DNA Hypomethylation Affects Cancer-Related Biological Functions and Genes Relevant in Neuroblastoma Pathogenesis
Figure 2
Methylation and expression data of CCND1.
A: Graphical display of the DNA methylation levels of the 17 CpGs measured across the CCND1 length. The heatmap shows the data from 21 neuroblastoma (NB) and reference samples (2 GN, 1 GNB; 1 FB and 1 AG). Below the heatmap we show some genomic features of the CCND1 locus (UCSC Genome Browser, data from the hg19 adapted to the hg18) including Transcription Factor binding sites (TFBS), evolutionary conserved DNAseI hypersensitive domain (DNAseI cluster) and Vertebrate Multiz Aligment, PhastCons Conservation (Mammal Conservation) and miRNA target sites (TS). B: DNA methylation-specific pyrograms for CCND1. The pyrogram above corresponds to a neuroblastoma sample whereas the pyrogram below corresponds to a reference sample (FB). Grey shading shows the percentage of methylation observed for the CpGs analyzed. C: Box-plot for DNA methylation data of CCND1 obtained by bisulfite pyrosequencing in an independent cohort of 13 NB and 2 GN samples and reference samples. D: mRNA expression levels of CCND1 analyzed by qRT-PCR in two NB independent cohorts.