GSM5269435: ATACseq_Lymphblastoid cells_T21_42C_rep2_technical1; Homo sapiens; ATAC-seq
Suspension cells were then used to prepare an ATAC-seq library using the OMNI-ATAC-seq protocol. For control samples in calling ATAC-seq peaks, genomic DNA was extracted from each of the two cell lines using the Purelink genomic mini kit, then the genomic DNA was prepared for sequencing by carrying out the OMNI-ATAC protocol on this genomic DNA suspension. For ATAC-seq, samples were pooled, size selected from 100-1000bp by blue pippen, SPRI bead cleaned up, and sequenced on a Nextseq V2 high output 75-cycle kit paired end 2x37 reads with dual 8bp indexes. For the second replicate of experiments, two sets of technical replicates were prepared for each condition. These replicates were carried out on cells from separate wells of a plate, but the cells were from the same cell lineages and passage numbers, so at the level of bam files, these technical replicates were merged into a single file, to be used as one cohesive second replicate of data.