Fig. 3

Somatic copy number variations and structure variation in HSRCC. a Somatic structure variations of all patients were combined and illustrated with CIRCOS plot. Translocations between CLDN18 and ARHGAP26/6 were highlighted in red line. Recurrent mutated genes (SNV/INDEL only) were indicated in the outlier of rim and the SMGs were labeled in red (including ARHGAPs and ARHGEFs). Cytoband was illustrated in the inner ring, followed by illustration of copy number alteration (orange represent gain and green represent loss). Structure variations were shown inside of the CIRCOS plot, red lines represent the recurrent CLDN18-ARHGAP26/6 fusions, green and black lines represent inter-chromosomal and intra-chromosomal translocations. b Illustration of breakpoint of CLDN18 and ARHGAP26/6 in DNA level (upper arrows) and RNA level (lower arrows). Fusions of CLDN18 with exon 10 of ARHGAP26, exon 12, and ARHGAP6 were indicated with green, purple and orange upper arrows in DNA, respectively. The junctions of CLDN18 and ARHGAPs in RNA level were indicated with red, yellow, and blue lower arrows or dashed lines in the gene map demonstration and Sanger sequencing graphs, respectively