Fig. 4

Copy number alterations are detectable in lymph node metastases of melanoma. Spatial transcriptomic data from Pozniak et al. bioRxiv 2022 was analyzed for copy number alterations with the STmut software package. Heatmaps show gains (red) and losses (blue) in spots (columns) over chromosomal arms (rows). Spots are organized by gene expression clusters from the Spaceranger workflow, and within each gene expression cluster, spots are rank ordered by their unique molecular identifier (UMI) counts (highest to lowest). Spots with lower UMI counts tended to have noisier copy number profiles. To the left of each heatmap, the localization of gene expression clusters (top), tumor/normal tissue (middle), and melanocytic markers (bottom) are shown. Note the overlap between spots with copy number alterations, tumor tissue, and melanocytic markers