Genome-wide transcriptome analysis of pluripotent (2iL), differentiated (2iL withdrawal) or re-induced (2iL re-application during differentiation) mES cells

We report the application of genome-wide RNA-sequencing analysis for pluripotent mouse ES cells maintained in 2iL, differentiated for 24, 48, 96 and 120 hours or treated with 2iL for 24hours after 48 or 96 hours of differentiation. We find that after 48h of differentiation cells respond to 2iL reinduction by upregulating nai¨ve markers and downregulating formative markers, while cells that underwent 96 hours of differentiation failed to do so. This indicates that committment is associated with a change in the transcriptional response to external signals. Overall design: mRNA profiles of mES cells cultured in 2iL, during dfferentiation (24, 48, 96 and 120 hours after 2iL withdrawal) or re-induced by 24 hours treatment with 2iL at 48 and 96 hours (48_24, 96_24).