transcript differential expression analysis
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16 months ago
robinycfang ▴ 10

Hi,

So I developed an algorithm to quantify some transcripts. I want to do differential expression analysis on these transcripts (control vs treatment). Initially, I calculated log2FC and did Wilcoxon ranked test on it, and found a significantly differentially expressed transcript. Then, I did Wilcoxon directly on control vs treatment, but for the same transcript, I found no difference. So I am wondering, when we do DE analysis, what's the null hypothesis? Is it log2FC = 0 or ctrl = tret? The two null hypotheses look literally the same, but why we get different results eventually?

RNA-Seq gene statistics deseq2 • 345 views
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Entering edit mode

You need to provide more information on your experiment. Right now it's unclear what your methodology is, and what question you are trying to address.

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