Genome-wide transcriptome analysis of pluripotent (2iL) or differentiated (2iL withdrawal) wild-type or Esrrb KO mES cells.

We report the application of genome-wide RNA-sequencing analysis for pluripotent wild-type or Esrrb KO mouse ES cells, maintained in 2iL or differentiated for 24, 48 or 72 hours. We find an anticipated progression of Esrrb KO cells as compared to wild-type cells and a massive downregulation of formative genes in multiple Esrrb KO clones, confirming the role of Esrrb as an inducer of the formative program. Such Esrrb KO cells also show upregulation of committed genes and activation of the Mesendoderm program. Overall design: mRNA profiles of wild-type and Esrrb KO mES cells cultured in 2iL or after 24, 48 or 72 hours of differentiation.