GSM6068785: LentiAS 2 [Hi-C]; Rattus norvegicus; Hi-C
HiC was performed using the Arima-HiC kit. As per their protocol, we tested the amount of input sample beforehand and we used 2 million cells per each independent sample. We did QC on samples in every recommended step. Sonication was performed using the Covaris s220 instrument to a fragment size of 300-400bp (Settings: Power: 5, Duty Factor: 10%, Cycles per Burst: 200, and Time: 60 sec per process). We used KAPA Hyper Prep Kit to generate libraries. The primers used for indexing were obtained from Illumina, and the libraries were quantified and QC was done using the KAPA Library Quantification Kit. Libraries were sequenced by GENEWIZ using the Illumina HiSeq 2500 system to acquire 150 bp paired-end sequence reads, reaching 300M reads for each sample based on total usable reads >20Kb.