how can i find expressions of miRNAs using TCGA

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3.4 years ago

cagdas ▴ 10

Hi,

I have 625 miRNAs, and I want to find their expressions (up/down regulated) using TCGA.

How can I make it?

Thanks

mirna tcga • 1.1k views

ADD COMMENT • link updated 2.8 years ago by GenoMax 147k • written 3.4 years ago by cagdas ▴ 10

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You mean you want to check the differential expression of these miRNAs in Normal Vs. Tumor samples?

ADD REPLY • link 3.4 years ago by Nitin Narwade ★ 1.6k

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Yes Nitin Narwade

ADD REPLY • link 3.4 years ago by cagdas ▴ 10

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Usually, to test the difference in gene expression between two groups, I run Wilcox Test (a non-parametric test, which uses median to test the difference between two groups) using normal and tumor samples along with the fold change (using log2(median expression of a gene in each group)).

Maybe you can try something similar.

ADD REPLY • link 3.4 years ago by Nitin Narwade ★ 1.6k

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No, not statistical test. I want to see their expression profile Up or Down for a cancer.

ADD REPLY • link 2.8 years ago by cagdas ▴ 10

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You can check cBioPortal (LINK) if you simply want to examine profiles.

ADD REPLY • link 2.8 years ago by GenoMax 147k

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