Question: Delta z score between control and treatment
0
gravatar for bioinfonerd
2.0 years ago by
bioinfonerd40
bioinfonerd40 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 • 1.5k views
ADD COMMENTlink modified 2.0 years ago by Prakash1.9k • written 2.0 years ago by bioinfonerd40
1
gravatar for Prakash
2.0 years ago by
Prakash1.9k
India
Prakash1.9k 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 2.0 years ago • written 2.0 years ago by Prakash1.9k

Thanks very much! That's helpful.

ADD REPLYlink written 2.0 years ago by bioinfonerd40
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1597 users visited in the last hour