RNA sequencing of 1.8 female mouse embryonic stem cells (mESCs) and XO subclones.

Dosage imbalance for X-chromosomal genes contributes to sex differences, in particular during early development, when both X chromosomes are active in females. X-encoded inhibitors of the differentiation-promoting MAP kinase (MAPK) signalling pathway slow down development, increase levels of naive pluripotency factors, and decrease MAPK target gene expression. Through a hierarchical CRISPR screening approach in murine embryonic stem cells(mESC) we have comprehensively identified X-linked genes that modulate MAPK signalling, pluripotency factor expression, and differentiation. Here, we carried out transcriptional profiling of the two top hits, Dusp9 and Klhl13, and observe that Klhl13 contributes more to the X-dosage induced transcriptome changes than Dusp9, and that a combined effect of both can explain about 50% of the observed sex differences. RNA-seq of 1.8 wild type cells together with their XO subclones