title: DNase-seq biological replicate 1 in human parathyroid
design: We collected human adenoma parathyroid tissues with consent from Massachusetts General Hospital. Nuclei from the tissues were released by lysing the cells with detergent. The released nuclei were then treated with DNase I at optimized concentrations. To prevent random shearing, the DNase I-digested DNA was embedded in low-melt gel agarose plugs. The DNA within the plugs was further processed by blunt-ending, extraction, and ligation to biotinylated linker 1 . Excess linker was removed through gel purification. Biotinylated fragments were digested with MmeI and captured using streptavidin-coated Dynal beads. Linker 2  was then ligated to the 2-base overhang generated by MmeI. The resulting ditagged 20 bp DNAs were amplified by PCR and sequenced using Illumina.