gene co-expression network

Question

[Morteza Hadizadeh]

Hi everyone,

• Is it logical to analysis the gene co-expression network between samples with 3 repeats?

• In order to construct a biosynthesis gene co-expression network which one is more valid? Meta-Analysis result or individual study result.

I would be very pleased if you could guide me.

[Kevin Blighe]

Is it logical to analysis the gene co-expression network between samples with 3 repeats?

How many total samples do you have? - 3 replicates per group is fine, but how many total groups and samples do you have?

In order to construct a biosynthesis gene co-expression network which one is more valid? Meta-Analysis result or individual study result.

It seems that you have samples from multiple studies - it is correct? You should process these separately (construct a co-expression network for each study), and then do meta-analysis.

[Morteza Hadizadeh]

Apologies for the delay in replying. There are two groups in this study, control (3replicates) and treated samples (3rep). there is just one group of treated samples.

[Kevin Blighe]

Your follow-up question is here: gene expression correlation analysis