RNA-seq Based Transcription Characterization of Fusion Breakpoints as a Potential Estimator for Its Oncogenic Potential

Figure 1

The diagram of realignment procedure to identify the overlapping reads of parents’ transcripts. The RNA-seq data realigned to the corresponding reference genome, and the genome annotation file (GTF) and fusion mutations were used to retrieve these overlapping reads of parent genes. The red boxes represent the exonic sequences from Gene 1 and blue boxes are from Gene 2. The sequencing reads aligned onto the breakpoint of Gene 1 and Gene 2 were called overlapping reads; the sequencing reads aligned onto the breakpoint of chimeric transcript were called fusion reads. Breakpoints could occur in exonic region, intronic region, and UTR region.