Table 1 Summary of TSV predictions for HCC1954 and HCC1395 cell lines
From: SQUID: transcriptomic structural variation detection from RNA-seq
Method | SQUID | FusionCatcher | JAFFA | deFuse | INTEGRATE | SOAPfuse | Pipeline | |
|---|---|---|---|---|---|---|---|---|
HCC1954 | Fusion-gene predictions | 46 | 54 | 67 | 95 | 67 | 177 | 2118 |
| Â | Fusion-gene hits | 7 | 5 | 4 | 12 | 10 | 5 | 4 |
| Â | Non-fusion-gene predictions | 46 | 0 | 0 | 83 | 0 | 0 | 1080 |
| Â | Non-fusion-gene hits | 7 | 0 | 0 | 5 | 0 | 0 | 11 |
HCC1395 | Fusion-gene predictions | 44 | 42 | 44 | 110 | 61 | 185 | 2413 |
| Â | Fusion-gene hits | 11 | 11 | 16 | 15 | 16 | 19 | 23 |
| Â | Non-fusion-gene predictions | 57 | 0 | 0 | 121 | 0 | 0 | 1185 |
| Â | Non-fusion-gene hits | 9 | 0 | 0 | 7 | 0 | 0 | 8 |