Question: Delta z score between control and treatment
0
gravatar for bioinfonerd
10 months ago by
bioinfonerd30
bioinfonerd30 wrote:

Hi everyone,

I have RNA expression data for 20 control and 20 matched treatment samples. I need to plot z-score change for a gene signature between control and treatment for all the 20.

This is what I think to do:

  1. Log2 of the expression values
  2. Calculate z-scores separately for all control
  3. In the same way calculate z scores for all treatment samples
  4. For a gene subtract z-score of treatment from z-score of control to get the change
  5. Plot the z-score change per sample for a gene

Is it ok to calculate z-score separately for control send treatment or should I calculate the z-score together for them? Please let me know the correct way to handle this.

Thanks!

rna-seq • 673 views
ADD COMMENTlink modified 10 months ago by Prakash1.2k • written 10 months ago by bioinfonerd30
1
gravatar for Prakash
10 months ago by
Prakash1.2k
India
Prakash1.2k wrote:

Z score is generally used to normalize value to mean and to scale data in some range (depends upon standard deviation) . The best way to compare samples (control and treatment) is to calculate across all the sample.

ADD COMMENTlink modified 10 months ago • written 10 months ago by Prakash1.2k

Thanks very much! That's helpful.

ADD REPLYlink written 10 months ago by bioinfonerd30
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