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

We discovered a role for the transcription factor OTX2 in formation of mouse definitive endoderm (DE). We determined the gene expression profiles during conversion of EpiSCs to DE using scRNA-seq. We used dTAG13 to deplete OTX2 at two timepoints of differentiation Overall design: Mouse EpiSCs were differentiated to DE with or without dTAG13 added at primitive streak or 24hr DE stage to deplete OTX2 for further 24hrs. Cells were harvested and live cells sorted by flow cytometry.