KDM5A KO led to the activation of PML-RARα target genes. (A) Volcano graph showing the gene expression changes upon KDM5A loss in NB4. (B) Box plot showing the expression of PML-RARα target genes in the control and KDM5A-KO NB4 cells. Gene expression levels are presented as log₂CPM. The median log₂CPM of control and KDM5A-KO NB4 cells were labeled. Statistical significance was determined by using Student’s t test. ****P < .0001 . (C) RT-qPCR examination of the expression of the select PML-RARα target genes. Statistical significance was determined by using Student’s t test. *P < .05, ***P < .001, ****P < .0001. (D) H3K4me2 ChIP-qPCR validation of the select PML-RARα target genes. The statistical significance was determined by using Student’s t test. **P < .01, ***P < .001, ****P < .0001. (E) Density plots of the indicated ChIP-seq signals over PML-RARα target genes ± 3 kb. (F) Heatmap showing the KDM5A binding in NB4 cells, and H3K4me2 and H3K4me3 levels in the control (Ctrl) and KDM5A-KO NB4 cells, over KDM5A bound PML-RARα target genes ± 3 kb, sorted according to KDM5A binding intensity. (G) ChIP-seq snapshots of 2 select PML-RARα target genes for KDM5A, H3K4me1, and input in NB4; H3K4me2, H3K4me3, and RNA-sequencing in the control and KDM5A-KO NB4 cells. TES, transcription end site; TSS, transcription start site.