Validating driver genes
I have found out a set of high confidence driver genes using a detection tool. Now I want to see what effect do these genes have on important biological processes.
1. Although I have no RNA seq data, is it possible to find the gene expression values of the gene set I have so that I can cluster them? What can I say from the clusters I get?
2. How can I do some pathway analysis so that I can give the gene set as an input and get all the pathways getting affected?
Except for experimental evidence, what else can I do to validate these driver genes?
(P.S: I am very new to this field, so kindly bear with me)
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What are "driver genes"? I guess it is related to cancer (by sheer google-speak volume), but for me, driver genes are these:
Meiotic drive changes sperm precedence patterns in house mice: potential for male alternative mating tactics?
Polymorphism for Y-Linked Suppressors of sex-ratio in Two Natural Populations of Drosophila mediopunctata
Driver genes are the ones that drive carcinogenesis. The presence of one guarantees in some way, cancer progression.
What data did you use for finding driver genes? What detection tool you have used?Can you elaborate on this?
I used OncodriveFM tool. I worked on a Pancancer dataset available on https://www.synapse.org/#!Synapse:syn300013/wiki/27406