Entering edit mode
7.1 years ago
Hello All,
I wanted to compare the methylation data with expression data. Can I compare the methylated counts of individual genes from whole genome methylation file ( of MeDIP seq data) with that of fpkm values of expression for the same gene which is common in medip and transcriptomics data and then infer the correlation differential methylation/expression based on this comparison?
Regards,
How many samples you have? Do you have control and treated sample?
One thing you can do is first check for the percentage of the methylated region in different sites.
Intergenic Site Intron Site Exon Site promoter-TSS(Transcription Start Site ) TTS (Transcription Termination Site)
Mostly the methylation should be observed in TSS site. Then for the Particular genes, you can do your case studies like hyper and hypo Methylation. And lastly, you can compare with your Transcriptome data.
Hope this might help you.