GSM9956208: LCHC_HB_2hPD-Mock-R3; Homo sapiens; Hi-C
For bulk Hi-C, undifferentiated and differentiated cells were harvested, washed with HBSS, fixed, snap-frozen, thawed, lysed, and digested overnight at 37 deg C with DpnII and DdeI. For LC-Hi-C/DpnII-seq, nuclei were isolated from harvested cells using ice-cold nuclei buffer, Dounce homogenization, and sucrose-cushion centrifugation. Frozen nuclei were thawed, washed in NEBuffer r3.1, and treated with DpnII or mock-treated before downstream LC-Hi-C and DpnII-seq library preparation. Bulk Hi-C libraries followed the Hi-C 3.0 protocol with minor modifications (Lafontaine et al., 2021, doi:10.1002/cpz1.198). LC-Hi-C libraries/DpnII-seq the LC-Hi-C protocol with minor modifications (Belagzal et al., 2021, DOI: 10.1038/s41588-021-00784-4).