title: GSM5344492: ChIP-seq in zebrafish ctcf-/- embryos at 48hpf, replicate 1; Danio rerio; ChIP-Seq
library_construction_protocol: Embryos were fixed in 1% paraformaldehide and quenched with 0.125M Glycine. Nuclei were extracted and lysed, and chromatin sonicated in a Covaris M220 sonicator to an average of 300bp fragments. Sonicated chromatin was divided in 6 aliquots and incubated overnight at 4ºC with 2µg of antibody per aliquiot. Immunoprecipitated chromatin was then incubated with magnetic beads, washed, TAGmented with Tn5 transposase (Schmidl et al., 2015) and eluted from beads. Then, chromatin was decrosslinked and DNA was purified using Minelute kit (Qiagen) Preparation of ChIPmentation libraries was performed as described for ATAC-seq assays in Buenrostro et al., 2015