GSM9337767: p5_rep1; Mus musculus; ATAC-seq
Organoids were harvested using cold media on ice and treated with 300ul of ice-cold ATAC lysis buffer (Active Motif, 53150). Samples were then homogenized by pipetting and incubated on ice for 2 minutes to release nuclei. A target of 100,000 nuclei per sample was collected, as counted on a Countess 3. Bulk ATAC-seq library preparation was performed on 100,000 nuclei using the ATAC-Seq Kit (Active Motif, 53150) according to the manufacturer's instructions. The resulting ATAC-seq libraries were quantified using a Qubit dsDNA Quantitation kit (Thermo Fisher, Q32851) and a High Sensitivity D1000 ScreenTape (Agilent, 5067-5582 and 5067-5583). Sequencing was performed on an Illumina NextSeq2000 platform, generating 35 million reads per sample.