title: GSM9168104: Bulk ATAC seq, bone marrow, LPS, rep3; Mus musculus; ATAC-seq
library_name: GSM9168104
library_construction_protocol: 50,000 bone marrow nuclei were isolated and DNA fragmented in situ using Tagment DNA Enzyme 1 (Illumina, cat. no. 20034197) at 37 °C for 30 minutes. Transposed DNA was purified using the Zymo DNA Clean and Concentrator-5 kit (Zymo Research, cat. no. D4014). ATAC-seq libraries were prepared as previously described (Corces et al., Nat. Methods, 2017). Libraries were amplified by PCR using Nextera XT multiplex primers and NEBNext High-Fidelity 2X PCR Master Mix (NEB, cat. no. M0541) for 10 cycles. Post-amplification cleanup and size selection were performed using a two-sided selection with DINOMAG magnetic beads (Labscoop, cat. no. DN9004-75ML), applying a 0.55× and 1.55× bead-to-sample volume ratio to retain fragments in the desired size range.