Entering edit mode
18 months ago
Hello,
I have 5 cancer microarray datasets that contain 40 samples (one type of cancer and one type of tissue). I would like to make two separate groups (group A = drug-resistance and group B = drug-sensitive). These datasets have different drugs with different mechanisms but all of these drugs have synergic effects on each other and are commonly used as a combination Can I merge these data and remove the batch effect of datasets and then perform WGCNA to identify the module ( based on drug resistance trait)?
Thank you for your help
Before jumping of WGCNA run a PCA analysis including all samples from the 5 cancer microarray datasets and see if it make sense or not merging these data.