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Fig. 1 | BMC Medical Genomics

Fig. 1

From: DNA methylation subgroups in melanoma are associated with proliferative and immunological processes

Fig. 1

Three melanoma methylation subtypes. a Methylation lanes from left to right: 3 methylation subtypes (MS) from Bergen tumors, 9 cell lines, blood leucocytes, melanocytes (two lanes of each light, medium and dark melanocytes), dermal epidermis, dermal fibroblasts; and 3 unsupervised groups from TCGA tumors. Beta values in heatmap are from unmethylated, blue to methylated, yellow. Cluster lane displays the four main CpG probe clusters of the 9,886 melanoma-methylated and 5,236 melanoma-demethylated CpGs, using unsupervised hierarchical clustering in the Bergen data. Island lane: black = CpG island, dark grey = shore/shelf, light grey = open sea. Chromatin lane refers to embryonic stem cell chromatin states. GEX = gene expression. CDKN2Adel = homozygous deletion of the CDKN2A locus. b Mean beta value across MS subtypes in different genome-wide CpG sets. Promoter & Island = annotated as TSS200 or TSS1500 (i.e. up to 1500 bp from transcription start site) and annotated as CpG Island, n = 57,579 CpGs. Away from genes and Island = no annotation for gene and island, n = 42,728 CpGs. Poised promoter = embryonic stem cell chromatin state, see panel A, n = 59,901 CpGs. P-value from Kruskal-Wallis test

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