Figure 1.

Analysis pipeline. Firstly, we inputted CNA and MET datasets with their corresponding mRNA data to the function geneCor to identify a list of CNAexp and METexp genes, respectively. Then, PINPlus was used to extract different patient subgroups for individual CNAexp and METexp datasets and integration of CNAexp + METexp + mRNA data through single and integrated analyses, respectively. Finally, we discovered subtype-specific genes within each identified integrated subgroup, IntSub1 and IntSub2, using the R package GeneCluster. UM, uveal melanoma.