Ontology highlight
ABSTRACT:
PROVIDER: PRJNA530270 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8833930_1.fastq.gz | Fastqsanger.gz | |||
| SRR8833930_2.fastq.gz | Fastqsanger.gz | |||
| SRR8833940_1.fastq.gz | Fastqsanger.gz | |||
| SRR8833940_2.fastq.gz | Fastqsanger.gz | |||
| SRR8833950_1.fastq.gz | Fastqsanger.gz |
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Project description:Chronic rhinosinusitis with nasal polyps is a hallmaerk disease in the field of upper airway immunity and chronic inflammation. Diverse inflammatory patterns between nasal polyps have been described in patients that hail from disparate racial and geographic backgrounds. However, it remains unclear whether these immunologic differences in nasal polyps between racial groups are driven by unique molecular mechanisms. We interrogated the gene expression profiles of nasal polyp tissues from Western (United States) and East Asian (Japan) descent, compared to ethmoid sinus tissue controls.
2021-12-15 | GSE179268 | GEO
Project description:Chronic rhinosinusitis with nasal polyps is a hallmaerk disease in the field of upper airway immunity and chronic inflammation. Diverse inflammatory patterns between nasal polyps have been described in patients that hail from disparate racial and geographic backgrounds. However, it remains unclear whether these immunologic differences in nasal polyps between racial groups are driven by unique molecular mechanisms. We interrogated the gene expression profiles of nasal polyp tissues from Western (United States) and East Asian (Japan) descent, compared to ethmoid sinus tissue controls.
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Project description:Nasal microbial diversity in Australian Indigenous children in relation to Otitis Media
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Project description:There is a paucity of data on how the mucosal immune system changes with age. Moreover, the link between nasal presence of bacteria and viruses with the immune system in young children is still poorly understood. To address these questions we collected nasal curettes, nasal swabs and filter papers from young children undergoing anesthesia for surgery unrelated to respiratory complaints. Microbial and host parameters were analysed from these samples, including transcriptomics from nasal curettes and swabs. Results revealed strong differences in nasal mucosal immunity in children compared with adutls, as well as clear effects of the presence of bacteria such as pneumococcus and haemophilus on the local immune system
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Project description:Objective: This study combines transcriptomics and network pharmacology to explore the mechanism of action of Jia Wei Xing Bi Gel nasal drops in treating allergic rhinitis (AR) in children. Methods: A total of 56 AR children were randomly divided into Jia Wei Xing Bi Gel nasal drops(JWXBGND) group and mometasone furoate nasal spray (MFGS) group, with 28 cases in each group, and a healthy control group of 20 cases. After 4 weeks of treatment, efficacy was evaluated, and RNA-seq, database mining, and bioinformatics analysis methods were employed. Results: In terms of clinical efficacy, the TCM group showed better improvement in nasal itching, ocular symptoms, non-nasal ocular symptoms, and behavioral issues compared to the western medicine group, with a more significant decrease in TCM syndrome scores; transcriptomic analysis revealed 2776 differentially expressed genes when comparing AR children with healthy children, and 441 differential genes were identified between JWXBGND group and MFGS group; combined analysis of transcriptomics and network pharmacology identified 195 active components and 493 targets of action for Jiawei Xingbi Gel, with core components including ferulic acid, fexofenadine, and curcumin A, and core targets involving TNF, IL-6, IL-1β, AKT1, ALB, SRC, etc.; KEGG pathway analysis mainly enriched in caffeine metabolism, linoleic acid metabolism, Th17 cell differentiation, HIF-1 signaling pathway, etc.; molecular docking results indicated that key active components of Jia Wei Xing Bi Gel nasal drops bind stably to targets such as ALB, AKT1, SRC, TP53, etc. Conclusion: Jia Wei Xing Bi Gel nasal drops can effectively alleviate AR symptoms, and its mechanism may be related to the regulation of inflammatory signaling pathways through multiple components and multiple targets
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Project description:Genetic variations at the 17q21 asthma-risk locus regulate the expression of gasdermin B (GSDMB) and ORMDL3, influencing inflammatory responses and sphingolipid metabolism. While asthma-associated 17q21 variations are known to affect ORMDL3 expression in immune and airway smooth muscle cells, its role in airway epithelial sphingolipid metabolism remains unclear. We investigated whether asthma and 17q21 genetic variations influence sphingolipid composition in the upper respiratory tract and how immune vs. epithelial cells contribute to this process. Sphingolipid profiles were analyzed in nasal fluid and blood from children with and without asthma. We also examined gene expression and sphingolipid composition in nasal epithelial cells and PBMCs from healthy adults homozygous for the rs7216389 C/C and T/T (asthma-risk) genotypes. Children with atopic asthma exhibited lower nasal fluid sphingolipids, including sphinganine, dihydroceramides, and ceramides, independent of corticosteroid use or allergic rhinitis. Asthma was further associated with higher plasma sphingolipids and lower blood cell sphingolipids, the latter mirroring patterns in nasal fluid. In PBMCs, the T allele increased ORMDL3 expression, suppressing de novo sphingolipid synthesis. However, in nasal epithelial cells, the T allele mainly increased GSDMB and there was no effect on sphingolipid metabolism. These findings establish nasal fluid sphingolipid profiling as a potential marker for atopic asthma and provide evidence of a cell-type-specific effect of 17q21 genetic variants. While ORMDL3-mediated sphingolipid suppression occurs in PBMCs and not airway epithelial cells, its systemic effects may contribute to lower airway sphingolipids in asthma.
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Project description:Assessment of host gene expression is an emerging tool for the diagnosis of human infections. We compared nasal and blood samples for evaluation of the host transcriptomic response in children with acute respiratory syncytial virus (RSV), symptomatic and asymptomatic picornavirus (PV) infection, and virus-negative asymptomatic controls (Ctrls). RNA was extracted from nasal and blood samples and analyzed by microarray. Despite generally lower quality of nasal RNA, the number of genes detected in each sample type was equivalent. Nasal gene expression signal derived mainly from epithelial cells but also included a leukocyte contribution that was higher in samples from symptomatic children. The number of genes with increased expression in virus-infected children was comparable in nasal and blood samples, while nasal samples also had large numbers of genes with decreased expression, including many genes associated with ciliary function and assembly. Compared to symptomatic children, those with asymptomatic PV had fewer genes with increased or decreased expression in both sample types. Genes with increased expression in comparisons of symptomatic children versus Ctrls included genes associated with components of innate immunity and apoptosis. Children with RSV but not PV also had increased expression of genes related to the cell cycle. Using nested leave-one-pair-out cross-validation and supervised principal components analysis, we defined sets of genes whose expression patterns accurately classified subjects, with high area-under-the-curve values in receiver operating characteristic analysis. Our results support use of nasal samples to augment pathogen-based tests to diagnose viral respiratory infection.
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Project description:Background: Cockroach allergy contributes to morbidity among urban children with asthma. Few trials address the effect of subcutaneous immunotherapy (SCIT) with cockroach allergen among these at-risk children.Objective: To determine if nasal allergen challenge (NAC) responses to cockroach allergen would improve following one year of SCIT.Methods: Urban children with asthma, cockroach-sensitized (skin prick test [SPT] and serum specific IgE) and reactive on NAC, participated in a yearlong randomized double-blind placebo-controlled SCIT trial using German cockroach extract. The primary endpoint was the change in mean total nasal symptoms scores (TNSS) during NAC after 12 months of SCIT. Changes in nasal transcriptomic responses during NAC, SPT wheal size, serum allergen-specific antibody production and T-cell responses to cockroach allergen were assessed.Results: Changes in mean NAC TNSS did not differ between SCIT-assigned (n=28) versus placebo-assigned (n=29) participants (p=0.63). Nasal transcriptomic responses correlated with TNSS, but a treatment effect was not observed. Cockroach sIgE decreased to a similar extent in both groups, while decreased cockroach SPT wheal size was greater among SCIT participants (p=0.04). A 200-fold increase in cockroach sIgG4 was observed among subjects receiving SCIT (p<0.001) but was unchanged in the placebo group. T-cell interleukin-4 responses following cockroach allergen stimulation decreased to a greater extent among SCIT versus placebo (p=0.002), while no effect was observed for interleukin-10 or interferon-gamma.Conclusion: A year of SCIT failed to alter NAC TNSS and nasal transcriptome responses to cockroach allergen challenge despite systemic effects on allergen-specific skin tests, induction of serum sIgG4 production and down-modulation of allergen stimulated T-cell responses.
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