Histone demethylase KDM4A-mediated promotion of PAF1/NFATC2 expression is required for oncogenesis in MLL-AF9 acute myeloid leukemia [ChIP-seq]

In this study we identified the histone demethylase KDM4A as an essential and selective regulator of AML oncogenic potential. ChIPseq was used to identify KDM4A bound genes and follow changes in H3K9me2/3 and H3K27me3 following KDM4A knockdown in MLL-AF9 human AML THP-1 cells Human MLL-AF9 AML THP-1 cells were spinoculated with a lentivirus, resulting in the expression of a shRNA targeting the KDM4A transcript. Another lentivirus was included as a negative control, which causes the expression of a non-targeting control (NTC) shRNA. Puromycin selection was used to select cells which had been infected 48 hours following spinoculation. There is one biological replicate for each condition. Chromatin immunoprecipitation was performed 48 hours following puromycin selection. ChIP-grade antibodies against H3K9me2/3 and H3K27me3 were utilised for IP. The genomic binding sites of KDM4A were determined in wild type THP-1 cells.