I obtained from a BacTRAP experiment a list of genes which are differentially expressed between 2 genotypes (a control and an experimental one) and in 2 tissue preparations. I would like to cluster these genes according to different parameters, to see I can obtain some indication of cellular pathways, functions which might be affected in the experimental group.
The problem does not seem too complicated, but I do not have experience on these kind of things, and I was wondering if you with your background in bioinformatics, you could give me some online tools? any R libraries? or the best way to proceed?
Many thanks in advance