Transcriptomic analysis of ETV6/RUNX1 KO lymphoid cell line generated by CRISPR/Cas9 showed a distinct expression signature and a deregulation of its downstream signaling genes

The gene expression profile of E/R KO clones versus REH cells and controls clones, analysed by total RNA-sequencing, showed a total of 342 genes differentially expressed (q<0.05), 182 upregulated and 160 downregulated. The heatmap of the top50 of the most deregulated genes according to fold change (FC) values showed a distinct expression signature of E/R KO clones as compared with REH cells and control clones Overall design: Purpose: Analyse the gene expression profile of ETV6/RUNX1 KO clones versus REH cells and controls clones by total RNA-sequencing to elucidate the functional effects of fusion gene abrogation in ALL cells.

本研究采用总RNA测序（total RNA-sequencing）技术分析了E/R（ETV6/RUNX1）敲除克隆与REH细胞及对照克隆的基因表达谱，共鉴定出342个差异表达基因（q<0.05），其中182个基因上调、160个基因下调。基于倍数变化（fold change, FC）值筛选得到的表达失调最显著的前50个基因的热图显示，与REH细胞及对照克隆相比，E/R敲除克隆具有独特的基因表达特征。整体实验设计：本研究旨在通过总RNA测序分析ETV6/RUNX1敲除克隆与REH细胞及对照克隆的基因表达谱，以阐明该融合基因在急性淋巴细胞白血病（Acute Lymphoblastic Leukemia, ALL）细胞中被敲除后的功能效应。