Determining the chromatin accessibility profiles of functionally distinct SHH-medulloblastoma sub-populations

Using FACS sorting on SOX2-eGFP and MKi67-RFP mice on a Ptch1+/- background, we identified cycling& non-cycling stem cells and tumor bulk subpopulations in endpoint mouse SHH-subgroup medulloblastoma tumors, and determined their chromatin accessibility progiles to identify unique regulators of cell state. We sorted SHH-subgroup medulloblastoma cells from endpoint mouse tumors into SOX2+ and SOX2- based on presence of eGFP signal to distinguish the stem-like and bulk tumor compartments. We also sorted the SOX2+ stem cells into cycling (MKI67+) and non-cycling (MKI67-) sub-compartments based on presence of RFP. We then performed sequencing on ATAC libraries generated from these cells.