GSM7777507: HepG2 scrambled shRNA control for FAIRE-seq analysis; Homo sapiens; FAIRE-seq
For FAIRE-seq analysis, cells were fixed with 1% formaldehyde for 10 minutes. After quenching and cell lysis, chromatin was sonicated using a Branson S250 ultrasonicator (Nat Protoc 2012 7, 256–267). The purified DNA was used for sequencing based on the protocol (Nat Protoc 2012, 7, 256-267). 1 ng of DNA was used as starting material for input and ip samples. Libraries were amplified using 13-16 cycles on the thermocycler. Post amplification libraries were size selected at 300-500bp in length using Agencourt AMPure XP beads from Beckman Coulter. Libraries were validated using the Agilent High Sensitivity DNA Kit.