GSM3133242: 5C-dilution-mEs-2i-GenomeCopies-200k; Mus musculus; OTHER
3C templates were generated using HindIII with a dilution 3C protocol as previously described in Beagan et al 2016. 5C libraries were generated from 200,000 genome copies of 3C templates using double alternating 5C primer design across ~1-3.5 Mb regions around Sox2, Klf4, Dppa2, Rex1, Nanog  (described previously Dostie and Dekker, 2007; Dostie et al., 2006; van Berkum and Dekker, 2009; Hnisz et al 2016). Library was constructed using NEBNExt Ultra DNA Library prep kit for Illumina kit according to manufacturer's protocol. Each library was quantitated using qPCR-based Kapa Library Quantification Kit, and equal molecular number of each libarary was pooled before sequencing.