title: GSM8264134: Osteoblast_head_biolRep3; Danio rerio; ATAC-seq
library_construction_protocol: ATAC-Seq was performed according to previously published protocols (Buenrostro et al., 2015), with the following modifications. Cells were incubated in lysis buffer (10mM Tris-HCl, pH 7.4, 10mM NaCl, 3mM MgCl2, 0.1% Tween20, 0.1% NP40, 0.01% Digitonin) for 3min on ice. Lysis was stopped by resuspending in ice-cold wash buffer (10mM Tris-HCl, pH 7.4, 10mM NaCl, 3mM MgCl2, 0.1% Tween20) prior to centrifugation. The volume of enzyme added to the transposition reaction (1x Tagment DNA Buffer, 0.01% Digitonin, 0.1% Tween20, TDE1 enzyme) and the length of transposition were adjusted depending on the numbers of cells isolated in each sample. The Tagment DNA Buffer and TDE1 enzyme are both contained in the Tagment DNA TDE1 Enzyme and Buffer Kit (Illumina, 20034197). Following amplified DNA purification (Buenrostro et al., 2015), AMPure XP SPRI beads (Beckman Coulter, A63881) were used (1.4x sample volume) to remove primer dimers from the chromatin sample according to manufacturer's instructions According to Illumina NextSeq System instructions (Standard Normalization Method, including Phix Control)