GSM5349933: ATAC-Seq - treated - neural progenitor cells - rep2; Mus musculus; ATAC-seq
(1) For ATAC-seq, a detailed protocol is described by Corces et al., 2017. In brief, nuclei were resuspended in transposase reaction mix containing 1:20 dilution of Transposase (Illumina) in 1X TD buffer (Illumina) and incubated at 37oC for 30 minutes with mixing.  Fragmented product was purified using a Zymo DNA Clean and Concentrator-5 kit prior to PCR amplification, adapter sequence incorporation, and library preparation. (2) For ChIP-seq, a detailed protocol is described by Rollins and Rogatsky et al., 2019. In brief, lysates were clarified from sonicated nuclei and GR-DNA complexes were isolated with antibody. Purified DNA was eluted using the QIAquick PCR Purification Kit according to manufacturer's directions. DNA was stored at -20 oC until next generation sequencing using an Illumina HiSeq 2500 system. DNA libraries were prepared for sequencing using standard Illumina protocols