Table 3.
Genion and LongGF gene fusion calls on MCF-7 cell line data released by PacBio. These set of gene fusions are validated either experimentally (EXP) or by short reads sequencing (SRS). # Reads is the number of reads from the data release. Ranks are the order which fusion reported by the tools. Chimeras found by Genion, but identified as random pairing are given RP rank. FiN and ff-igf are the scores computed by genion
| Gene1 | Gene2 | # Reads | Validation | LongGF | Genion | SV Overlap | ||
|---|---|---|---|---|---|---|---|---|
| Rank | Rank | FiN | ff-igf | |||||
| BCAS4 | BCAS3 | 1183 | EXP | 1 | 1 | 5.15582 | 8070.86 | translocation |
| RPS6KB1 | VMP1 | 349 | EXP | 2 | 2 | 0.25847 | 2046.15 | deletion |
| SYTL2 | PICALM | 117 | SRS | 4 | 3 | 0.45365 | 857.222 | ✗ |
| RPS6KB1 | DIAPH3 | 101 | SRS | 5 | 4 | 0.31655 | 626.54 | ✗ |
| SLC25A24 | NBPF6 | 41 | SRS | 6 | 5 | 1.80952 | 472.95 | inversion |
| PAPOLA | AK7 | 37 | SRS | 7 | 6 | 0.20536 | 369.71 | ✗ |
| ESR1 | CCDC170 | 24 | SRS | 10 | 8 | 0.52564 | 308.07 | ✗ |
| TXLNG | SYAP1 | 27 | EXP | 12 | 9 | 0.11986 | 275.28 | ✗ |
| TBL1XR1 | RGS17 | 15 | SRS | 34 | 12 | 0.66667 | 153.69 | translocation |
| MYO6 | SENP6 | 14 | SRS | 35 | 13 | 0.10683 | 147.50 | ✗ |
| POP1 | MATN2 | 7 | SRS | RP | 0.15790 | 28.27 | ✗ | |
| MYH9 | EIF3D | 11 | SRS | 14 | RP | 0.04000 | 140.16 | ✗ |
| FOXA1 | TTC6 | 26 | SRS | 4.10526 | 303.47 | inversion | ||
| RSBN1 | AP4B1 | 7 | SRS | 19 | 0.01100 | 8.00 | ✗ | |
| ZNF217 | SULF2 | 16 | SRS | RP | 0.00758 | 27.14 | deletion | |
| ARFGEF2 | SULF2 | 23 | SRS | 15 | RP | 0.03104 | 113.28 | inversion |