3D genome organization coordinates key regulators of lineage specification in mammary epithelial cells [T8_CUT&Tag]

In order to understand gene regulation of epithelial cells in the mouse mammary gland, we have generated a comprehensive epigenetic atlas from freshly sorted myoepithelial (basal), luminal progenitor (LP) and mature luminal (ML) from adult mice (9 week-old) encompassing gene expression profiling, histone and polymerase II CUT&Tag sequencing, chromatin accessibility via ATAC-seq and chromatin interactions. We further studied the basal compartment by sorting to additional cell type population: Tspan8+ (quiescent basal, QBa) and Tspan8- (active basal, ABa) cells. Overall design: We then performed CUT&Tag on mouse epithelial mammary gland cell types in the basal compartment: sorted Tspan8+ (quiescent basal, QBa, Lin-/CD29hi/CD24+/Tspan8+) and Tspan8- (active basal, ABa, Lin-/CD29hi/CD24+/Tspan8-) with antibodies for: H3K27me3, H3K4me1, H3K4me3, H3K36me3, H2AK119ub, H3K9ac, H3K9me2, H3K9me3, H3K27ac, PolII and IgG.