Previous studies reported that certain copy number events (eg. 9p loss and 17q gain) were correlated with patient outcomes, therefore, we evaluated the association of SCNA with clinicopathologic features and prognosis in our TFE3-tRCC cohort (Supplementary Table 4). Here, TFE3 is linked to renal cell carcinoma associated with Xp11.2 translocations/TFE3 gene fusions.