Fig. 3

Schematic representation of RNA sequencing results reveals a gene fusion between Exon 1 of VOPP1 (blue) and Exon 18 of EGFR (orange). (A) A fragment of Exon 1 of VOPP1 is inverted from the antisense (3’ to 5’) to the sense direction (5’ to 3’) and then fused to Exon 18 of EGFR. Additionally, PCR products spanning the breakpoints were sequenced using Sanger sequencing, confirming the VOPP1::EGFR fusion between Exon 1 of VOPP1 and Exon 18 of EGFR (B). The copy number profile, calculated from the 850k methylation array, reveals a slight gain of chromosome 7 (C). The copy number calculation was obtained from the publicly available database of the German Cancer Research Center (DKFZ) [12] at www.molecularneuropathology.org. The inset of the chromosomal region chr7:54,346,472 − 56,019,558 shows only a slight increase in copy numbers for EGFR (log2 value 0.135) and VOPP1 (log2 value 0.041) compared to the neighboring genes, as shown using IGV files