ATAC- and RNA-sequencing of NMuMG cell line undergoing TGFB3-induced EMT and MET

Normal murine mammary gland (NMuMG) cells were treated with TGFB3 for 10 days to induce epithelial-mesenchymal transition (EMT), and then grown in TGFB3-free medium for 100 hours to induce mesenchymal-epithelial transition (MET). ATAC-seq libraries were sequenced from samples collected at days 0 (Vehicle), 3 (MNM3) and 10 (MNM10) of EMT, and at 24 (post-treatment 24 hours, PT24), 48 (PT48), 72 (PT72) and 100 (PT100) hours after TGFB3 removal. Corresponding RNA-seq libraries were also sequenced for Vehicle, MNM10 and PT100 samples. Accessible transposable element (TE) instances were identified using differentially accessible ATAC-seq peaks. The enrichment of accessible TEs near differentially expressed genes were calculated in order to identify the potential roles of TEs in gene regulation.