Hi, I am analyzing around thirty tumor samples. Do you think this size is good to analyze targets with GISTIC? The most of journals I have read report more than 100 samples. I am wondering whether I can find valuable targets within small size cohorts. It will be great if you share your experiences who had analyzed GISTIC or similar analysis program. Thanks alot!
It is a little low, which may translate as not many regions being statistically significant. However, I would encourage you to try it. You could justify reducing the p-value threshold for the identified recurrent regions, keeping in mind that the relatively low sample n is always a limitation.