How to test DEGs from microarray data on RNA-seq dataset
Hi there,
I want to create a predictive score of whether a tissue is diseased or healthy with the DEGs that I’ve yielded from a limma analysis (with subsequent refining through stepwise regression methods and currently working on including clinical variables).
I did the original analysis with a GEO dataset of microarray data using Affymetrix U133A and I want to test my gene signature on a TCGA dataset- by looking through literature this seems like a controversial topic so I was wondering if anyone has any ideas on how may be performed?
I know that the values and ranges between the two types of data are very different but these are the only two datasets I know of that have the clinical variables that I am looking for. Any help or thoughts are greatly appreciated.
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