I noticed that there is a difference in the Breast Cancer data pulled from the GDC Portal (https://portal.gdc.cancer.gov/) and the Firebrowsen Data (http://firebrowse.org/) . What is the difference between these two?
Also, I know that the "minus_germline" sample of the firebrowse data is created by comparing the tumor data to a standard blood derived normal sample that is estimated. Is it necessary to compare each sample to its original blood derived normal sample that is unique to each patient , on top of the standard comparison this website has already done?
My goal is to be sure that there is no chance of any private natural copynumber changes from the patients data so we know what is really a tumor related change.
Any comments are appreciated!
Thank you, Jameelah