Question: Why are lowly expressed genes less likely to detect as DE?
0
gravatar for statfa
16 months ago by
statfa530
statfa530 wrote:

Hi,

In my study, I have realized that the model I use is not able to detect DE genes if genes are lowly expressed. What can be th reason that lowly expressed genes are less likely to be detected as DE even if they are truely DE?

I am not talking about increasing the power of analysis by removing lowly expressed genes as they may be affected by noises. I am talking about the situation in which my lowly expressed genes are important but my model cannot detect differences in expressions. why is that?

Thank you

rna-seq de • 351 views
ADD COMMENTlink modified 16 months ago by Devon Ryan96k • written 16 months ago by statfa530
4
gravatar for Devon Ryan
16 months ago by
Devon Ryan96k
Freiburg, Germany
Devon Ryan96k wrote:

The strength of fold change and variance shrinkage scales inversely with the size of the values (and the number of them). As a rule, power increases with sample number and the number of read counts per gene.

ADD COMMENTlink written 16 months ago by Devon Ryan96k

Thank you. Do you have any reference for this, please?

ADD REPLYlink written 16 months ago by statfa530

I found the reference here. Thank you

ADD REPLYlink modified 16 months ago • written 16 months ago by statfa530
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