Selecting probes from TCGA data

Question

[maruthi]

Hi,

How to select SNPs with minor allele frequency more than 0.3 from the TCGA data ? I have never used or analysed data from TCGA previously. Recently i am given a text file with few probes. However, I would like to learn from the scratch. Is there any resource/weblink which explains how to choose SNPs from the TCGA data for designing a bait for Target Seqeuncing ? My area of interest is Breast Cancer.

Thank you,

Maruthi.