About TCGA breast cancer HER2 status

Question

[Eric Wang]

I have already downloaded the TCGA-BRCA clinical data. I want to divide the tumor sample using HER2 status. But I do not know which item represents the HER2 status? There are a lot of items (contain "HER2" keyword) such as:

lab_proc_her2_neu_immunohistochemistry_receptor_status

lab_procedure_her2_neu_in_situ_hybrid_outcome_type

...

Thanks Dong

Answer 1

[Kevin Blighe]

There should be one called her2_status_by_ihc.

See my other posts:

• How to download triple negative breast cancer RNA-seq fpkm data from GDC.
• Dataset for Breast Cancer with subtypes based on IHC/FISH

Another related thread:

• https://docs.cancergenomicscloud.org/discuss/5bd6f3948fb922004aa5be82

Finally, if you take the CDE ID from the clinical data, you can easily search for TCGA clinical terms to see more descriptive information via the CDE Browser:

Kevin

[Eric Wang]

Thank you! I got it.