Effect of SF3B1 suppression in cancer cells with different SF3B1 copy-number levels. Homo sapiens

Breast cancer cell lines containing stable dox inducible shRNAs targeting SF3B1 were profiled by RNA sequencing. We determined the effect of gene expression and splicing changes before and after knocking down SF3B1 in cell lines with normal copy number (SF3B1neutral) or partial copy loss (SF3B1loss) cell lines Overall design: RNA profiles for SF3B1 suppression were generated from 8 breast cancer cell line pairs (-/+ dox) with no techincal replicates.

本研究通过RNA测序（RNA Sequencing）对携带有靶向SF3B1的稳定多西环素（dox）诱导型短发夹RNA（short hairpin RNA, shRNA）的乳腺癌细胞系进行了转录组分析。我们分别在拷贝数正常（SF3B1中性，SF3B1neutral）与存在部分拷贝缺失（SF3B1缺失，SF3B1loss）的细胞系中，探究了敲低SF3B1前后基因表达与可变剪接变化的调控效应。实验设计：本研究针对SF3B1敲低的转录组图谱来源于8组乳腺癌细胞系配对样本（分别添加/不添加多西环素），所有样本均未设置技术重复。