miRNA regulatory landscape of EMT [mRNA-seq]

To investigate the transcriptional remodelling during EMT, we transfected normal murine mammary gland epithelial cells during a 4d TGFbeta treatment individually with siRNA against 46 transcription (co)factors or with 13 mature miRNA, all factors that blocked EMT in a phenotypic microscopy-based EMT screen upon RNAi . As a control, cells were transfected with siRNA/miRNA control followed by 4d TGFbeta treatment (mesenchymal control) or were left untreated (epithelial control). miRNA-sequencing together with mRNA-sequencing of these EMT perturbations in combination with transcription factor binding and miRNA target prediction enabled us to build an interaction map between these EMT factors. Overall design: mRNA sequencing of NMuMG/E9 cells transfected with siRNA against 49 transcription (co)factors or with 13 mature miRNAs in replicates followed by treatment with TGFbeta for 4 days. Transfection was repeated and TGFbeta medium exchanged every three days. As an epithelial control, cells were transfected with siRNA or miRNA control constructs in the absence of TGFbeta while the mesenchymal control was treated for 4 days with TGFbeta after transfection of the control siRNA/miRNA constructs. This series includes samples re-used from GSE86024. There are links on the foot of the records to the alternative sample.