Growth Protocol:	Human ESC (WA09; obtained from WiCell) were cultured on CF1 irradiated mouse embryonic fibroblasts (MEF) in Advanced DMEM containing 20% Knockout Serum Replacement (Life Technologies) supplemented with 2mM L-Glutamine (Life Technologies); 0.1mM B-Mercaptoethanol (Sigma-Aldrich); 1x Penicillin/Streptomycin (Life Technologies); 1x Non-Essential Amino Acids (Life Technologies) and 4ng/ml FGF2 (WT-MRC Cambridge Stem Cell Institute). Cells were passaged using 1mg/ml Collagenase IV (Life Technologies).
Treatment Protocol:	-
Extract Protocol:	SSEA4-positive live hESC were deposited by FACS directly into 96-well plates. Poly-A cDNA from single cells was obtained as described by Picelli et al.
Library Construction Protocol:	Illumina Nextera DNA LT library preparation kit was used following the Fluidigm protocol described for cDNA generation using the Fluidigm C1 machine (available online). Spike-ins (ERCC RNA Spike-in Mix, Ambion) were added in a final dilution of 1:10E6.

Molecule Type:	poly(A)+ RNA
Library Source:
Library Layout:	PAIRED
Library Strand:	-
Platform:	ILLUMINA
Instrument Model:	Illumina HiSeq 2500
Strand-Specific:	Unspecific

Data Resource	GEN Sample ID	GEN Dataset ID	Project ID	BioProject ID	Sample ID	Sample Name	BioSample ID	Sample Accession	Experiment Accession	Release Date	Submission Date	Update Date	Species	Race	Ethnicity	Age	Age Unit	Gender	Source Name	Tissue	Cell Type	Cell Subtype	Cell Line	Disease	Disease State	Development Stage	Mutation	Phenotype	Case Detail	Control Detail	Growth Protocol	Treatment Protocol	Extract Protocol	Library Construction Protocol	Molecule Type	Library Layout	Strand-Specific	Library Strand	Spike-In	Strategy	Platform	Instrument Model	Cell Number	Reads Number	Gbases	AvgSpotLen1	AvgSpotLen2	Uniq Mapping Rate	Multiple Mapping Rate	Coverage Rate