Fig. 5

BAP1 calling-card target genes distinguish molecular class in primary UM tumors. Gene expression values from published microarray data of primary UM tumors [6] were analyzed for genes identified in this study as having BAP1-targeted insertions and significant gene expression response to BAP1 depletion. a Heatmap showing relative gene expression (blue to red) of BAP1 targets in primary UM tumors. Each column is one human tumor. Each row is one gene. Genes were clustered by comparative marker selection based on tumor class (see Additional file 9). Maximum and minimum values were normalized for each row and do not represent global maxima or minima. Black bars indicate genes with significant differential expression (p < 0.01). b Unsupervised principal component analysis of published tumor data using only BAP1 calling card targets shows a portion of genes (principal component 2: PC2) that distinguish class 1 (blue circles) from class 2 (red circles) tumors