bluuebunny/crossref_metadata_2025_split huggingface dataset:
An epicutaneous therapeutic pollen-allergen extract delivery system in the allergic rhinitis mouse model: based on allergen loading on DC-specific aptamers conjugated nanogolds
Authors: Pordel Safoora , Haghnavaz Navideh , Rezaee MohammadAli , Shobeiri Saeideh Sadat , Ansari Bahareh , Dashti Mohammadreza , Moghadam Malihe , Khorrami Motahare , Sankian Mojtaba 
Published: October 2023

Abstract
Background: We investigated whether gold nanoparticles (GNPs) and dendritic cells (DC)-specific aptamer-modified GNPs (Apts-GNP) could be effective for epicutaneous immunotherapy (EPIT) in the case of pollen allergen extracts containing a variety of allergenic and nonallergenic components.
Methods: BALB/c mice were sensitized to total protein extract of Platanus orientalis pollen and then epicutaneously treated in different groups either with free P. orientalis total pollen extract, naked GNPs, the total extract loaded GNPs, and the total extract loaded Apts-GNPs with and without skin-penetrating peptides (SPPs). We then examined the specific IgE level (sIgE), total IgE concentration (tIgE) in the serum sample, IL-4, IL-17a, IFN-γ, and IL-10 cytokine concentrations in re-stimulated splenocytes with the total extract and the mixture of its recombinant allergens, nasopharyngeal lavage fluid (NALF) analysis, and histopathological analysis of lung tissue.
Results: The current study showed that the total extract-loaded GNPs, especially Pla. ext (50 μg)-GNPs, significantly decreased sIgE, tIgE, IL-17a, and IL-4 concentrations, immune cells and eosinophils infiltration in NALF, and increased IL-10 and IFN-γ concentrations compared with the PBS-treated group. In addition, histopathological analysis of lung tissue showed that it also led to a remarkable decrease in allergic rhinitis (AR)-associated inflammation and histopathological damage. The DC-targeted group showed greatest improvement in AR-related immune factors and had no histopathological damage compared with the same dose without aptamer.
Conclusion: Consequently, it seems that loading total protein extract on the GNPs and the Apt-modified GNPs could be an effective approach to improve EPIT efficacy in pollen-induced AR.
Identification of Novel COPD Susceptibility Genes: A Genome-wide Interaction Study
Authors: Kim Chi Young , Park Boram , Jung Ji Ye , Kim Je Hyeong , Nam Chung Mo , Won Sungho , Kim Young Sam 
Published: October 2023

Abstract
Background: Variants of some genes are associated with chronic obstructive pulmonary disease (COPD). However, genetic susceptibility for lung function decline in the general population remains unclear. Here, we investigated the genetic susceptibility associated with lung function decline with or without COPD by analyzing a community.
Methods: A genome-wide interaction study was performed to identify the association between genetic variants and pulmonary function and examine their impact on lung impairment in terms of smoking status. We analyzed the association between genetic variants and lung function using a linear mixed model for association and interaction-to-time effects.
Results: We observed 8,554 participants for 12 years. The annual mean FEV1 declines were 41.7 mL (in men) and 33.4 mL (in women); the annual rate of FEV1 decline was the fastest for current smokers. A locus upstream of FAM13 on chromosome 4, which harbored the most significant single-nucleotide polymorphisms (SNPs), was previously identified from two likelihood ratio tests for FEV1/FVC; these SNPs had similar minor allele frequencies. Additionally, certain SNPs showed lower FEV1/FVC values. The rs75679995 SNP on chromosome 7 showed the highest association with lung function decline; the SNPs located within the DNAH11 region TAD and rs9991425 eQTL were associated with higher MFAP3L and AADAT expression.
Conclusion: This is the first gene-time interaction study of lung function decline as a risk factor for COPD in a community-based population. We replicated previously known signals for FAM13A and identified two novel genomic regions (DNAH11 and AADAT) involved in these gene-environment interactions.
Pan-cancer analysis reveals IL32 is a potential prognostic and immunotherapeutic biomarker in cancer
Authors: Han Feng , ma jianxin 
Published: October 2023

Abstract
Background:Interleukin 32 (IL32) is a pro-inflammatory cytokine that plays a key role in promoting sterile inflammation by modulating immune responses. However, the role of IL32 in various cancers remains unclear. This research aimed to investigate the correlation between IL32 expression and immunity and visualize its prognostic landscape in pan-cancer.
Methods: We investigated gene expression, genomic alterations, and survival analysis of IL32 in pan-cancer in numerous databases including TCGA, GTEx, cBioPortal, and GDC databases. Tumor immune cell infiltration was assessed using the CIBERSORT computational method as well as the ESTIMATE method to analyze the correlation of IL32 expression with stromal and immune components. Protein-protein interaction analysis was performed in the STRING and GeneMANIA databases, and gene function enrichment was performed by GO set enrichment analysis.
Results: Tumor tissues had higher IL32 expression levels than normal tissues. Elevated IL32 expression was associated with poor OS and prognosis. In addition, tumor stemness, TMB, MSI, and immune checkpoint genes were also associated with IL32 expression. Correlations were observed between IL32 expression and B cell, CD4T cell, CD8T cell, neutrophil, macrophage, and DC infiltration in multiple cancers. GO enrichment analysis showed that IL32 expression was associated with cancer pathways, cytokine-receptor interactions, and NOD-like receptor signaling pathways.
Conclusion: These findings suggest that IL32 may serve as a biomarker of cancer immune infiltration and poor prognosis, providing new therapeutic targets for cancer treatment.
Neutrophilia with damage to the blood-brain barrier and neurovascular unit following acute lung injury
Authors: Li Herman , Le Linh , Marrero Mariah , David-Bercholz Jennifer , Caceres Anabel Isabel , Lim Claire , Chiang Wesley , Majewska Ania , Terrando Niccolo , Gelbard Harris 
Published: October 2023

Abstract
Background: Links between acute lung injury (ALI), infectious disease, and neurological outcomes have been frequently discussed over the past few years, especially due to the COVID-19 pandemic. Yet, much of the cross-communication between organs, particularly the lung and the brain, has been understudied. Here, we have focused on the role of neutrophils in driving changes to the brain endothelium with ensuing microglial activation and neuronal loss in a model of ALI.
Methods: We have applied a three-dose paradigm of 10μg/40μl intranasal lipopolysaccharide (LPS) to induce neutrophilia accompanied by proteinaceous exudate in bronchoalveolar lavage fluid (BALF) in adult C57BL/6 mice. Brain endothelial markers, microglial activation, and neuronal cytoarchitecture were evaluated 24hr after the last intranasal dose of LPS or saline. C57BL/6-Ly6g(tm2621(Cre-tdTomato)Arte (Catchup mice) were used to measure neutrophil and blood-brain barrier permeability following LPS exposure with intravital 2-photon imaging.
Results: Three doses of intranasal LPS induced robust neutrophilia accompanied by proteinaceous exudate in BALF. ALI triggered central nervous system pathology as highlighted by robust activation of the cerebrovascular endothelium (VCAM1, CD31), accumulation of plasma protein (fibrinogen), microglial activation (IBA1, CD68), and decreased expression of proteins associated with postsynaptic terminals (PSD-95) in the hippocampal stratum lacunosum moleculare, a relay station between the entorhinal cortex and CA1 of the hippocampus. 2-photon imaging of Catchup mice revealed neutrophil homing to the cerebral endothelium in the blood-brain barrier and neutrophil extravasation from cerebral vasculature 24hr after the last intranasal treatment.
Conclusions: Overall, these data demonstrate ensuing brain pathology resulting from ALI, highlighting a key role for neutrophils in driving brain endothelial changes and subsequent neuroinflammation. This paradigm may have a considerable translational impact on understanding how infectious disease with ALI can lead to neurodegeneration, particularly in the elderly.
The NADase CD38 is a central regulator in gouty inflammation and a novel druggable therapeutic target
Authors: Alabarse Paulo Gil , Oliveira Patricia , Qin Huaping , Yan Tiffany , Migaud Marie , Terkeltaub Robert , Liu-Bryan Ru 
Published: October 2023

Abstract
Objectives: Cellular NAD+ declines in inflammatory states associated with increased activity of the leukocyte-expressed NADase CD38. In this study, we tested the potential role of therapeutically targeting CD38 and NAD+ in gout.
Methods: We studied cultured mouse wild type and CD38 knockout (KO) murine bone marrow derived macrophages (BMDMs) stimulated by monosodium urate (MSU) crystals and used the air pouch gout synovitis model.
Results: MSU crystals induced CD38 in BMDMs in vitro, associated with NAD+ depletion, and IL-1b and CXCL1 release, effects reversed by pharmacologic CD38 inhibitors (apigenin, 78c). Mouse air pouch inflammatory responses to MSU crystals were blunted by CD38 KO and apigenin. Pharmacologic CD38 inhibition suppressed MSU crystal-induced NLRP3 inflammasome activation and increased anti-inflammatory SIRT3-SOD2 activity in macrophages. BMDM RNA-seq analysis of differentially expressed genes (DEGs) revealed CD38 to control multiple MSU crystal-modulated inflammation pathways. Top DEGs included the circadian rhythm modulator GRP176, and the metalloreductase STEAP4 that mediates iron homeostasis, and promotes oxidative stress and NF-kB activation when it is overexpressed.
Conclusions: CD38 and NAD+ depletion are druggable targets controlling the MSU crystal- induced inflammation program. Targeting CD38 and NAD+ are potentially novel selective molecular approaches to limit gouty arthritis.
Butyric acid is potent protective agent that targets RhoA/ROCK2/MLCK signaling pathway in LPS-induced intestinal mucosal barrier damage
Authors: Liu Luqiong , Chen Tong , Xie Zhenrong , Zhang Yongjin , He Chenglu , Huang Yongkun 
Published: October 2023

Abstract
Butyric acid (BA) could improve intestinal barrier function, meanwhile RhoA/ROCK2/MLCK signaling pathway has been confirmed vital in the maintenance of intestinal epithelial permeability. However, the specific mechanism by which BA protects intestine mucosal barrier still needs to be clarified. Here, the optimal time and concentration were explored. Then, cell growth status, TEER and FD-4 permeability, the mRNA expression of ZO-1 and Occludin, RhoA, ROCK2 and MLCK, and the expression and distribution of them in Caco2 were detected. After that, RhoA/ROCK2/MLCK pathway inhibitor Y-27632 was adopted. The final concentration of 0.2mM BA and 5ug/ml LPS treatment for 24 h was confirmed. Compared with LPS alone, BA improved the growth state of Caco2 cells, restored the declined TEER, reduced FD-4 permeability, improved the mRNA expression of ZO-1, Occludin and restored their distrbution, as well as inhibited the mRNA expression of RhoA, ROCK2 and MLCK, and the reversed their location. After treatment of Y-276432, the cell growth state and mucosal barrier function, the mRNA expression of ZO-1 and Occludin and their location were further improved, while the pathway was inhibitied. This study provided complementary data for BA as a potential target for attenuating LPS-induced intestinal barrier injury through inhibiting the RhoA/ROCK2/MLCKpathway.
Factors Influencing Open Science Participation Through Research Data Sharing and Reuse Among Researchers:
A Systematic Literature Review
Authors: Ahmed Mahfooz , Othman Roslina , Noordin Mohamad Fauzan 
Published: October 2023

Abstract

This systematic literature review investigates the influential factors guiding researchers' active engagement in open science through research data sharing and subsequent reuse, spanning various scientific disciplines. The review addresses key objectives and questions, including identifying distinct sample types, data collection methods, critical factors, and existing gaps within the body of literature concerning data sharing and reuse in open science. The methodology employed in the review was detailed, outlining a series of systematic steps. These steps encompass the systematic search and selection of relevant studies, rigorous data extraction and analysis, comprehensive evaluation of selected studies, and transparent reporting of the resulting findings. The review's evaluation process was governed by well-defined inclusion and exclusion criteria, encompassing publication dates, language, study design, and research outcomes. Furthermore, it adheres to the PRISMA 2020 flow diagram, effectively illustrating the progression of records through the review stages, highlighting the number of records identified, screened, included, and excluded. The findings include a concise tabular representation summarising data extracted from the 51 carefully selected studies incorporated within the review. The table provides essential details, including study citations, sample sizes, data collection methodologies, and key factors influencing open science data sharing and reuse. Additionally, common themes and categories among these influential factors are identified, shedding light on overarching trends in the field. In conclusion, this systematic literature review offers valuable insights into the multifaceted landscape of open science participation, emphasising the critical role of research data sharing and reuse. It is a comprehensive resource for researchers and practitioners interested in further understanding the dynamics and factors shaping the open science ecosystem.
Rationally-defined microbial consortia suppress multidrug-resistant proinflammatory Enterobacteriaceae via ecological control
Authors: Honda Kenya , Furuichi Munehiro , Kawaguchi Takaaki , Pust Marie-Madlen , Yasuma-Mitobe Keiko , Plichta Damian , Hasegawa Naomi , Ohya Takashi , Bhattarai Shakti , Sasajima Satoshi , Yoshimasa Aoto , Tuganbaev Timur , Yaginuma Mizuki , Ueda Masahiro , Okahashi Nobuyuki , Amafuji Kimiko , Kiridooshi Yuuko , Sugita Kayoko , Stražar Martin , Skelly Ashwin , Suda Wataru , Hattori Masahira , Nakamoto Nobuhiro , Caballero Silvia , Norman Jason , Olle Bernat , Tanoue Takeshi , Arita Makoto , Bucci Vanni , Atarashi Koji , Xavier Ramnik 
Published: October 2023

Abstract

Persistent colonization and outgrowth of pathogenic organisms in the intestine may occur due to long-term antibiotic usage or inflammatory conditions, which perpetuate dysregulated immunity and tissue damage1,2. Gram-negative Enterobacteriaceae gut pathobionts are particularly recalcitrant to conventional antibiotic treatment3,4, though an emerging body of evidence suggests that manipulation of the commensal microbiota may be a practical alternative therapeutic strategy5-7. In this study, we rationally isolated and down-selected commensal bacterial consortia from healthy human stool samples capable of strongly and specifically suppressing intestinal Enterobacteriaceae. One of the elaborated consortia, consisting of 18 commensal strains, effectively controlled ecological niches by regulating gluconate availability, thereby reestablishing colonization resistance and alleviating antibiotic-resistant Klebsiella-driven intestinal inflammation in mice. Harnessing these microbial activities in the form of live bacterial therapeutics may represent a promising solution to combat the growing threat of proinflammatory, antimicrobial-resistant bacterial infection.
microRNAs modulate immunological and inflammatory responses in Holstein cattle naturally infected with Mycobacterium avium subsp. paratuberculosis
Authors: Badia-Bringué Gerard , Canive Maria , Blanco-Vázquez Cristina , Torremocha Rosana , Ovalle Susana , Ramos Ricardo , Casais Rosa , Alonso-Hearn Marta 
Published: October 2023

Abstract

MicroRNAs (miRNAs) regulate the post-transcriptional expression of genes by binding to their target mRNAs. In this study, whole miRNA sequencing was used to compare the expression of miRNAs in ileocecal valve (ICV) and peripheral blood (PB) samples of cows with focal or diffuse paratuberculosis (PTB)-associated lesions in gut tissuesversus(vs) control cows without lesions. Among the eight miRNAs differentially expressed in the PB samples from cows with diffuse lesionsvscontrols, three (miR-19a, miR-144, miR32) were also down-regulated in cows with diffusevsfocal lesions. In the ICV samples, we identified a total of 4, 5, and 18 miRNAs differentially expressed in cows with focal lesionsvscontrols, diffuse lesionsvscontrols, and diffusevsfocal lesions, respectively. The expression changes observed in five of the differentially expressed microRNAs (miR-19a, miR-144, miR-2425-3p, miR-139, miR-101) were validated using RT-qPCR. Next, mRNA target prediction was performed for each differentially expressed miRNA. A functional analysis using the predicted gene targets revealed a significant enrichment of the RNA polymerase and MAPK signaling pathways in the comparison of cows with focalvsno lesions and with diffusevsfocal lesions, respectively. The identified miRNAs could be used for the development of novel diagnostic and therapeutical tools for PTB control.
A Distributed Approach to Meteorological Predictions: Addressing Data Imbalance in Precipitation Prediction Models through Federated Learning and GANs
Authors: Jafarigol Elaheh , Trafalis Theodore 
Published: October 2023

Abstract

The classification of weather data involves categorizing meteorological phenomena into classes, thereby facilitating nuanced analyses and precise predictions for various sectors such as agriculture, aviation, and disaster management. This involves utilizing machine learning models to analyze large, multidimensional weather datasets for patterns and trends. These datasets may include variables such as temperature, humidity, wind speed, and pressure, contributing to meteorological conditions. Furthermore, it’s imperative that classification algorithms proficiently navigate challenges such as data imbalances, where certain weather events (e.g., storms or extreme temperatures) might be underrepresented. This empirical study explores data augmentation methods to address imbalanced classes in tabular weather data in centralized and federated settings. Employing data augmentation techniques such as the Synthetic Minority Over-sampling Technique or Generative Adversarial Networks can improve the model's accuracy in classifying rare but critical weather events. Moreover, with advancements in federated learning, machine learning models can be trained across decentralized databases, ensuring privacy and data integrity while mitigating the need for centralized data storage and processing. Thus, the classification of weather data stands as a critical bridge, linking raw meteorological data to actionable insights, enhancing our capacity to anticipate and prepare for diverse weather conditions.
Comparison of the long-term efficacy of ROI-C and conventional cage-plate in treatment of spinal cord injury without fracture or dislocation: a retrospective study
Authors: Lu Hui , Li Renjie , Wang Cailin , Fang Mei , Qian Jianxue , Qian Bin , Song Yi , Jiang Xinchao , Chen Jie 
Published: October 2023

Abstract
Background
The self-locking cage (ROI-C, LDR, Troyes, France) has been clinically applied in treating cervical degenerative disc disease (CDDD). However, only a few long-term clinical and radiographic studies have been performed in the treatment of spinal cord injury without fracture or dislocation (SCIWFD) so far. A comparison between ACDF with either ROI-C or CCP was performed to determine the better treatment for SCIWFD.
Methods
A total of 83 patients who underwent ACDF using either ROI-C or CCP were reviewed for radiological and clinical outcomes. There are 60 males and 23 females, aged between 32 and 88 years old, with an average age of 58.23 years. All patients had symptoms of nerve injury, including limb numbness, muscle weakness, hypoesthesia or urinary dysfunction. Preoperative ASIA classification of spinal nerve function: 7 cases of grade A, 23 cases of grade B, 34 cases of grade C and 19 cases of grade D were included in the study.
Results
48 patients underwent ACDF with ROI-C and 35 patients with conventional cage-plate. They were studied with a follow-up of 28.63 ± 17.41 months and 29.48 ± 15.43 months respectively. No significant difference was found in blood loss, JOA and ASIA between the two groups. No significant difference was found in cervical lordosis (CL) (P > 0.05). Statistical difference was found in disc height of fused segment and T1 slope between the two groups (P < 0.05). No statistical difference was in the incidence of cage subsidence (P > 0.05). There was significant difference in the incidence of dysphagia. Both of two groups achieved bony fusion at final follow-up.
Conclusion
Our study demonstrated that ROI-C has the same efficacy as CCP in improving the cervical stability in treatment of SCIWFD. The migration of cage didn’t occur in ROI-C group at final follow-up, showing steadily fixed in cervical column. Moreover, the ROI-C does have the advantages of good therapeutic effect, mis-invasive, shorter operation time and fewer complications.
15-Year Analysis of Surgical Approaches and Outcomes for Coarctation in 132 Neonates and Infants
Authors: Jacobs Jeffrey P. , Sharaf Omar M. , Peek Giles J. , Pitkin Andrew D. , Beltran Susana C. Cruz , Lopez-Colon Dalia , Nixon Connie S. , Bleiweis Mark S. , Stukov Yuriy 
Published: October 2023

Abstract
Background: A variety of surgical approaches exist to treat aortic coarctation in neonates and infants. Our institutional approach is designed to match the surgical approach to the individual anatomy of the patient. The objective of this study is to evaluate operative characteristics and outcomes of all neonates and infants undergoing surgical repair of aortic coarctation or hypoplastic aortic arch.
Methods: Retrospective review of 132 patients aged 0-1 year who underwent surgical repair of coarctation or hypoplastic aortic arch between 2006 and 2021, inclusive, either in isolation or with concomitant repair of atrial septal defect (ASD) and/or ventricular septal defect (VSD). Patients were divided into two groups based on the surgical approach: Group 1 = Median Sternotomy and Group 2 = Left Lateral Thoracotomy. Continuous variables are presented as median (minimum-maximum); categorical variables are presented as N (%).
Results: The most common operative technique in Group 1 was end-to-side reconstruction with ligation of the aortic isthmus. The most common operative technique in Group 2 was extended end-to-end repair. Operative Mortality was one patient (1/132 = 0.76%). Transcatheter intervention for recurrent coarctation was performed in seven patients (7/132 = 5.3%). Surgical re-intervention for recurrent coarctation was performed in three patients (3/132 = 2.3%).
Conclusions: A strategy of matching the surgical approach to the anatomy for neonates and infants undergoing surgical repair of coarctation or hypoplastic aortic arch, either in isolation or with concomitant repair of ASD and/or VSD, is associated with <1% Operative Mortality and <3% recurrent coarctation requiring reoperation.