Fig. 1

Interaction of SETBP1 with genomic DNA. a A/T content comparison between SETBP1 WT/G870S-binding regions and the reference genome. The frequency of A/T in SETBP1 target regions was compared with A/T frequency in the entire genome. Pearson's chi-squared test was used to test the significance of the difference between the two proportions. Actual numbers can be found in Supplementary Table 1. b SETBP1 consensus binding site revealed by de novo motif discovery. c Nuclear cell lysate oligonucleotide pulldown experiment. Target (T) and non-target (U) biotinylated probe oligonucleotides were designed according to ChIP-Seq data. Empty beads were used as control for non-specific binding. Pulldown was performed on nuclear extract from FLP-In SETBP1-G870S transfectants or Empty lines. Lamin B1 was used as a loading control. d Peak distribution density according to the distance from gene transcription start sites. e Peak quantitation in the different genomic regions, reflecting the position of binding sites relative to the next known gene. f Gene Ontology (GO) biological process functional enrichment of SETBP1 target genes. g Left, percentage of WT and G870S regions covered by CpG islands (CGIs), evolutionary conserved regions (ECRs), and DNase I hypersensitivity (DHS) at single-nucleotide resolution. Right, percentage of SETBP1 target genes having CpG islands within their promoter. ***p < 0.001