Extended Data Fig. 8: DNA methylation at alternative promoters is anticorrelated with their activity. | Nature Cell Biology

Extended Data Fig. 8: DNA methylation at alternative promoters is anticorrelated with their activity.

From: Integrative analysis of ultra-deep RNA-seq reveals alternative promoter usage as a mechanism of activating oncogenic programmes during prostate cancer progression

Extended Data Fig. 8

a) Correlation between the promoter activity fold change and methylation differences at differentially active APs between mCRPC t-SCNC and adenocarcinoma mCRPC. 95% confidence interval for the predictions from a linear model is displayed. (Spearman’s correlation test, two-sided). b) Unibind results showing significance of overlap between TF ChIP-seq peaks and upregulated APs in mCRPC t-SCNC vs adenocarcinoma that overlapped with differentially hypomethylated regions in t-SCNC. Each dot represents one ChIP-seq dataset. TFs were ranked by the most significant ChIP-seq dataset. P values were calculated using Fisher’s exact tests. Y axis shows the p values without multi-test adjustments, but the horizontal dashed line shows the corresponding BH-adjusted p value 0.05.

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