GSM2883850: Hi-C erythroid, splenic ter119+ cells, replicate 1; Mus musculus; Hi-C
Spleens were gently dissociated into a single cell suspension and cells were passed through a 70 μm strainer to remove clumps. For ter-119+ cell selection, cells were stained with phycoerythrin conjugated anti-ter-119 antibodies and positively selected using anti-phycoerythrin MACS beads before fixation with 1% formaldehyde. Hi-C (restriction enzyme: HindIII) as described in: Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M et al. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science 2009 Oct 9;326(5950):289-93. PMID: 19815776   Briefly: cells were crosslinked with formaldehyde; DNA was digested with HindIII; the 5′-overhang was filled, including a biotinylated residue; and the resulting blunt-end fragments were ligated. The resulting DNA sample contains ligation products consisting of fragments that were originally in close spatial proximity in the nucleus, marked with biotin at the junction. A Hi-C library was created by shearing the DNA and selecting the biotin-containing fragments with streptavidin beads.
GEO Accession
GSM2883850