Question: Why are lowly expressed genes less likely to detect as DE?
0
gravatar for statfa
12 days ago by
statfa430
statfa430 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 • 105 views
ADD COMMENTlink modified 12 days ago by Devon Ryan89k • written 12 days ago by statfa430
4
gravatar for Devon Ryan
12 days ago by
Devon Ryan89k
Freiburg, Germany
Devon Ryan89k 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 12 days ago by Devon Ryan89k

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

ADD REPLYlink written 12 days ago by statfa430

I found the reference here. Thank you

ADD REPLYlink modified 12 days ago • written 12 days ago by statfa430
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