RNA-seq on MCF7 cells induced with sgRNA vectors targeting CTCF binding elements

We performed a CRISPR-based functional genetic screen targeting CTCF binding elements (CBEs) located in the vicinity of ERa-bound enhancers. The screen identified four functional CBEs whose targeting resulted in a marked negative effect on the proliferation of MCF-7 cells (ERa-positive cells) but no significant effect on MDA-MB-231 (ERa-negative cells) cells. We then carried out RNA-seq analysis on MCF-7 cells induced with sgRNA vectors targeting these four CBEs: sgRNA_1118, sgRNA_1659, sgRNA_680 and sgRNA_810, as well as non-targeting sgRNA as control. Overall design: RNA-seq in MCF7 cells induced with sgRNA vectors targeting four CTCF bidning elements identified by a functional screen as well non-targeting sgRNA control vector.