Requirement for Cleavage Factor IIm in the Control of Alternative Polyadenylation in Breast Cancer Cells. 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. Overall design: 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)