bluuebunny/crossref_metadata_2025_split huggingface dataset:
Small AAAs: Recommendations for Rodent Model Research for the Identification of Novel Therapeutics
Authors: Golledge Jonathan , Lu Hong S. , Curci John A. 
Published: June 2024

Clinical problem:
Most abdominal aortic aneurysms (AAAs) are small with low rupture risk (<1%/y) when diagnosed but slowly expand to ≥55 mm and undergo surgical repair. Patients and clinicians require medications to limit AAA growth and rupture, but drugs effective in animal models have not translated to patients.

Recommendations for increasing translation from mouse models:
Use models that simulate human AAA tissue pathology, growth patterns, and rupture; focus on the clinically relevant outcomes of growth and rupture; design studies with the rigor required of human clinical trials; monitor AAA growth using reproducible ultrasound; and perform studies in both males and females.

Summary of strengths and weaknesses of mouse models:
The aortic adventitial elastase oral β-aminopropionitrile model has many strengths including simulating human AAA pathology and modeling prolonged aneurysm growth. The Ang II (angiotensin II) model performed less well as it better simulates acute aortic syndrome than AAA. The elastase plus TGFβ (transforming growth factor-β) blocking antibody model displays a high rupture rate, making prolonged monitoring of AAA growth not feasible. The elastase perfusion and calcium chloride models both display limited AAA growth.
Toll-Like Receptors Mediate Opposing Dendritic Cell Effects on Treg/Th17 Balance in Mice With Intracerebral Hemorrhage
Authors: Zhu Li , Shang Junkui , Li Yinuo , Zhang Zhiying , Fu Peiji , Zong Yan , Chen Shuai , Wang Junmin , Zhang Jiewen , Wang Jian , Jiang Chao 
Published: June 2024

BACKGROUND:
Dendritic cells (DCs) regulate the immune response associated with T lymphocytes, but their role in stroke remains unclear. In this study, we investigated the causal relationship between DCs and T-cell response in intracerebral hemorrhage (ICH) by focusing on TLRs (toll-like receptors) that may modulate the function of DCs.

METHODS:
We studied the effects of TLR4, TLR2, and TLR9 on DC-mediated T-cell response and the outcomes of ICH using male C57BL/6 and CD11c-DTx (diphtheria toxin) receptor mice. We administered specific agents intraperitoneally or orally and evaluated the results using flow cytometry, real-time polymerase chain reaction, Western blotting, immunofluorescence staining, histopathology, and behavioral tests.

RESULTS:
TLR4 and TLR2 activation induces DC maturation and reduces the ratio of regulatory T to T-helper 17 cells in the brain and periphery after ICH. When either of these receptors is activated, it can worsen neuroinflammation and exacerbate ICH outcomes. TLR9 also promotes DC maturation, stabilizing the number of DCs, particularly conventional DCs. TLR9 has the opposite effects on regulatory T/T-helper 17 balance, neuroinflammation, and ICH outcomes compared with TLR4 and TLR2. Upon stimulation, TLR4 and TLR9 may achieve these effects through the p38-MAPK (p38-mitogen-activated protein kinase)/MyD88 (myeloid differentiation primary response gene 88) and indoleamine 2,3-dioxygenase 1 (IDO1)/GCN2 (general control nonderepressible 2) signaling pathways, respectively. DCs act as intermediaries for TLR-mediated T-cell response.

CONCLUSIONS:
TLR-mediated opposing effects of DCs on T-cell response may provide novel strategies to treat ICH.
Unleashing the Power of Engage Virtual Reality Learning App: A Syntactic Complexity Boost in Intermediate EFL Students' Oral Performance
Authors: Saeedizadeh Erfan , Khodabandeh Farzaneh 
Published: June 2024

Abstract
In light of the growing enthusiasm in harnessing virtual reality (VR) for educational purposes, this study explores the effectiveness of integrating the Engage Virtual Reality Learning App to enhance the syntactic complexity of oral performances among intermediate EFL students. A cohort of thirty intermediate EFL students was enlisted, divided into an experimental group of 15 and a control group of 15. Initially, the groups underwent a homogeneity assessment utilizing the Preliminary English Test (PET). During the intervention phase, the experimental group utilized the Engage Virtual Reality Learning App for speaking practice, while the comparison group received conventional instruction devoid of VR-based components. The analysis employed descriptive statistics for mean scores and standard deviations, supplemented by a one-way ANCOVA analysis to examine group performance and evaluate the impact of the treatment. The results unveiled a significant enhancement in the oral proficiency of the experimental group in terms of syntactic complexity, underscoring the affirmative influence of integrating the Engage Virtual Reality Learning App. These findings underscore the potential of VR-based instruction to augment authentic language experiences, foster sociocultural learning, stimulate cognitive engagement, yield affective benefits, and contribute to overall language acquisition among intermediate EFL learners.
Using the Observed Variations of the Start Date of the Rainy Season over Central America for Its Reliable Seasonal Outlook
Authors: Rodgers Joanna , Misra Vasubandhu , Jayasankar C. B. 
Published: June 2024

Abstract
We introduce a simple method to define the start and the end of the rainiest part of the year as the first and the last day of the year when the daily rain rate is more or less than the annual mean climatological rain rate for a region or at a given grid point of the rainfall analysis, respectively. A novelty of this work is the adoption of a perturbation technique to generate a total of 1001 ensemble members to account for observational and analysis uncertainties. This allows for a probabilistic estimate of the start and retreat dates of the rainy season at the granularity of the Integrated Multi-satellitE Retrievals for Global Precipitation Measurement (IMERG), version 6, rainfall analysis over Central America. The seasonal cycle of the IMERG rainfall analysis is also found to verify with in situ observations in the region. Many large-scale climate drivers affect regional rainfall, often with complex interactions that affect the onset date, retreat date, and magnitude of the seasonal rainfall cycle, making it difficult to predict the length or total quantity of seasonal rainfall using climate drivers alone. Once an onset date is established, however, this metric alone can be more indicative of both the length and total seasonal rainfall anomaly than predicting how the climate drivers will interact to affect the quantity and duration of upcoming seasonal rainfall. The local relationships of the start date with seasonal length and rainfall anomaly are leveraged to produce effective seasonal outlooks of the rainy season for the region by just monitoring the start date variations.

Significance Statement
The start date and retreat date of the rainy season in Central America are defined every year, precisely to a specific date from our proposed definition of it. This is possible because the region exhibits a strong seasonality of the rainfall. As a result, the year-to-year (interannual) variation of the seasonal rainfall during the rainy season is also determined by the variations in the length of the season that are usually overlooked in fixed calendar seasons. We define the start or retreat date of the rainy season as the first or the last day of the year when the daily rain rate exceeds or falls below the average daily rainfall from 2001 to 2022, respectively. We also find that both start and retreat date variations independently influence the length and total seasonal rainfall of the rainy season. Consequently, these relationships are leveraged to provide an outlook of the forthcoming rainy season from the diagnosis of the variations of its onset date, which is shown to be an effective predictor with significant useful seasonal prediction skills.
Employing a mixture of fine-particle PKS, glycerol, and citric acid as an eco-friendly binder for plywood production from rubberwood (Hevea brasiliensis) veneer
Authors: Choowang Rattana , Luengchavanon Montri , Raknarong Jiraporn 
Published: June 2024

AbstractBiomass-based adhesives, which are environmentally friendly and sustainable materials enabling low formaldehyde wood composites, have garnered interest. Therefore, palm kernel shells (PKS), available as industrial agricultural residue and rich in lignin, are mixed in form of fine particles with glycerol and citric acid, and tested as a candidate for binder in plywood production. The study focused on examining the effects of two factors: the quantity of adhesive used and the pressing temperature. Glycerol and citric acid are low-cost non-toxic chemicals that activate the functional groups and induce changes in the PKS component during hot pressing. Consequently, the mixtures with PKS as fine particles could cross-link with rubberwood veneer, forming a plywood panel with shear strength and bending strength that meet the requirements outlined in ISO 12466-2: part 2, and in Thai industrial standard (TIS 178-2549) for indoor use. The properties of plywood were primarily influenced by the pressing temperature rather than by the quantity of adhesive. Specifically, the temperatures 180 °C and 200 °C enhanced the extent to which the molten binder penetrated the rubberwood surface, consequently improving the mechanical properties and water resistance of the bonding.
Recent Advances in Crimean-Congo Hemorrhagic Fever Virus Detection, Treatment, and Vaccination: Overview of Current Status and Challenges
Authors: Muzammil Khursheed , Rayyani Saba , Abbas Sahib Ahmed , Gholizadeh Omid , Naji Sameer Hayder , Jwad Kazem Tareq , Badran Mohammed Haneen , Ghafouri Kalajahi Hesam , Zainul Rahadian , Yasamineh Saman 
Published: June 2024

AbstractCrimean-Congo hemorrhagic fever virus (CCHFV) is a tick-borne virus, and zoonosis, and affects large regions of Asia, Southwestern and Southeastern Europe, and Africa. CCHFV can produce symptoms, including no specific clinical symptoms, mild to severe clinical symptoms, or deadly infections. Virus isolation attempts, antigen-capture enzyme-linked immunosorbent assay (ELISA), and reverse transcription polymerase chain reaction (RT-PCR) are all possible diagnostic tests for CCHFV. Furthermore, an efficient, quick, and cheap technology, including biosensors, must be designed and developed to detect CCHFV. The goal of this article is to offer an overview of modern laboratory tests available as well as other innovative detection methods such as biosensors for CCHFV, as well as the benefits and limits of the assays. Furthermore, confirmed cases of CCHF are managed with symptomatic assistance and general supportive care. This study examined the various treatment modalities, as well as their respective limitations and developments, including immunotherapy and antivirals. Recent biotechnology advancements and the availability of suitable animal models have accelerated the development of CCHF vaccines by a substantial margin. We examined a range of potential vaccines for CCHF in this research, comprising nucleic acid, viral particles, inactivated, and multi-epitope vaccines, as well as the present obstacles and developments in this field. Thus, the purpose of this review is to present a comprehensive summary of the endeavors dedicated to advancing various diagnostic, therapeutic, and preventive strategies for CCHF infection in anticipation of forthcoming hazards.Graphical Abstract
Academic or vocational education? A comparison of the long-term wage development of academic and vocational tertiary degree holders
Authors: Kriesi Irene , Sander Fabian 
Published: June 2024

AbstractEducation is a key determinant of wage development. The relationship between education and wages is particularly strong in countries with vocationally oriented educational systems and a clear distinction between general and vocational education, such as Germany and Switzerland. However, whether general and vocational education offer the same returns to education is an ongoing debate. Previous findings from international research are still inconclusive. Against this background and based on theoretical arguments from human capital and signalling theory and the task-specific learning-by-doing approach, our paper examines the long-term wage development of Swiss university and professional education degree holders from the time they obtain their tertiary degree until their late career. It asks how differences between the two groups in wage development may be explained. Our results, produced with regression decomposition methods, show that within the first 20 years after graduation, university degree holders experience steeper wage growth. An important reason for this difference is that university graduates move more often than vocational tertiary degree holders into well-paid labour market positions endowed with formal authority, management responsibility, and a large proportion of cognitive nonroutine tasks.
Predictive ability of multi-population genomic prediction methods of phenotypes for reproduction traits in Chinese and Austrian pigs
Authors: Wang Xue , Zhang Zipeng , Du Hehe , Pfeiffer Christina , Mészáros Gábor , Ding Xiangdong 
Published: June 2024

Abstract
Background
Multi-population genomic prediction can rapidly expand the size of the reference population and improve genomic prediction ability. Machine learning (ML) algorithms have shown advantages in single-population genomic prediction of phenotypes. However, few studies have explored the effectiveness of ML methods for multi-population genomic prediction.

Results
In this study, 3720 Yorkshire pigs from Austria and four breeding farms in China were used, and single-trait genomic best linear unbiased prediction (ST-GBLUP), multitrait GBLUP (MT-GBLUP), Bayesian Horseshoe (BayesHE), and three ML methods (support vector regression (SVR), kernel ridge regression (KRR) and AdaBoost.R2) were compared to explore the optimal method for joint genomic prediction of phenotypes of Chinese and Austrian pigs through 10 replicates of fivefold cross-validation. In this study, we tested the performance of different methods in two scenarios: (i) including only one Austrian population and one Chinese pig population that were genetically linked based on principal component analysis (PCA) (designated as the “two-population scenario”) and (ii) adding reference populations that are unrelated based on PCA to the above two populations (designated as the “multi-population scenario”). Our results show that, the use of MT-GBLUP in the two-population scenario resulted in an improvement of 7.1% in predictive ability compared to ST-GBLUP, while the use of SVR and KKR yielded improvements in predictive ability of 4.5 and 5.3%, respectively, compared to MT-GBLUP. SVR and KRR also yielded lower mean square errors (MSE) in most population and trait combinations. In the multi-population scenario, improvements in predictive ability of 29.7, 24.4 and 11.1% were obtained compared to ST-GBLUP when using, respectively, SVR, KRR, and AdaBoost.R2. However, compared to MT-GBLUP, the potential of ML methods to improve predictive ability was not demonstrated.

Conclusions
Our study demonstrates that ML algorithms can achieve better prediction performance than multitrait GBLUP models in multi-population genomic prediction of phenotypes when the populations have similar genetic backgrounds; however, when reference populations that are unrelated based on PCA are added, the ML methods did not show a benefit. When the number of populations increased, only MT-GBLUP improved predictive ability in both validation populations, while the other methods showed improvement in only one population.
Can large language models understand molecules?
Authors: Sadeghi Shaghayegh , Bui Alan , Forooghi Ali , Lu Jianguo , Ngom Alioune 
Published: June 2024

Abstract
Purpose
Large Language Models (LLMs) like Generative Pre-trained Transformer (GPT) from OpenAI and LLaMA (Large Language Model Meta AI) from Meta AI are increasingly recognized for their potential in the field of cheminformatics, particularly in understanding Simplified Molecular Input Line Entry System (SMILES), a standard method for representing chemical structures. These LLMs also have the ability to decode SMILES strings into vector representations.

Method
We investigate the performance of GPT and LLaMA compared to pre-trained models on SMILES in embedding SMILES strings on downstream tasks, focusing on two key applications: molecular property prediction and drug-drug interaction prediction.

Results
We find that SMILES embeddings generated using LLaMA outperform those from GPT in both molecular property and DDI prediction tasks. Notably, LLaMA-based SMILES embeddings show results comparable to pre-trained models on SMILES in molecular prediction tasks and outperform the pre-trained models for the DDI prediction tasks.

Conclusion
The performance of LLMs in generating SMILES embeddings shows great potential for further investigation of these models for molecular embedding. We hope our study bridges the gap between LLMs and molecular embedding, motivating additional research into the potential of LLMs in the molecular representation field. GitHub: https://github.com/sshaghayeghs/LLaMA-VS-GPT.
Genome-wide identification of JAZ gene family members in autotetraploid cultivated alfalfa (Medicago sativa subsp. sativa) and expression analysis under salt stress
Authors: Yan Wei , Dong Xueming , Li Rong , Zhao Xianglong , Zhou Qiang , Luo Dong , Liu Zhipeng 
Published: June 2024

Abstract
Background
Jasmonate ZIM-domain (JAZ) proteins, which act as negative regulators in the jasmonic acid (JA) signalling pathway, have significant implications for plant development and response to abiotic stress.

Results
Through a comprehensive genome-wide analysis, a total of 20 members of the JAZ gene family specific to alfalfa were identified in its genome. Phylogenetic analysis divided these 20 MsJAZ genes into five subgroups. Gene structure analysis, protein motif analysis, and 3D protein structure analysis revealed that alfalfa JAZ genes in the same evolutionary branch share similar exon‒intron, motif, and 3D structure compositions. Eight segmental duplication events were identified among these 20 MsJAZ genes through collinearity analysis. Among the 32 chromosomes of the autotetraploid cultivated alfalfa, there were 20 MsJAZ genes distributed on 17 chromosomes. Extensive stress-related cis-acting elements were detected in the upstream sequences of MsJAZ genes, suggesting that their response to stress has an underlying function. Furthermore, the expression levels of MsJAZ genes were examined across various tissues and under the influence of salt stress conditions, revealing tissue-specific expression and regulation by salt stress. Through RT‒qPCR experiments, it was discovered that the relative expression levels of these six MsJAZ genes increased under salt stress.

Conclusions
In summary, our study represents the first comprehensive identification and analysis of the JAZ gene family in alfalfa. These results provide important information for exploring the mechanism of JAZ genes in alfalfa salt tolerance and identifying candidate genes for improving the salt tolerance of autotetraploid cultivated alfalfa via genetic engineering in the future.
Metabolic differences in MSTN and FGF5 dual-gene edited sheep muscle cells during myogenesis
Authors: Chen Mingming , Li Yan , Xu Xueling , Wang Shuqi , Liu Zhimei , Qi Shiyu , Si Dandan , Man Zhuo , Deng Shoulong , Liu Guoshi , Zhao Yue , Yu Kun , Lian Zhengxing 
Published: June 2024

AbstractDynamic metabolic reprogramming occurs at different stages of myogenesis and contributes to the fate determination of skeletal muscle satellite cells (MuSCs). Accumulating evidence suggests that mutations in myostatin (MSTN) have a vital role in regulating muscle energy metabolism. Here, we explored the metabolic reprogramming in MuSCs and myotube cells in MSTN and FGF5 dual-gene edited sheep models prepared previously, and also focused on the metabolic alterations during myogenic differentiation of MuSCs. Our study revealed that the pathways of nucleotide metabolism, pantothenate and CoA biosynthesis were weakened, while the unsaturated fatty acids biosynthesis were strengthened during myogenic differentiation of sheep MuSCs. The MSTN and FGF5 dual-gene editing mainly inhibited nucleotide metabolism and biosynthesis of unsaturated fatty acids in sheep MuSCs, reduced the number of lipid droplets in per satellite cell, and promoted the pentose phosphate pathway, and the interconversion of pentose and glucuronate. The MSTN and FGF5 dual-gene editing also resulted in the inhibition of nucleotide metabolism and TCA cycle pathway in differentiated myotube cells. The differential metabolites we identified can be characterized as biomarkers of different cellular states, and providing a new reference for MSTN and FGF5 dual-gene editing in regulation of muscle development. It may also provide a reference for the development of muscle regeneration drugs targeting biomarkers.
The angiotensin II receptors type 1 and 2 modulate astrocytes and their crosstalk with microglia and neurons in an in vitro model of ischemic stroke
Authors: Olschewski Daniel Navin , Nazarzadeh Nilufar , Lange Felix , Koenig Anna Maria , Kulka Christina , Abraham Jella-Andrea , Blaschke Stefan Johannes , Merkel Rudolf , Hoffmann Bernd , Fink Gereon Rudolf , Schroeter Michael , Rueger Maria Adele , Vay Sabine Ulrike 
Published: June 2024

Abstract
Background
Astrocytes are the most abundant cell type of the central nervous system and are fundamentally involved in homeostasis, neuroprotection, and synaptic plasticity. This regulatory function of astrocytes on their neighboring cells in the healthy brain is subject of current research. In the ischemic brain we assume disease specific differences in astrocytic acting. The renin–angiotensin–aldosterone system regulates arterial blood pressure through endothelial cells and perivascular musculature. Moreover, astrocytes express angiotensin II type 1 and 2 receptors. However, their role in astrocytic function has not yet been fully elucidated. We hypothesized that the angiotensin II receptors impact astrocyte function as revealed in an in vitro system mimicking cerebral ischemia.
Astrocytes derived from neonatal wistar rats were exposed to telmisartan (angiotensin II type 1 receptor-blocker) or PD123319 (angiotensin II type 2 receptor-blocker) under normal conditions (control) or deprivation from oxygen and glucose. Conditioned medium (CM) of astrocytes was harvested to elucidate astrocyte-mediated indirect effects on microglia and cortical neurons.

Result
The blockade of angiotensin II type 1 receptor by telmisartan increased the survival of astrocytes during ischemic conditions in vitro without affecting their proliferation rate or disturbing their expression of S100A10, a marker of activation. The inhibition of the angiotensin II type 2 receptor pathway by PD123319 resulted in both increased expression of S100A10 and proliferation rate. The CM of telmisartan-treated astrocytes reduced the expression of pro-inflammatory mediators with simultaneous increase of anti-inflammatory markers in microglia. Increased neuronal activity was observed after treatment of neurons with CM of telmisartan- as well as PD123319-stimulated astrocytes.

Conclusion
Data show that angiotensin II receptors have functional relevance for astrocytes that differs in healthy and ischemic conditions and effects surrounding microglia and neuronal activity via secretory signals. Above that, this work emphasizes the strong interference of the different cells in the CNS and that targeting astrocytes might serve as a therapeutic strategy to influence the acting of glia-neuronal network in de- and regenerative context.