from an integrative analysis of two microarray colon cancer datasets, i have identified a small gene signature separating primary colorectal cancers froma adjucent mucosa. I would like to further inspect this subset of genes in external datasets, especially with relative mutation data, to inspect/identify any interesting trends regarding mutational patterns in any of these genes.
In this direction, using cBioPortal, i selected the Provisional TCGA Colorectal dataset (~633 samples), with my 94 gene symbols. The results from Oncoprint look quite interesting, as a very small subset of these genes~9-show high mutation rates (more than 10%), as also a specific pattern of copy number alteration-amplification in the almost the same subset of patients/samples. Hence, my main question is:
because i have never used before mutational data, i can interpret the results as follows : "as the calls from the GISTIC are putative", these 9 genes, could be considered as putative targets for therapy, due to the high number of mutation rate, as also from their pattern of overamplification ? as also that they are also located in the same chromosome ? or something similar due to the additional value of mutations in these specific genes ?
I would like also to apologize but again it is my first time to utilize mutation data