A total number of 314 frozen pulverized brain samples were received from the Mt. Sinai Brain Repository, and processed for ATAC-seq as described21. Briefly, 20 mg of tissue was pulverized in liquid nitrogen and thawed in 1 ml of nuclear isolation buffer (20 mM Tris-HCl, 50 mM EDTA, 5 mM spermidine, 0.15 mM spermine, 0.1% mercaptoethanol, 40% glycerol, pH 7.5). Samples were mixed by inversion, filtered from large pieces of tissue through Miracloth, centrifuged at 1100 × g for 10 min at 4 °C, pellets washed with 50 μl Reduced Swing buffer, centrifuged again, and supernatants were removed. The nuclear pellets were resuspended in Tn5 transposase reaction mix, barcoded, combined into pools, and used for sequencing22. Each pool contained eight randomly selected samples that were balanced by case–control status and gender. Then, each pool was sequenced at Duke Sequencing and Genomic Technologies shared resource on two lanes of Illumina HiSeq 2000 or HiSeq 4000 obtaining 2 × 125 or 2 × 151 single- or paired-end reads. Since only eight samples were sequenced in the single-end mode and all showed different
