Compare Microarray with RNA-Seq

Question

[sangram_keshari]

Hello,

I am trying to compare the genes of interest which we got through microarray earlier and through RNA-Seq recently. I read couple of papers but they did not give a clear cut idea of how to statistically normalise the expression values so that both can be compared.

So, RNASeq expression data are in both FPKM and TPM. Microarray expression data in MAS5 and GCRMA.

Can any one please help me with proper links.

Thank you.

[GenoMax]

Comparing microarray to RNA-seq data

Answer 1

[Kevin Blighe]

My feeling is that trying to do this is just one step too far, in terms of bringing in extra factors that are likely to confound (bias) your results. My advice would be to treat them separately and to view it as a meta-analysis. I'm doubtful that you'll find much support from the community here in terms of attempting to actually merge these data-types together faithfully.