title: GSM5862690: KD-day0-ARID2-rep1; Mus musculus; ChIP-Seq
library_construction_protocol: ChIP-seq was done as previously reported (Lin-Shiao et al., 2018) . Briefly, 1X107 mESCs were fixed in 1% formaldehyde in PBS for 10 minutes, the fixation was quenched with 125mm glycine for 5 minutes.  Chromatin was sonicated with a S220 Focused-ultrasonicator (Covaris) for 15 min and immunoprecipitated with H2AK9ac (Abcam). Antibodies were conjugated to protein G Dynabeads (Thermo). Eluted samples were reverse cross-linked overnight at 65°C, and DNA as purified after treatment with RNAse (Thermo) and Proteinase K (Thermo). Purified DNA was quantified using Qubit dsDNA kit (Thermo) and 50ng was used to prepare sequencing libraries. Input samples were also included and prepared using the same protocol. NEBNext Ultra DNA library kit from Illumina (New England Biolabs) was used to prepare the libraries and the quality was assessed by Agilent BioAnalyzer 2100 (Agilent). Quantification was done using KAPA library quantification kits (KAPA Biosystems) or NEBNext library Quant kit (New England Biolabs).