selection of disease relevant pathways after NGS
Hi, I need an advice. I work with rna-seq data obtained from intestinal cells from patients with IBD and healthy controls. I mapped raw reads to reference genome, obtained counts and performed differential expression procedures. As a results, I've obtained more that 200 genes, which expression is differ between disease affected and healthy cells. Now I am trying to establish the possible functional analysis. I've tryied to using KEGG, but it is very "molecular" - I need something more relevant to "disease" phenotype. Any advice for tool?
Thanks, d.
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I suggest taking a look at Open Targets. Reactome is another option.
Then there is
Ingenuity Pathway Analysisfrom Qiagen which is a rather pricey commercial option that has a lot of this specific information.