4Cseq analysis of neural stem/progenitor cells (NSC) from wild type and Sox2-deleted mouse neonatal forebrain

We report the application of 4Cseq technology for the profiling of chromatin interactions in wild type and Sox2-deleted NSC, for 9 different loci (viewpoints): Olig2 promoter, Olig1 promoter, Tcf4 promoter, Kat2b promoter, Sox3 promoter, Stox2 promoter, c-fos 5' enhancer, c-fos 3' enhancer and c-fos promoter. NSC from wild type and mutant littermates individual mouse forebrains were cultured, and expanded for 3-7 passages (as in Favaro et al., Nature Neuroscience 2009, 12:1248-56, and Zhang et al., Nature 2013, 504:306-10). Cells were fixed as in Zhang et al., 2013, and processed for 4Cseq analysis. For 7 viewpoints analyzed, three wild type and three mutant cultures, each derived from individual P0 brains of littermate mice, were used; for 2 viewpoints analyzed, one wild type and one mutant culture were used.