Figure 4
LSD1 and PKC-θ co-binding promotes transcription in mesenchymal cells. Diagram depicts proportion of peaks occupied by PKC-θ in MCF-7/PMA cells, LSD1 in MCF-7/PMA + TGF-β cells, and both PKC-θ and LSD1. LSD1 and PKC-θ ChIP-seq peaks and regions with both LSD1 and PKC-θ peaks were annotated to: (a) summarised chromatin environments of the nearest Ensembl transcript in different cell types. Peaks were classified as rRNA, 5’UTR, promoter (<1 kb from TSS), intergenic, intron, exon, pseudo, TTS, ncRNA or 3′UTR; and (b) summarised CTCF/chromatin states in MCF-7 cells. (c) Percentage of regions bound by LSD1 alone, both LSD1 and PKC-θ, or PKC-θ alone in the indicated gene groups where the number of regions is used as the denominator. (d) Average LSD1, PKC-θ, H3K4me3, and H3K27ac levels around the TSS of LSD1-sensitive genes. Reads are binned by 0.1 kb, ±1.5 kb around TSS. Dashed lines = MCF-7 samples; solid lines = MCF-7/PMA (PKC-θ) or MCF-7/PMA+ TGF-β (LSD1). (e) LSD1, PKC-θ, H3K4me3, H3K27ac, H3K9me3, and H3K27me3 ChIP-seq peaks at JUNB, KLF6, and KLF10 in indicated cell types as shown in the UCSC Genome Browser.
