I want to identify the version of MethylationEPIC from the idat file.

Question

[Apprentice]

I have idat files of Infinium MethylationEPIC. I would like to know if the array of this file is Infinium MethylationEPIC v1.0 or Infinium MethylationEPIC v2.0. Is it possible to investigate the version of the MethylationEPIC from the idat files? I would appreciate it if you could enlighten me.

Answer 1

[Basti]

From the Infinium MethylationEPIC v2.0 data sheet that you can download from product files here, creators removed 63k and added 186k on the new chip. In the product files, you have this list of new probes, a simple way would be to check whether these new probes are in your dataset (or alternatively with the removed probes)

[Apprentice]

Thank you for your advice! I'll try it.