finding normal and cancer samples from TCGA expression data

Question

[zizigolu]

hello,

in TCGA expression data https://www.synapse.org/ for colorectal cancer I found a file named bcgsc.ca_COAD_IlluminaHiSeq_miRNASeq.whitelist_tumor but there is not such a file for normal sample or might be normal samples embeded within this file that I can't differentiate them.

who knows how I can find both normal and tumor samples please?

thank you

[zizigolu]

TCGA: Does TCGA cancer studies have mRNA expression data for Control/Normal samples?

Answer 1

[poisonAlien]

AFAIK, TCGA does not do RNA seq for normal samples.

EDIT: Turns out there are few RNA seq for normals. You can identify them from their barcode (4th slot, should be 10 to 19). See here: https://wiki.nci.nih.gov/display/TCGA/TCGA+barcode

[zizigolu]

thank you but for example TCGA-01-0628-11A-01R-0363-***07*** is in unc.edu_OV_AgilentG4502A_07_3.whitelist_normal.txt