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scQers containing 204 putative developmental CREs taken from 23 developmental loci (22 plus Sox2 control region) were integrated at high MOI in mES cells using piggyBac. Transfected libraries included 89% CRE series, 10% exogenous promoters (same as Fig. 2a) and 1% EEF1A1p-mCherry (co-transfected for selection to increase MOI 59, 60). Reporter-integrated cells were differentiated to embryoid bodies for 21 days, with bulk sampling every 2 days, and single-cell profiling at 3 weeks.

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