How can I make a similar mutated gene expression figure with TCGA data

How can I make a similar mutated gene expression figure with TCGA data

1

Student just starting out in a cancer genomics lab. I have a paper in which I am interested in replicating the first figure to get a grasp on the techniques used, but unsure what steps I need to take. I would like to use TCGA data from FireBrowse to do this. I already have the mutation annotation file (MAF) and RNA-seq (genes normalized) file downloaded for breast cancer. Do I need to download any additional or alternative files? How should I go about replicating this figure, any good resources for the analyses I need to do? I have R installed, but other than that I have no idea where to start. Figure 1 from this paper


cancer


RNA-Seq


FireBrowse


TCGA

• 66 views

Read more here: Source link