Entering edit mode
6.7 years ago
new_bioinfo
•
0
Hello,
I'm working on a RNA-Seq study with the following design:
1t - 1dpt 1t - 3 dpt 1 t - 5 dpt 2t - 1 dpt 2t - 3 dpt 2t - 3dpt
Control 3 replicates 3 replicates 3 replicates 3 replicates 3 replicates 3 replicates
Test 3 replicates 3 replicates 3 replicates 3 replicates 3 replicates 3 replicates
1t-1dpt
: 1 treatment, RNA-Seq 1 day post-treatment
I want to determine if the number of treatments has an effect on gene expression for a list of genes of interest.
How should I proceed? I thought of taking the averages of the replicates in each cell and comparing them one to one (1t - 1dpt
to 2t - 1dpt
, etc.) with a paired t-test. I also want how this effect applied to genes in different metabolic pathways: I would use ANOVA. Is it right? Is there more analysis to be done?
Thanks!