Hi,

I have methylation data and genes expression data with different samples size. For example(10 methylation samples,15 gene expression samples).

I identified DMRs using bump hunter in minfi package. I want to integrate gene expression and methylation data using DMRs identified using bump hunter.

I found bioconductor packages that can do integration for methylation and gene expression like MethylMix and methylAnalysis but both packages do methylation analysis from scratch and identify DMRs.

Is there a way to use my identified DMRs with gene expression data considering that i have different sample size for both platforms??

Thank you in advance.