Does anybody know whether the Houseman technique for post-hoc correction of cellular heterogeneity in DNA methylation experiments has ever been applied to non-human datasets e.g. rat or mouse splenocytes / blood?
Hi,
I don't know for sure, but I would say that it is actually quite unlikely in the current state of the protocol. If I remember correctly the houseman technique relies on methylation profiles obtained trough illumina 450k array for which very limited number of probes actually recognize the murine DNA (see publication enclosed). There is unfortunately currently no real good methods for genome wide methylation assessment for non human gDNA.
For murine DNA I expect that the best would be using RRBS. But you would need to reperform the whole analysis in murine DNA, to define the markers specific of each cell fractions and do the cell mixture deconvolution with the murine specific markers.
Lets hope someone might have a better output,
Best,
Ludovic
Article Exploring the utility of Human DNA methylation arrays for pr...
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