bluuebunny/crossref_metadata_2025_split huggingface dataset:
Significant association between three atherosclerosis indexes and stroke risk
Authors: Wang Xin , Wu Lili , Shu Peng , Yu Wei , Yu Wangfang 
Published: December 2024

Background
To evaluate the associations of three atherosclerosis indexes with stroke in a population aged 65 years and older.

Methods
A sample was obtained from wave 2011 to wave 2015 of the China Health and Retirement Longitudinal Study. Multivariate logistic regression models were used to estimate odds ratios (ORs) with 95% confidence intervals (CIs) for stroke in the quartiles of three atherosclerosis indexes, and restricted cubic splines were constructed.

Results
Four hundred and fifty-four of the 21,913 eligible participants had stroke. After multivariate adjustments and with respect to the lowest quartiles, the ORs (95% CIs) of stroke in the highest quartiles of the atherogenic index of plasma (AIP), the Castelli risk index I (CRI-I), and the Castelli risk index II (CRI-II) were 1.35 (0.99–1.83), 1.52 (1.13–2.06), and 1.40 (1.05–1.86), respectively. When assessed as a continuous exposure, per-unit increases in the AIP, CRI-I, and CRI-II were independently associated with a 49% (OR: 1.49, 95% CI: 1.07–2.08), 6% (OR: 1.06, 95% CI: 1.02–1.11), and 14% (OR: 1.14, 95% CI: 1.03–1.27) increase in the risk of stroke, respectively.

Conclusion
The three atherosclerosis indexes studied—the AIP, CRI-I, and CRI-II—were found to be predictors of stroke in a Chinese population.
The Homily for the Ritual Mass of the Ordination to the Presbyterate in the Perspective of the Requirement of Liturgical Discourse
Authors: Petka Michał 
Published: December 2024

The article focuses on presenting a unique situation occurring in liturgical discourse when it comes to the ritual homily contained in the books of the Roman Pontifical. Its novelty is that the homily, which is normally a “derivative” text, in this case is also considered a “canonical” text. A homily from the ordination rites of a presbyter was chosen as an example of such a situation. The texts of both the pre- Vaticanum II’s Pontificale Romanum and the book after the reforms of Paul VI are presented, which is justified by the continuous use of both books, as well as by marking the changes that occurred during the liturgical renewal. The article in the first part presents the features of the ritual homily and the role of the bishop in its proclamation. The second part describes the phenomenon of liturgical discourse and the Roman Pontifical, followed by an analysis and evaluation of the texts of ritual homilies contained in both ordination rituals.
Does Governance Matter for Outward FDI? Evidence from the European Union Member States
Authors: Dobrowolska Bogusława , Dorożyński Tomasz , Kuna‑Marszałek Anetta 
Published: December 2024

Our principal aim is to assess the role of governance companies’ active internationalisation. We first measured and compared the degree of institutional quality among the 28 European Union Member States (EU–28) between 2004 and 2021 using the authorship synthetic index of governance quality (SIGQ) values. In the second step, we assessed outward foreign direct investment (OFDI) projects measured by their relative value to the GDP per capita in each member state. Finally, we correlated the overall quality of governance (GQ) and its six dimensions with OFDI in the EU–28 (including the UK). We employed numerous statistical tools, i.e., hierarchical cluster analysis, contingency analysis, synthetic index values, and descriptive statistics. We used the Worldwide Governance Index (WGI) to assess the GQ in the EU–28 for 2004–2021. The statistical analysis results revealed a positive relationship between the quality of governance and the OFDI. The most important of the partial variables was the rule of law, which reflects perceptions of the degree to which individuals and actors trust and adhere to social rules. Our research demonstrates that policymakers should consider the importance of institutional quality indicators in supporting domestic companies “to go abroad”. The primary input delivered by the study to the current body of knowledge about OFDI involves identifying the relationship between GQ in all the EU–28 (“old” and “new”) using the SIGQ index.
MULTI-PROXY PALEOENVIRONMENTAL AND PALEOECOLOGICAL RECONSTRUCTION OF THE FOREMOST FORMATION (UPPER CRETACEOUS, CAMPANIAN) OF ALBERTA
Authors: Thompson Michael G.W. , Cullen Thomas M. , Evans David C. , Schröder-Adams Claudia , Ryan Michael J. 
Published: December 2024

Abstract
The Foremost Formation of southern Alberta, Canada, is the basal member of the Cretaceous (Campanian) Belly River Group and has been understudied relative to the overlying Oldman and Dinosaur Park formations of this group. Here we describe and analyze the sedimentology, foraminiferal micropaleontology, vertebrate microsite paleoecology, and paleoenvironmental conditions of the Foremost Formation. Outcrop of the Foremost Formation is characterized by estuarine and shallow marine facies that transition upward into coastal/fluvial facies that accumulated during the Claggett marine regression of the Western Interior Seaway (WIS). This is consistent with at least two rapid transgressive events driven by local subsidence interrupting the overall regressive phase of the Claggett marine cycle, creating the aggrading profile in the lower portion of the sections measured here, and suggesting that orogenic buildup in the Rocky Mountains and its associated basin subsidence were a controlling factor of local deposition in the WIS. A low abundance, low diversity agglutinated benthic foraminiferal fauna suggests frequently stressed oxygen and salinity conditions in marginal marine environments. Vertebrate microsite faunas display a mixed freshwater to brackish water environmental influence, with an increase in diversity upsection in conjunction with increased freshwater influence. Among dinosaurs, ceratopsids and ankylosaurs experience notable relative abundance decreases through the Foremost Formation and into the lower Oldman Formation, potentially reflecting preference for coastal habitats and/or plant resources relative to other terrestrial herbivores.
On the ability to extract MLVA profiles of Vibrio cholerae isolates from WGS data generated with Oxford Nanopore Technologies
Authors: Ambroise Jérôme , Bearzatto Bertrand , Durant Jean-Francois , Irenge Leonid M. , Gala Jean-Luc 
Published: December 2024

Abstract

Multiple-Locus Variable Number of Tandem Repeats (VNTR) Analysis (MLVA) is widely used by laboratory-based surveillance networks to subtype pathogens causing foodborne and water-borne disease outbreaks. The MLVAType shiny application was previously designed to extract MLVA profiles of Vibrio cholerae isolates from WGS data, and provide backward compatibility with traditional MLVA typing methods. The previous development and validation work was conducted using short (pair-end 300 and 150 nt long) reads from Illumina MiSeq and Hiseq sequencing. In this study, the MLVAType application was validated using long reads generated by Oxford Nanopore Technologies (ONT) sequencing platforms. In silico MLVA profiles of V. cholerae isolates (n = 9) from the Democratic Republic of the Congo were generated using the MLVAType application on Nanopore WGS data. The WGS-derived in silico MLVA profiles were extracted from Canu (v.2.2) assemblies obtained through MinION and GridION sequencing by ONT. The results were compared to those obtained from SPAdes assemblies (v3.13.0; k-mer 175) generated from short-read (pair-end 300-bp) data obtained by MiSeq sequencing, Illumina, taken as a reference. For each isolate, the in silico MLVA profiles were concordant across all three sequencing methods, demonstrating that the MLVAType application can accurately predict the MLVA profiles from assembled genomes generated by long-reads ONT sequencers.
Enhancing Tuberculosis Care Quality in Karawang District: A Comparative Study Between Public and Private Hospitals
Authors: Dewi Inaz Kemala , Hairi Farizah Mohd , Andriani Helen 
Published: December 2024

Abstract

Background: Despite the World Health Organization's ambitious goal to eradicate tuberculosis by 2035, the three key indicators of the End TB Strategy have yet to reach their targets. Improving the quality of care is a critical factor in achieving better health outcomes. In Indonesia, both government and private hospitals are involved in enhancing the quality of tuberculosis services.
Methods: This study employs a mixed-method approach to assess the quality of tuberculosis care in public and private hospitals in Karawang District. The evaluation framework combines the High-Quality Health System (HQHS) and the Quality of Tuberculosis Service Assessment (QTSA). Primary data were collected through questionnaires and in-depth interviews with stakeholders, healthcare providers, and patients. Secondary data were gathered from tuberculosis patient visit records and tuberculosis control reports.
Results: The study reveals that low success rates in tuberculosis treatment, increased patient loss to follow-up, lack of evaluation, patient’s satisfication are consequences of structural problems and inadequate care systems foundational aspects such as budgeting, policy dissemination, and the establishment of internal and external networks face significant challenges. patient’s positive experience and access to follow up care have a significant impact on patient’s satification.
Conclusion: Enhancing the foundational elements of the tuberculosis health system and implementing a sustainable, integrated treatment approach will lead to increased treatment success rate, improved treatment outcomes and patient satisfaction.
Triple coding in human SRD5A1 mRNA
Authors: Yordanova Martina M. , Slattery Conor , Baranova-Gurvich Mirriam , Engels Manon , Ting Oscar , Świrski Michał , Tierney Jack A. S. , Tjeldnes Håkon , Mudge Jonathan , Loughran Gary , Andreev Dmitry E. , Baranov Pavel V. 
Published: December 2024

Abstract

Background: Nucleotide sequence can be translated in three reading frames from 5’ to 3’ producing distinct protein products. Many examples of RNA translation in two reading frames (dual coding) have been identified so far.
Results: We report simultaneous translation of mRNA transcripts derived from SRD5A1 locus in all three reading frames that result in the synthesis of long proteins. This occurs due to initiation at three nearby AUG codons occurring in all three-reading frame. Only one of the three proteoforms contains the conserved catalytical domain of SDRD5A1 produced either from the second or the third AUG codon depending on the transcript. Paradoxically, ribosome profiling data and expression reporters indicate that the most efficient translation produces catalytically inactive proteoforms. While phylogenetic analysis suggests that the long triple decoding region is specific to primates, occurrence of nearby AUGs in all three reading frames is ancestral to placental mammals. This suggests that their evolutionary significance belongs to regulation of translation rather than biological role of their products. By analysing multiple publicly available ribosome profiling data and with gene expression assays carried out in different cellular environments, we show that relative expression of these proteoforms is mutually dependent and vary across environments supporting this conjecture. A remarkable feature of triple decoding is its resistance to indel mutations with apparent implications to clinical interpretation of genomic variants.
Conclusion: We argue for the importance of identification, characterisation and annotation of productive RNA translation irrespective of the presumed biological roles of the products of this translation.
The usefulness of percutaneous bile duct metal stent insertion for malignant biliary obstruction: a retrospective study
Authors: Izumi Hideki , Yoshii Hisamichi , Fujino Rika , Takeo Shigeya , Mukai Masaya , Kaneko Junichi , Makuuchi Hiroyasu 
Published: December 2024

Abstract

Background
Percutaneous transhepatic bile duct stent insertion is a useful alternative to the endoscopic approach for malignant biliary strictures. This study retrospectively reviewed the cases of percutaneous metallic stent insertion at our institution to evaluate its safety and usefulness.
Methods
The study included cases of percutaneous bile duct stent insertion performed between April 2016 and August 2024. The causes of biliary strictures and complications were examined.
Results
The study included 14 cases. Seven patients had pancreatic head cancer, including biliary tract cancer (n = 4) and postoperative gastric cancer (n = 3). The study included three patients who underwent a one-phase insertion. The number of inserted stents tended to increase in patients with postoperative cholangiocarcinoma recurrence. No complication occurred in any patient.
Conclusions
Percutaneous metal stent insertion is a useful alternative for treating malignant bile duct stenosis that is difficult to approach endoscopically.
Multiomics mapping and characterization of cellular senescence in aging human skeletal muscle uncovers a novel senotherapeutic for sarcopenia
Authors: Wang Huating , Li Yang , Li Chuhan , Zhou Qin , Liu Xingyuan , Qiao Yulong , Xie Ting , Sun Hao , Ong Michael 
Published: December 2024

Abstract

Cellular senescence is recognized as a hallmark of organismal aging but how it drives aging particularly in human tissues is not fully understood, partly due to the complex heterogeneous nature of senescence. Here in this study, we leverage single-nucleus multiomics to profile senescence in mononucleated cells of human skeletal muscle and provide the first senescence atlas. We demonstrate the intra- and inter-populational transcriptomic and epigenomic heterogeneity and dynamics of senescence in the cells. We also identify commonalities and variations in senescence-associated secretory phenotypes (SASPs) among the cells and elucidate the function of SASPs in mediating cellular interactions and niche deregulation. Furthermore, we identify targetable SASP factors and demonstrate the possibility of using Maraviroc as a pharmacological senotherapeutic for treating age-associated sarcopenia in muscle. Lastly, we define transcription factors that govern senescence state and SASP induction in aging muscle and elucidate the key function and the underlying mechanism of JUNB in regulating SASP activation in senescent cells. Altogether, our findings demonstrate the prevalence and function of cellular senescence in skeletal muscle and identify a novel pharmacological intervention for sarcopenia.
Relationship between Serum Matrix Metalloproteinase-8 and Periodontitis: A PRISMA-Compliant Systematic Review and Meta-Analysis
Authors: Deng Yihong , You Hongxia , Zheng Yuyan , Jia Yiqun 
Published: December 2024

Abstract

Objectives: To determine whether the serum matrix metalloproteinase-8 (MMP-8) level is elevated in periodontitis patients compared with that in periodontally healthy individuals, we conducted a meta-analysis to assess its diagnostic value. This study aims to provide insight into the increased prevalence and severity of systemic diseases in periodontitis patients, as well as the potential of serum MMP-8 in the rapid diagnosis of periodontitis.
Methods: A comprehensive search following the PECO criteria of PubMed, Embase and the Cochrane Library from their inception to October 8, 2024, was conducted to retrieve comprehensive relevant articles. The complete selection procedure was meticulously documented with transparency and was registered in PROSPERO CRD42024608648. The methodological qualities of the included articles were evaluated following the Newcastle‒Ottawa Scale (NOS) grading system. The level of serum MMP-8 was converted to a standard (mean ± standard deviation (SD)), and meta-analysis was conducted with Review Manager 5.4 software. Sensitivity analyses were performed with Stata 17.0 software.
Results: A total of 12 studies, including 10 case‒control studies and 2 cohort studies, were ultimately included, with a total of 871 participants. The results of the meta-analysis revealed higher serum MMP-8 levels in periodontitis patients than in healthy controls (SMD 0.64, 95% CI 0.27 to 1.01; 12 studies, 871 participants). High heterogeneity (I2 = 86%) indicated variability in outcomes, possibly influenced by regional factors. Duval and Tweedie’s trim and fill procedure was conducted, and no evidence of a small study effect was found. Sensitivity analyses revealed great stability of the data included.
Conclusions: Our meta-analysis revealed that the serum MMP-8 level in periodontitis patients was likely greater than that in healthy subjects, but further studies on regional factors are needed to clarify this conclusion considering the degree of heterogeneity.
Enhanced Improvement and Comparable Survivorship in Cementless vs. Cemented Total Knee Arthroplasty: A 2-Year Analysis of Patient Reported Outcomes and 5-Year Analysis of Implant Survivorship
Authors: Pasqualini Ignacio , Huffman Nickelas , Khan Shujaa , Zielinski Matthew , Shen Jianhua , Hampp Emily , Masini Michael , Noble John , Bhowmik-Stoker Manoshi , Piuzzi Nicolas 
Published: December 2024

Abstract

Purpose
This study aimed to evaluate patient-reported outcomes, functional recovery, satisfaction, and implant survivorship for cementless and cemented TKA.
Methods
A prospective, non-randomized, multicenter study was conducted on 453 patients. Cohort 1 (n = 373 knees) received a fully cementless construct with the Triathlon Tritanium Tibial Baseplate, Triathlon Tritanium Patella, Triathlon CR or PS Beaded Femur with Peri-Apatite, and the Triathlon Tibial Insert. Cohort 2 (n = 147 knees) received a fully cemented construct with identical implant design. Oxford Knee Score (OKS), 2011 Knee Society Score (KSS), and Short Form 12 (SF12) scores were recorded preoperatively and at six weeks, six months, one year, and two years postoperatively. Implant survivorship and adverse events were also recorded.
Results
OKS (p = 0.0123), KSS Symptoms for pain (with level walking p = 0.0007; with stairs or incline p = 0.0037), KSS Patient satisfaction (p = 0.0004), and KSS Functional Activities (p = 0.0108) were significantly greater in Cohort 1 out to two years postoperatively. The Kaplan-Meier estimated all-cause survivorship was 98.2% (95% CI: 95.7–99.3%) for Cohort 1 and 97.5% (95% CI: 92.6–99.2%) for Cohort 2 (p = 0.4366).
Conclusion
Cementless TKA exhibited similar or greater patient outcomes, satisfaction, and function up to two years postoperative, while both cohorts showed comparable rates of adverse events and survivorship at five-year follow-up. This evidence underscores the clinical value and safety of cementless TKA.
Ultra-tough and super-robust hydrogel constructed through carbon dots induced crystallization domains integrated orientation regulation based on “pinning effect”
Authors: Wan Jianyong , Huo Huanxin , Shen Jingjie , Shi Haoran , Yang Hongxing , Duan Xin , Gao Yihong , Chen Yumeng , Kuang Feng , Li Hongshan , Du Guanben , Yang Long 
Published: December 2024

Abstract

In this study, we present a novel strategy in which carbon dots (CDs) are employed to induce the formation of crystalline domains and further fabricated super-strong hydrogels with high crystallinity, distinct anisotropic structures and dense networks based on “pinning effect”, specifically, CDs act as nanofillers and heterogeneous nucleating agents. As-prepared hydrogels exhibited exceptional swelling resistance, ultra-high tensile strength (156 MPa) and toughness (225.2 MJ m− 3), surpassing most of other tough polymers, including natural tendons, plastic, synthetic rubber and artificial spider silk, etc. Notably, the hydrogel can support loads up to approximately 1.5×105 times its own weight, highlighting their exceptional load-bearing capacity. Moreover, this strategy can be generalized to other CDs and adapted to environments with more stringent mechanical loads. This work not only offers new insights into the fabricating of ultra-robust hydrogels but also lays a foundation for the design and development of smart materials for underwater sensing.
The claustrum is critical for maintaining working memory information
Authors: Carleton Alan , bhattacharjee anindya , Huber Chieko , Unsal Burak , renfer jean-rodolphe , Rodriguez Ivan 
Published: December 2024

Abstract

Working memory (WM) is an essential cognitive function allowing the brain to temporarily hold and manipulate information. Rather than residing in a single store, information is believed to be maintained in a distributed network spanning cortical and subcortical regions. Here, we recorded glutamatergic projection neurons of the claustrum, a nucleus reciprocally connected to all cortical regions, in mice engaged in various delayed non-match to sample WM tasks. Claustrum neurons exhibited cue-selective and delay-specific activity, persisting for tens of seconds after stimulus presentation. Population activity allowed decoding of cue identity post-stimulus, though this signal gradually declined, mirroring behavior. Chemo- and optogenetic inhibition of claustrum neurons severely impaired WM performance across tasks, underscoring the claustrum's role during cue encoding, delay maintenance, and target comparison. These findings challenge the notion that no single brain region is indispensable for WM storage and highlight the claustrum as a pivotal hub for the WM engram.
Autonomous Microscopy Experiments through Large Language Model Agents
Authors: Krishnan N M Anoop , Mandal Indrajeet , Soni Jitendra , Zaki Mohd , Smedskjaer Morten , Wondraczek Katrin , Wondraczek Lothar , Gosvami Nitya Nand 
Published: December 2024

Abstract

The emergence of large language models (LLMs) has accelerated the development of self-driving laboratories (SDLs) for materials research. Despite their transformative potential, current SDL implementations rely on rigid, predefined protocols that limit their adaptability to dynamic experimental scenarios across different labs. A significant challenge persists in measuring how effectively AI agents can replicate the adaptive decision-making and experimental intuition of expert scientists. Here, we introduce AILA (Artificially Intelligent Lab Assistant), a framework that automates atomic force microscopy (AFM) through LLM-driven agents. Using AFM as an experimental testbed, we develop AFMBench—a comprehensive evaluation suite that challenges AI agents based on language models like GPT-4o and GPT-3.5 to perform tasks spanning the scientific workflow: from experimental design to results analysis. Our systematic assessment shows that state-of-the-art language models struggle even with basic tasks such as documentation retrieval, leading to a significant decline in performance in multi-agent coordination scenarios.Further, we observe that LLMs exhibit a tendency to not adhere to instructions or even divagate to additional tasks beyond the original request, raising serious concerns regarding safety alignment aspects of AI agents for SDLs. Finally, we demonstrate the application of AILA on increasingly complex experiments open-ended experiments: automated AFM calibration, high-resolution feature detection, and mechanical property measurement. Our findings emphasize the necessity for stringent benchmarking protocols before deploying AI agents as laboratory assistants across scientific disciplines.