Genome-wide transcriptome analysis of pluripotent (2iL or 2i) and differentiated mES cells

We report the application of genome-wide RNA-sequencing analysis for pluripotent mouse ES cells maintained in 2iL or 2i and differentiated for 12, 24, 36, 48, 60, 72, 84, 96 hours. We find that cells differentiating from both 2iL and 2i follow a similar trajectory with 2i samples accelerated by 24 hours. Moreover we performed unsupervised hierarchical clustering on cells differentiating from 2iL and defined 6 groups of genes (gene signatures) based on their transcriptional behaviour during differentiation. Finally we reported that only after activation and dissolution of the formative signatures cells are fully committed. The same behaviour is true for cells differentiating from 2i. mRNA profiles of mES cells cultured in 2iL or 2i and during dfferentiation (24,36, 48, 60, 72, 84,96 hours after 2iL withdrawal or 12, 24, 36, 48, 60, 72, 84 hours after 2i withdrawal)