Characteristics of noncoding alterations in ATL. (A) Schematic representation for the definition of noncoding elements according to the functional annotations of the PCAWG project.⁴⁷ (B) Number of significant noncoding elements detected in DriverPower¹⁵ and LARVA.³⁷ (C) Frequency and type of cases with mutations within significant noncoding elements and their q values. (D) Sashimi plot for TP73 transcripts within exons 1-4 of WT, SV (+), and noncanonical SS mutation (+) cases, visualized by Integrative Genomics Viewer (top). Distribution and type of coding and SS mutations and SVs in TP73 (bottom). Arcs represent splicing reads split across exons with their numbers. Only arcs with ≥10 split-reads are shown. mRNA reference sequence is shown in supplemental Table 23. (E) Number of mutations according to the alteration status of HLA-A, HLA-B, and CD58. Numbers of cases are shown in parentheses. Two-sided Brunner-Munzel test. (F) Association of driver alterations and number of mutations (left) and neoantigen-associated SNVs (right). (G) Association of driver alterations and number of SVs. (F-G) Thirty-two genes altered in ≥10% of cases are considered. Fold changes of mean alteration numbers between cases with and without the indicated alterations and their significance are shown. Circle size represents their alteration frequency. Immune-related genes are colored in blue. Two-sided Brunner-Munzel test with Benjamini-Hochberg correction.