Probing cell identity hierarchies by fate titration and collision during direct reprogramming [scRNA-seq & scATAC-seq]

Collide-seq: A systematic comparison of how different reprogramming transcription factors achieve conversion as well as an in-depth analysis of how cells resolve the conflict when more than one fate is instructed. Overall design: Mouse embryonic fibroblasts were nucleofected with doxycycline inducible constructs for Ascl1, MyoD1 and a DNA binding mutant of Ascl1 (mutAscl1). Cells were expanded for about 10 days and positive cells sorted using FACS. All conditions were pooled and plated together. Transcription factor expression was induced for 72h via the administration of doxycycline. After 72h, cells were collected for scMultiome, i.e., scRNA-seq and scATAC-seq from the same cells