RNA-seq of intestinal organoids after the first passage at day 5

The impact of MLL1 removal on intestinal organoids was evaluated in intestinal organoids from Mll1FC/+; RosaCreERT2/+ (control) and Mll1FC/FC; RosaCreERT2/+ (knockout) cultures after the first passage at day 5. Using 2x 100 bp reads, 50 million reads per sample with comparable unique mapped reads (74-81%) were obtained. To analyse differentially expressed genes, we applied DESeq2 analysis to the RNA-seq dataset. GO term analysis by DAVID at a false discovery rate (FDR) of 5% revealed that MLL1 was important for regulation of gene expression and differentiation. mRNA profiles of Mll1FC/+; RosaCreERT2/+ and Mll1FC/FC; RosaCreERT2/+ intestinal organoid cultures at passage 1 were generated by deep sequencing.