Fig. 2

DNA methylation modify the transcriptional effect of enhancers and silencers. a Method: Putative regulatory DNA segments were captured from GBM tumors and allowed to drive self-transcription in T98G GBM cells, following complete de-methylation or in vitro re-methylation of the expression vectors. Local DNA to RNA ratios, relative to the total DNA to RNA ratio, denote transcriptional activity score (TAS) of the evaluated DNA segments. b Fractions of silencers (TAS < 0) or enhancers (TAS > 0) along the studied gene domains. c Distributions of regulatory elements, or of the elements that were annotated as silencers or enhancers, along the studied gene domains. d Regulatory chromatin characteristics of enhancer and silencer loci, across a variety of different cell types (ENCOD data). Level of transcription factors binding (TFB), factor variety (breadth), and DNase I hyper-sensitivity are shown. e Fractions of regulatory elements that are functioning as silencers or enhancers in GBM cells, which bind transcriptional repressors, activators, or both across a variety of different cell types (ENCOD data). f Fractions of regulatory elements which altered their functions upon DNA methylation. g Patterns of methylation effects on methylation-sensitive silencers and enhancers