NextSeq 500 paired end sequencing; ATAC-seq in neuroblastoma IMR-32 cell line
ATAC-seq in neuroblastoma IMR-32 cell line
50,000 cells were harvested and spin down for 5 min at 800g. Cells were grown in RPMI1640 medium supplemented with 10% foetal bovine serum, 2 mM L-Glutamine and 100 IU/ml penicillin/streptavidin at 37Â°C in a 5% CO2 humid atmosphere ATAC-seq was performed as previously described with minor changes ( doi: 10.1002/0471142727.mb2129s109, Buenrostro et al. 2015). 50,000 cells were lysed and fragmented using digitonin and Tn5 transposase (Illumina). Samples were purified using the MinElute kit (Qiagen) The transposased DNA fragments were amplified and purified using Agencourt AMPure XP beads (Beckmamn Coulter). Library concentrations were measured with the Illumina Kapa Library quantification kit (Lightcycler 480 qPCR mix cat.no. KK4854)
Experimental Factor: replicate
1