Question: How to link clinical data with DE miRNA data retrieved using TCGAbiolinks
gravatar for Björn
2.6 years ago by
Björn50 wrote:

Hi, I managed to get "dataDEGs" for miRNAs from TCGA-PRAD database using TCGAbiolinks. I also downloaded clinical data from the TCGA. How can I introduce a "" factor to see radiation induced DE miRNAs ?

clinical.radiation <- GDCprepare_clinic(query, = "radiation")
datatable(clinical.radiation, options = list(scrollX = TRUE,  keys = TRUE), rownames = FALSE)

Also, how to measure "Survival" among patients with and without radiation (for selected DE miRNAs) ?

Is it better to use "legacy" or "harmonized" data for miRNAs for above analysis. Is "harmonized" data already normalized for counts.

mirna clinical tcgabiolinks • 723 views
ADD COMMENTlink modified 2.6 years ago • written 2.6 years ago by Björn50
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1384 users visited in the last hour