GSM5384928: sortseq_2_bin2; Mus musculus; OTHER
Genomic DNA was extracted from sorted cells using QuickExtract (Lucigen). In a first round of PCR, the Oct4 uaRNA locus was amplified from these samples with NEBNext Ultra II Q5, using primers that would not amplify remaining plasmid or aspecific integrations at other loci. Amplicons were cleaned up using 0.9X AMPure XP beads. The amplicons from the first round of PCR were used as template in a PCR with the NEBNext multiplex oligos to generate the sequencing library. Samples were amplified for ~22 cycles total between the first and second PCR step, cleaned up using 1x AMPure XP beads (Beckman Coulter), and concentrations were quantified using the NEBNext Library Quant Kit for Illumina, before mixing indexed gDNA samples together. After pooling the sample was gel-extracted from a 1% agarose gel to size select.