GSM7324899: Sample 20_SF7761, ChIP-seq H3.3, SB939; Homo sapiens; ChIP-Seq
RNA-seq: RNA was isolated using RNeasy Plus Kit (Qiagen) according to manufacturer's instructions and the quality was assessed with the Agilent 2100 Bioanalyzer with an RNA 6000 Pico Kit (Agilent Technologies). RNA-seq: PolyA-enriched RNA libraries were prepared with the KAPA Stranded mRNA Sample Preparation Kit (Kapa Biosystems). ChIP-seq: ChIP-seq (including crosslinikng, cell lysis, chromatin digestion with Mnase, and chromatin immunoprecipitatation with H3.3 and H3.3K27M antibodies) was performed based on protocol by Cook et al.., 2017 (doi: 10.1002/cpmb.45). Eluted and input DNA was purified with phenol-chloroform extraction followed by additional purification with ZymoResearch DNA Clean & Concentrator-5 columns. Digested DNA profiles were confirmed using the 2100 Bioanalyzer with the Agilent DNA High Sensitivity chip (Agilent Technologies). ChIP-seq: The Input and ChIP libraries were prepared using the Qiaseq Ultra Low Input Library Kit (Qiagen), according to manufacturer's instructions.