I have the gene expression signatures of cancer cell lines and cancer cell lines treated with certain drug. Now I want to analysis if the gene expression of cancer cell treated with the drug is similar with the gene expression of normal cell lines. So I collected the gene expression signatures of normal cell lines from GEO. I noticed the data distribution of these two signatures (consists of 20000+ genes) are different, normalization is needed. Which method should I use to compare these two signatures? A simple Spearman rank analysis or GSEA? But GSEA is used to analyze differentially expressed genes, I can’t figure it out which gene expression signature should I compare with.
Question: How to compare the gene expression signature of treated cancer cell and normal cell
5.7 years ago by
liuyang • 20
liuyang • 20 wrote:
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