Obtaining Methylation Signatures

The significant CpG loci detected in the previous step actually form a methylation signature, which we shall now visualise by a heat map.

Select the list (CpG Loci of Interest) spreadsheet in the spreadsheet pane on the left

Select Cluster Based on Significant Genes from the Visualization panel of the Illumina BeadArray Methylation workflow

Select Hierarchical Clustering for Specify Method

Select OK

Verify that 1/list (CpG Loci of Interest) is selected in the drop-down menu

Select Standardize for Expression normalization

Select OK

The heat map will be displayed on the Hierarchical Clustering tab (Figure 1).

Figure 1. Hierarchical clustering with heat map invoked on a list of significant CpG loci

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