Hi-C in Huvec cells upon 30 minutes of TNFa treatment
Hi-C was performed using 35 million HUVECs stimulated for 30 min with TNFα as described (Belton et al., 2012). In brief, nuclei were isolated, treated overnight with 800 units HindIII (New England Biolabs), overhangs were filled-in with biotin and ligated under dilute conditions, before sonication to ~800 bp, and selection of biotinylated 3C junctions on streptavidin beads. After washing non-captured DNA away, end-repair and ligation of Illumina linkers was performed, and the library was sequenced (in two replicates) on a HiSeq2000 platform to generate 200 million 100-bp read pairs.