RNA-seq and ATAC-seq analysis of the role of PBRM1 under stress conditions. RNA-seq and ATAC-seq analysis of the role of PBRM1 under stress conditions

We used RNA-seq to characterize the contributions of PBRM1 to gene expression in NmuMG cells with and without oxidative or low-glucose stress conditions. Further, we used ATAC-seq to characterize the effects of PBRM1 on chromatin accessibility in HK-2 and NMuMG cell lines. Our analyses reveal a role for PBRM1 in expression of genes associated with stress responses and with specific transcription factor families, such as the FOXO family. Overall design: Libraries prepared for RNA-seq or ATAC-seq were sequenced using Illumina HiSeq technology. Sequencing was performed in biological triplicate.

我们采用RNA测序（RNA-seq）技术，解析PBRM1对处于或未处于氧化应激、低糖胁迫条件下的NmuMG细胞中基因表达的调控作用。此外，我们通过转座酶可及性测序（ATAC-seq）技术，探究PBRM1对HK-2及NmuMG细胞系染色质开放性的影响。本研究分析结果表明，PBRM1参与调控与应激反应及特定转录因子家族（如FOXO家族）相关的基因表达。整体实验设计：针对RNA-seq与ATAC-seq构建的文库，均采用Illumina HiSeq测序平台完成测序，所有测序实验均设置三次生物学重复。