Other genetic alterations identified in cases with structural variants (all metastatic carcinomas) included TMPRSS2-ERG fusions in 5 of 8 cases, PTEN copy number loss in 4 of 8 cases (homozygous deletion of the entire gene in 3 cases and 18-bp deletion of intron 1 case), and AR and FOXA1 amplification in 1 of 8 cases each. Here, FOXA1 is linked to metastatic carcinoma.