title: Illumina HiSeq 4000 sequencing; ChIP-seq of H3K27ac and H3K27me3 in HSJD-DIPG-007 cell line upon treatment with ICG-001 and JQ1
design: ChIP-seq of H3K27ac and H3K27me3 in HSJD-DIPG-007 cell line upon treatment with ICG-001 and JQ1
library_name: HSJD-DIPG-007_input_JQ1_2_s
library_construction_protocol: Cells were crosslinked in 1% formaldehyde followed by quenching with Glycine (Final concentration 125 mM). Samples were then lysed and sonicated for 20 cycles (30 seconds on/ 30 seconds off) (Bioruptor pico, Diagenode). Precleared chromatin was incubated with 1µg antibody for H3K27ac (196-050, Diagenode), H3K27me3 (C15410195, Diagenode), and rabbit IgG (C15410206, Diagenode). Protein A sepharose beads were used to pull down the antibody-chromatin complex and samples were then de-crosslinked and DNA was extracted.  Cells were treated with 2.5 uM ICG-001 or 0.25 uM JQ1 for 48 hours before harvesting. DNA was extracted using phenol/chlorofom/Isoamylic alcohol (25:24:1). Aqueous phase was collected and DNA was precipitated using 100% ethanol followed by washing with 70% ethanol and resuspension in water.  Microplex Library preparation kit v2 (diagenode) was used to prepare libraries from ChIP DNA according to manufacturer's instructions.
attributes.tag: Experimental Factor: compound
attributes.value: JQ1
attributes.tag: Experimental Factor: dose
attributes.value: 0.25
attributes.tag: Experimental Factor: immunoprecipitate
attributes.value: input DNA