Transcriptional remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm [ATAC-seq]

We discovered a role for the transcription factor OTX2 in formation of mouse definitive endoderm (DE). We used ATAC-seq to identify open chromatin regions in OTX2-depleted definitive endoderm cells and identify sites with changed accessibility during DE differentiation Mouse EpiSCs were differentiated to DE with or without dTAG13 added at primitive streak stage to deplete OTX2 for 24hrs. Cells were harvested and live cells sorted by flow cytometry. Open chromatin regions were mapped by ATAC-seq on three technical replicates per sample.