How to obtain Unmethylated and Methylated signal in GenomeStudio for each CpG in MethylationEPIC Array
For Methylation arrays, the Beta value is calculated as: Signal B/(Signal A + Signal B + 100)
where Signal A = Unmethylated and Signal B = Methylated
To obtain Signal A (Unmethylated) and Signal B (Methylated) values in GenomeStudio 2011.1 software in the Methylation Module:
Under the Sample Methylation Profile table, select the "Column Chooser" icon
The "Column Chooser" window pops up. Under Hidden Subcolumns on the right side, highlight "Signal_A" and "Signal_B".
Then click the "<=Show" button so that these values appear under Displayed Subcolumns.
External Links: GenomeStudio Methylation Module v1.8 User Guide Recorded Webinar: Infinium Methylation: Introduction to GenomeStudio Analysis and BeadArray Controls Reporter
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