I would like to analyze breast cancer subtypes, and I know that TCGA is a good place to go. Still, I am wondering if there are some other large breast cancer data cohorts. Hopefully it includes different subtypes of breast tumor.
Hi,
You can try ONCOMINE. It has large number of cancer data cohorts.
Best regards,
Jyoti
Hi Yuanhang Liu,
for breast cancer subtypes I suggest you to try this functions:
dataSubt table(dataSubt$PAM50)
Basal Her2 LumA LumB Normal
98 58 232 129 30
and then you can search in GEO like breast and subtype you need (eg. GSE65212 ...)
For the moment I can suggest you start looking at our recent package TCGAbiolinks. I will appreciate if you could help me by means of feedbacks or comments.
For further informations or collaborations you can write me ([email protected]).
Consider if we are able we can add features or functionalities you need into the package.
Best,
Antonio Colaprico
Article TCGAbiolinks: An R/Bioconductor package for integrative anal...
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