Table 1 Comparison of DNA and RNA-based fusion gene detection methods.
DNA | RNA | ||||||
|---|---|---|---|---|---|---|---|
Stability | Stable | Instable | |||||
Breakpoint | Across large genomic areas | Only exon-exon junctions | |||||
Detection method | FISH | FUDGE | Targeted-NGS | WGS | RT-PCR | Targeted-NGS | RNA seq |
Speed (days) | 1 | 2 | 7–14 | 7–14 | 1 | 7–14 | 7–14 |
Targeted | Semi | Semi | Semi | No | Yes | Semi | No |
Partner detection | No | Yes | Yes | Yes | N/A | Yes | Yes |
Promoter fusions | No | Yes | Yes | Yes | No | No | No |
Validation required | N/A | No | No | Yes (Sanger) | No | No | Yes (Sanger) |
MRD | No | Yes | Yes | Yes | Yes | Suboptimal | Suboptimal |
