First, I would like to say that, I am not a bioinformatician, I have no computational biology background or skills, I do not know any programming languages, no unix background etc. But I do need to retrieve some data from the TCGA database, I could not find any search option to look for a particular mutation on the website.
What I need to do is to get a list of all the somatic mutations of a "Gene X" that were found in all the cancer types and in how many cases this mutation is found.
My list would basically go like this:
Mutation //// Cancer Type ///// number of cases
I would like to learn how to generate a list like this from the TCGA website.
the cBio portal for cancer genomics enables you to do just that.
Did you try to address this question to TCGA guys? (https://tcga-data.nci.nih.gov/tcga/tcgaContact.jsp)
ICGC is better organized and much straight forward then actual TCGA