RNA-Seq of B16 CTCF WT
RNA samples were quantified using Qubit 4 (Invitrogen) with the RNA HS assay kit (cat no. Q32855). The quality of the RNA was evaluated using the TapeStation 2200 (Agilent) with the RNA kit (cat no. 5067- 5576). CEL-Seq2 sequencing libraries were prepared as published by Hashimshony et al. (Hashimshony et al, Genome Biology (2016) 17:77), with one modification- instead of single cells as input, 2 ng purified RNA was taken as input for library preparation. CEL-seq2 library QC was performed by measuring library concentration using Qubit (Invitrogen) with the dsDNA HS Assay Kit (Invitrogen, cat no. Q32854) and size determination using the TapeStation 2200 with the High Sensitivity D1000 kit (cat no. 5067-5584).