library_construction_protocol: After dissociation cells were sorted for Gata6::mCherry or Nanog::GFP expression (SL grown cells).  2iLIF cells were sent through the machine without actual sorting. Total RNA was collected Cells grown in 2iLIF on gelatin coated plates and transferred to SerumLIF medium on gelatin for 86h RNeasy Mini Kit with on-column DNase digest (Qiagen) TruSeq Illumina mRNA-seq (stranded - high input)