Modelling Cyclic Stretch of Patient-Derived Alveolar Epithelial Cells from Organoids using a New Alveoli-on-Chip Platform

The data originates from lung tumor samples obtained at the University Hospital Bern. Patient-derived alveolar epithelial type 2 cells (AEC2) were isolated and cultured into organoids. Grown organoids where dissociated and seeded onto a novel alveoli-on-chip system submerged in medium. After 24 h of either no mechanical stimulus (control) or cyclic breathing stretch (stretch), RNA was isolated and sequenced. The RNA-seq data underwent quality control, alignment to the reference genome, read counting, DGE and GSEA. All analyses were run in R version 4.2.1.

本数据集源自伯尔尼大学医院获取的肺肿瘤样本。研究人员从患者样本中分离出患者来源的肺泡上皮2型细胞（alveolar epithelial type 2 cells, AEC2），并将其培养为类器官。将培养得到的类器官解离后，接种于浸没于培养基中的新型肺泡芯片系统。分别施加24小时无机械刺激（对照组）或周期性呼吸牵拉（牵拉组）处理后，提取RNA并进行测序。RNA测序数据依次经过质量控制、参考基因组比对、读段计数、差异基因表达分析（Differential Gene Expression, DGE）以及基因集富集分析（Gene Set Enrichment Analysis, GSEA）。所有分析均基于R 4.2.1版本完成。