Fig. 2

Linked-reads data supporting BRAF fusions created by (a) a tandem duplication resulting in the canonical KIAA1549-BRAF fusion in JPA_2, (b) an interchromosomal translocation creating a TOP2B-BRAF fusion detected in JPA_3, and (c) a structural variant leading to the PTPRZ1-BRAF fusion detected in JPA_1, all visualized in Loupe. d Circos plots for linked-read datasets showing CNV calls made by TitanCNA (outer circle) and manually validated somatic SVs detected by at least two linked-read callers (inner circle). Copy number abnormalities are colour coded; structural variants are indicated by lines. e Circos plot of chromosome 7 in JPA_2 showing the canonical fusion, a catastrophic chromosomal event on chromosome 7 in JPA_1 and circos plot of chromosomes 3 and 7 with an interchromosomal fusion in JPA_3. Circos plots for linked-read datasets showing CNV calls made by TitanCNA (outer circle) and manually validated somatic SVs detected by at least two callers (inner circle). Copy number abnormalities are colour coded; BRAF fusions are shown in yellow and all other SVs in grey