A study published in GenomeBiology reports that context-specific epigenomic features influence the effect and retention of DNA methylation.
: Fig. S1A). Using lentiviral vectors, we generated MCF-7 Dox-inducible cell lines for ZF-D3A-wt and ZF-D3A-mut. For lentivirus production, 3 to 4 million HEK293T cells were seeded in 10-cm plates and cultured in 10-ml complete media Glutamax) 24 h prior to transfection. The next day, media were removed and replaced with 10 ml of fresh complete media containing 25 μM chloroquine and incubated for 1 h.
Multiplexed library sequencing yielded 24–38M pair reads per experiment for the ZF-D3A HA experiments and ~30–50M single-end reads for the H3 modification ChIP-seqs.
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