I have methylation data via the Illumina Epic Beadchip and gene expression data via RNA sequencing.
The methylation data is annotated with the manifest file and annotation file from Illumina. I would like to use the gene symbol from UCSC genome browser, as UCSC also provides information on 'relationship to CpG island' and 'gene region'.
The gene expression data is annotated with Ensembl 75 for hg19.
My goal is to know if changes in methylation in a certain gene change its expression. But since both datasets are annotated with different genome browsers, I was wondering if I can match both datasets?
Thank you in advance,