Question: normal sample of ovarian cancer in TCGA dataset
0
gravatar for yueli7
22 months ago by
yueli7140
China
yueli7140 wrote:

Hello,

I want to compare the fallopian tube (normal) and cancer samples form TCGA ovarian cancer patients.

Where can I find the fallopian tube (normal) sample? Is that "Solid Normal Tissue"?

Thanks in advance for great help!

yue

rna-seq • 1.1k views
ADD COMMENTlink modified 22 months ago by Kevin Blighe60k • written 22 months ago by yueli7140
2
gravatar for Kevin Blighe
22 months ago by
Kevin Blighe60k
Kevin Blighe60k wrote:

Yes, Solid Normal Tissue is one of the 'normal' tissues that were used in the TCGA. You can infer whether a sample is from tumour or normal by its TCGA barcode. The fourth (4th) component of the TCGA barcode, a 2-digit number, indicates this:

TCGA_barcode

  • Tumour samples: 01 - 09
  • Normal samples: 10 -19
  • Control samples: 20 - 29

Further information:

If you don't have the TCGA barcodes and just have file UUIDs or filenames, then you can [possibly] obtain the matching TCGA barcodes for these via these functions:

Best of luck, Kevin

ADD COMMENTlink written 22 months ago by Kevin Blighe60k

Hello, Kevin Blighe,

Thank you so much for your great help!

You told me so detailed knowledge!

Thank you again!

Yue LI

ADD REPLYlink written 22 months ago by yueli7140

谢谢 / Thank you!

Best of luck.

Kevin

ADD REPLYlink written 22 months ago by Kevin Blighe60k
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