealed auctions than oral auctions, and their portfolio of purchased tracts contained a higher proportion acquired through sealed bid auctions than the portfolio of sealed bid tracts purchased by mills. The study adds to the limited body of literature on public agency timber auctions and is the first to provide a detailed analysis of the auction methods used by a state forest management agency.Study Implications: Public agencies use sealed bid and oral auctions to sell timber rights. This study of the nation’s largest state timber sale program found that the auction method used affects winning bid prices, the likelihood certain categories of bidders will win the auction, the allocation of timber to mills and logging businesses, and revenue generated for each hectare of timber sold. State timber sale program administrators may be able to use these findings to better understand how the choice of auction method affects the financial performance of their timber sale program as well as the allocation of timber among the major types of bidders.
Impact of the acquired subgenome on the transcriptional landscape in Brettanomyces bruxellensis allopolyploids
Authors: Jallet Arthur , Friedrich Anne , Schacherer Joseph 
Published: July 2023

Abstract
Gene expression variation can provide an overview of the changes in regulatory networks that underlie phenotypic diversity. Certain evolutionary trajectories such as polyploidization events can have an impact on the transcriptional landscape. Interestingly, the evolution of the yeast species Brettanomyces bruxellensis has been punctuated by diverse allopolyploidization events leading to the coexistence of a primary diploid genome associated with various haploid acquired genomes. To assess the impact of these events on gene expression, we generated and compared the transcriptomes of a set of 87 B. bruxellensis isolates, selected as being representative of the genomic diversity of this species. Our analysis revealed that acquired subgenomes strongly impact the transcriptional patterns and allow discrimination of allopolyploid populations. In addition, clear transcriptional signatures related to specific populations have been revealed. The transcriptional variations observed are related to some specific biological processes such as transmembrane transport and amino acids metabolism. Moreover, we also found that the acquired subgenome causes the overexpression of some genes involved in the production of flavor-impacting secondary metabolites, especially in isolates of the beer population.
Strain variation in gene expression impact of hyphal cyclin Hgc1 in Candida albicans
Authors: Sharma Anupam , Mitchell Aaron P 
Published: July 2023

Abstract
Formation of hyphae is a key virulence trait of the fungal pathogen Candida albicans. Hypha morphogenesis depends upon the cyclin Hgc1, which acts together with cyclin-dependent protein kinase Cdc28 to phosphorylate effectors that drive polarized growth. Hgc1 has also been implicated in gene regulation through its effects on 2 transcription factors, Efg1 and Ume6. Here, we report RNA-sequencing (RNA-seq) analysis of 2 pairs of hgc1Δ/Δ mutants and their respective wild-type strains, which lie in 2 different genetic backgrounds. We find that hgc1Δ/Δ mutations alter expression of 271 genes in both genetic backgrounds and 266 of those genes respond consistently with regard to up- or down-regulation. Consistency is similar to what has been observed with efg1Δ/Δ mutations and greater than observed with nrg1Δ/Δ mutations in these 2 backgrounds. The gene expression response includes genes under Efg1 control, as expected from prior studies. Hgc1-responsive genes also include ergosterol biosynthetic genes and bud neck-related genes, which may reflect interactions between Hgc1 and additional transcription factors as well as effects of Hgc1 on cellular length-to-width ratios.
Impact of the GPS orbital dynamics on spurious interannual Earth deformation
Authors: Ait-Lakbir H , Santamaría-Gómez A , Perosanz F 
Published: July 2023

SUMMARY
Global Positioning System (GPS) daily position time-series have a standard precision of a few millimetres. However, GPS position series contain large temporal correlations that impede the observation of subtle interannual Earth deformation. We show that the specific configuration of the GPS constellation, compared to other Global Navigation Satellite Systems (GNSS), contributes to the temporal correlation. Based on the analysis of observed and simulated GPS, Galileo, GLONASS and BeiDou orbits, we determine that the GPS orbital dynamics are more prone to interannual drifts caused by their higher sensitivity to the lunisolar gravitational resonance. This leads to substantial changes in the observation geometry over time, which, combined with mismodelled station-dependent systematic errors, results in a larger temporal correlation for GPS position time-series. Improving the weighting of the GPS observations may mitigate the effect of geometry, which is absent in other GNSS constellations.
High-resolution structural imaging of volcanoes using improved muon tracking
Authors: Bajou R , Rosas-Carbajal M , Tonazzo A , Marteau J 
Published: July 2023

SUMMARY
Muography is increasingly used to image the density distribution of volcanic edifices, complementing traditional geophysical tomographies. Here, we present a new muon data processing algorithm, and apply it to a new generation of scintillator-based muon detectors, to image the relative density distribution in La Soufrière de Guadeloupe volcano (Lesser Antilles, France). Our processing method iteratively searches for the best fit of each muon trajectory, accounting for all the hits registered by the detector related to the particular muon event. We test the performance of our algorithm numerically, simulating the interaction of muons with our detector and accounting for its exact assemblage including the scintillator bars and lead shielding. We find that our new data processing mitigates the impact of spurious signals coming from secondary particles, and improves the amount of successfully reconstructed events. The resulting 2-D muon images at La Soufrière have higher angular resolution than previous ones and capture the heterogeneous structure of the dome. They show density anomalies located on the summit southern region, which includes a boiling acid lake and degassing fractures, where the rock is the most porous and fumarolic activity is ongoing. This work shows the importance of combining numerical simulations of muon propagation with precise raw data processing to obtain high-quality results. It is also a first step towards fully assessing the noise contamination sources when performing muon tomography, and their correction, prior to geophysical interpretations.
Goals for girls: a cluster-randomized trial to investigate a school-based sexual health programme amongst female learners in South Africa
Authors: Pike C , Coakley C , Ahmed N , Lee D , Little F , Padian N , Bekker L G 
Published: July 2023

Abstract
The delivery of comprehensive sexuality education to adolescents at school is recognized as a long-term strategy to support adolescent health. Suboptimal sexual and reproductive health (SRH) outcomes among South African adolescents necessitate the ongoing development and optimization of SRH education and promotion models. We conducted a cluster-randomized controlled trial amongst secondary schools (n = 38) in Cape Town, South Africa, to evaluate a sport-based, near-peer-led SRH curriculum, SKILLZ, amongst female learners (n = 2791). Biomedical (sexually transmitted infections [STIs], human immunodeficiency virus [HIV] and pregnancy) and socio-behavioural (social support, gender norms and self-concept) outcomes were assessed pre and post intervention. Attendance at SKILLZ was low and intervention participants did not show an improvement in SRH outcomes, with HIV and pregnancy incidence remaining stable and STI prevalence remaining high and increasing in both control and intervention arms. Although evidence of positive socio-behavioural measures was present at baseline, participants with high attendance showed further improvement in positive gender norms. SKILLZ did not demonstrate the capacity to significantly impact clinical SRH outcomes. Modest improvements in outcomes amongst high attenders suggest that the impact may be possible with improved attendance; however, in the absence of optimal attendance, alternative intervention strategies may be required to improve SRH outcomes amongst adolescents.
Glycolytic Activation of CD14+ Intestinal Macrophages Contributes to the Inflammatory Responses via Exosomal Membrane Tumor Necrosis Factor in Crohn’s Disease
Authors: Zeng Ziwei , Cheng Sijing , Li Xuanna , Liu Huashan , Lin Jinxin , Liang Zhenxing , Liu Xuanhui , Cao Chao , Li Shujuan , He Xiaowen , Kang Liang , Wu Xiaojian , Zheng Xiaobin 
Published: July 2023

Abstract

Background
Macrophage (Mφ) activation plays a critical role in the inflammatory response. Activated Mφ go through profound reprogramming of cellular metabolism. However, changes in their intracellular energy metabolism and its effect on inflammatory responses in Crohn’s disease (CD) remain currently unclear. The aim of this study is to explore metabolic signatures of CD14+ Mφ and their potential role in CD pathogenesis as well as the underlying mechanisms.

Methods
CD14+ Mφ were isolated from peripheral blood or intestinal tissues of CD patients and control subjects. Real-time flux measurements and enzyme-linked immunosorbent assay were used to determine the inflammatory states of Mφ and metabolic signatures. Multiple metabolic routes were suppressed to determine their relevance to cytokine production.

Results
Intestinal CD14+ Mφ in CD patients exhibited activated glycolysis compared with those in control patients. Specifically, macrophagic glycolysis in CD largely induced inflammatory cytokine release. The intestinal inflammatory microenvironment in CD elicited abnormal glycolysis in Mφ. Mechanistically, CD14+ Mφ derived exosomes expressed membrane tumor necrosis factor (TNF), which engaged TNFR2 and triggered glycolytic activation via TNF/nuclear factor κB autocrine and paracrine signaling. Importantly, clinically applicable anti-TNF antibodies effectively prevented exosomal membrane TNF–induced glycolytic activation in CD14+ Mφ.

Conclusions
CD14+ Mφ take part in CD pathogenesis by inducing glycolytic activation via membrane TNF–mediated exosomal autocrine and paracrine signaling. These results provide novel insights into pathogenesis of CD and enhance understanding of the mechanisms of anti-TNF agents.