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A question about the results of differential expression analysis #27

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abedkurdi opened this issue Feb 16, 2023 · 1 comment
Open

A question about the results of differential expression analysis #27

abedkurdi opened this issue Feb 16, 2023 · 1 comment

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@abedkurdi
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Hello everyone,

I downloaded 5 TCGA-BRCA samples (by choosing specific criteria - I got five tumor samples and their five normal samples) and I run CIRIquant on them. I performed differential expression analysis using CIRI_DE_replicate and I got the final table. My question is: Do you have any idea why would I get good log2 fold change values but not statistically significant (all FDR values are greater than 0.05)?

I appreciate your advice and thanks in advance.
@abedkurdi
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abedkurdi commented Feb 16, 2023 •
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It seems TCGA RNA-seq data are not total RNA-seq data. They are mRNA-seq. Maybe this is why I am getting insignificant results.

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@abedkurdi