Comparing the chromatin accessibility landscapes of WT organoids, RXRi organoids and APCko tumoroids
To compare the effects of RXR inhibition to APC depletion on chromatin landscapes, WT organoids were treated with either HX531 (RXRi) or vehicle (WT). APCko tumorids treated with vehicle only were used as a benchmark. We then performed differential accessibility analysis using data obtained from ATAC-seq of the indicated organoid lines. Overall design: Wild type intestinal organoids (WT), RXRi and  ApcKO (A) were cultured in media with either HX531 or vehicle before collecting the nuclei for DNA transposition.