Requirement for Cleavage Factor IIm in the Control of Alternative Polyadenylation in Breast Cancer Cells

This experimental series concerns the position bias and extent of 3'-end choice in MCF7 cells after knock-down of the CFII subunits PCF11 and CLP1 in MCF7. Loss of either subunit results in 3'-lengthening by APA. Importantly this lengthening is toward a more 'normal-like' distribution. MCF7 cells show a native 3'-end distribution favoring short internal adenylation sites compared to MDAMD231 cells. The difference between the two cell lines might be driven by a higher expression of the exosome in MDAMD231 cells. Analysis of 3'-focused PAT-seq data in human breast cancer cell-lines (MCF7 vs MDAMB231) and after siRNA depletion of the CFII subunits (CLP1 and PCF11)