Genome-wide transcriptome profiling of wild-type and Kmt2d-deficient ATDC5 differentiated chondrocytes and undifferentiated mesenchymal cells

We performed genome-wide transcriptome profiling in stable Kmt2d-/- (bi-allelic deletion of the catalytic SET domain) and Kmt2d+/+ ATDC5 chondrocyte cell lines 7 days after induction of differentiation and in stable Kmt2d-/- and Kmt2d+/+ undifferentiated ATDC5 cells. RNA-seq was performed on two (Kmt2d-/-) and three (Kmt2d+/+) biological replicates for each differentiation state (chondrocytes vs undifferentiated cells); each biological replicate is a distinct clonal cell line. Two technical replicates were performed for each cell line. Technical replicates were the same libraries run on different flow cells.