Fig. 1

Genomic alterations in pulmonary large-cell neuroendocrine carcinomas (LCNECs). a Tumor samples are arranged from left to right. Histological assignments and somatic alterations in candidate genes are annotated for each sample according to the color panel below the image. The somatic mutation frequencies for each candidate gene are plotted on the right panel. Mutation rates and the type of base-pair substitutions are displayed in the top and bottom panel, respectively; a dashed black line indicates the average value. Significantly mutated genes and genes with a significant enrichment of damaging mutations are denoted with * and #, respectively (Q < 0.01, Methods section). Genes with significant copy number (CN) amplifications (CN > 4) and deletions (CN < 1) (Supplementary Fig. 2a, Supplementary Dataset 5) are displayed in red and blue, respectively (Q < 0.01, Methods section). b The distribution of clonal and sub-clonal mutations was analyzed for tumor samples that harbored mutations in key candidate genes. The cancer cell fractions (CCF) of all mutations were determined, assigned to clonal or sub-clonal fractions (Methods section), and displayed as whiskers box-plot (median and interquartile range, whiskers: 5–95 percentile). The CCF of candidate gene mutations is highlighted in red