alias: SINCLAIR_NGS_00071
title: MEF_Cre_postTAM_Hi-C_rep2
design: Hi-C libraries were prepared in a similar manner as described previously (Lieberman-Aiden et al., 2009). Briefly, for each library, chromatin was fixed in place with formaldehyde in the nucleus and then extracted. Fixed chromatin was digested with DpnII, the 5 overhangs filled in with biotinylated nucleotides, and then free blunt ends were ligated. After ligation, crosslinks were reversed and the DNA purified from protein. Purified DNA was treated to remove biotin that was not internal to ligated fragments. The DNA was then sheared to ~350 bp mean fragment size and sequencing libraries were generated using NEBNext Ultra enzymes and Illumina-compatible adapters. Biotin-containing fragments were isolated using streptavidin beads before PCR enrichment of each library.
identifiers.namespace: SUB6297500
identifiers.id: SINCLAIR_NGS_00071