Transcript Fusion
The transcript fusion data of TCGA were retrieved from the TumorFusions database.
List of the transcript fusions of the PDGs in each cancer type
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| Cancer Type | TCGA_barcode | Patient | Fusion_transcript | Gene_A | Gene_B | Chr_A | Chr_B | Strand_A | Strand_B | #_Discordant_Pairs | #_JSR | #_perfect_JSR | Evalue | Junction_A | Junction_B | Tier | Frame | TN | WGS_validation | Centrality |
| BLCA | TCGA-XF-A9ST-01A | TCGA-XF-A9ST | FDFT1|GATA4 | FDFT1 | GATA4 | 8 | 8 | 1 | 1 | 48 | 22 | 19 | 0.92 | 11679387 | 11614444 | tier1 | Out-of-frame | 6410 | NA | 0.37898 |
| BRCA | TCGA-E2-A15K-01A | TCGA-E2-A15K | FDFT1|INTS9 | FDFT1 | INTS9 | 8 | 8 | 1 | -1 | 11 | 4 | 2 | 2.6 | 11660440 | 28707790 | tier1 | Out-of-frame | 6411 | validated | 0.34609 |
| BRCA | TCGA-AO-A0J2-01A | TCGA-AO-A0J2 | FDFT1|NEIL2 | FDFT1 | NEIL2 | 8 | 8 | 1 | 1 | 59 | 54 | 43 | 0.72 | 11660440 | 11640712 | tier1 | Out-of-frame | 6413 | validated | 0.35597 |
| OV | TCGA-09-2051-01A | TCGA-09-2051 | FDFT1|GATA4 | FDFT1 | GATA4 | 8 | 8 | 1 | 1 | 2 | 11 | 9 | 0.92 | 11667359 | 11612555 | tier2 | In-frame | 6409 | NA | 0.37898 |
| STAD | TCGA-BR-8690-01A | TCGA-BR-8690 | PTPRH|PPP6R1 | PTPRH | PPP6R1 | 19 | 19 | -1 | -1 | 4 | 11 | 9 | 0.012 | 55711604 | 55748338 | tier1 | Out-of-frame | 13867 | validated | 0.36625 |
| BRCA | TCGA-LL-A7SZ-01A | TCGA-LL-A7SZ | EPHA6|C11orf80 | EPHA6 | C11orf80 | 3 | 11 | 1 | 1 | 6 | 5 | 5 | 4 | 96963131 | 66583524 | tier1 | In-frame | 5672 | NA | 0 |
| BRCA | TCGA-BH-A0HW-01A | TCGA-BH-A0HW | EPHA6|RG9MTD1 | EPHA6 | RG9MTD1 | 3 | 3 | 1 | 1 | 5 | 1 | 1 | 0.89 | 96706837 | 101283614 | tier2 | CDS-5UTR | 5674 | NA | 0.36659 |
| LIHC | TCGA-DD-AA3A-01A | TCGA-DD-AA3A | EPHA6|TSC22D2 | EPHA6 | TSC22D2 | 3 | 3 | 1 | 1 | 15 | 9 | 8 | 0.68 | 96585733 | 150174863 | tier1 | Out-of-frame | 5675 | NA | 0.36646 |
| PRAD | TCGA-KK-A59X-01A | TCGA-KK-A59X | EPHA6|CNTN6 | EPHA6 | CNTN6 | 3 | 3 | 1 | 1 | 11 | 11 | 11 | 0.64 | 96585733 | 1443117 | tier1 | Out-of-frame | 5673 | NA | 0.36899 |
| BLCA | TCGA-DK-A1AC-01A | TCGA-DK-A1AC | SLC4A4|TMPRSS11E | SLC4A4 | TMPRSS11E | 4 | 4 | 1 | 1 | 22 | 18 | 15 | 2 | 72102366 | 69327539 | tier1 | Out-of-frame | 16275 | NA | 0 |
| PRAD | TCGA-M7-A725-01A | TCGA-M7-A725 | SLC4A4|ARHGAP6 | SLC4A4 | ARHGAP6 | 4 | X | 1 | -1 | 13 | 14 | 13 | 0.11 | 72263370 | 11272827 | tier1 | In-frame | 16271 | NA | 0 |
| PRAD | TCGA-KK-A7AZ-01A | TCGA-KK-A7AZ | SLC4A4|C1orf135 | SLC4A4 | C1orf135 | 4 | 1 | 1 | -1 | 8 | 5 | 5 | 0.047 | 72263370 | 26162337 | tier1 | Out-of-frame | 16272 | NA | 0 |
| PRAD | TCGA-VP-A875-01A | TCGA-VP-A875 | SLC4A4|GOLGA4 | SLC4A4 | GOLGA4 | 4 | 3 | 1 | 1 | 6 | 6 | 6 | 0.17 | 72413437 | 37396592 | tier1 | In-frame | 16274 | NA | 0 |
| STAD | TCGA-KB-A93J-01A | TCGA-KB-A93J | SLC4A4|EPB41L1 | SLC4A4 | EPB41L1 | 4 | 20 | 1 | 1 | 5 | 12 | 10 | 0.66 | 72053118 | 34761686 | tier1 | 5UTR-5UTR | 16273 | NA | 0 |
| HNSC | TCGA-CV-7415-01A | TCGA-CV-7415 | SMARCA2|DMRT1 | SMARCA2 | DMRT1 | 9 | 9 | 1 | 1 | 18 | 8 | 6 | 0.011 | 2088613 | 916763 | tier1 | In-frame | 16366 | NA | 0 |
| PAAD | TCGA-3A-A9IR-01A | TCGA-3A-A9IR | SMARCA2|BEND2 | SMARCA2 | BEND2 | 9 | X | 1 | -1 | 36 | 20 | 17 | 0.97 | 2039900 | 18213562 | tier1 | In-frame | 16365 | NA | 0 |
| SKCM | TCGA-D9-A4Z5-01A | TCGA-D9-A4Z5 | SMARCA2|AC074212.3 | SMARCA2 | AC074212.3 | 9 | 19 | 1 | 1 | 4 | 10 | 10 | 0.36 | 2123937 | 46238635 | tier1 | NA | 16364 | NA | 0 |
| LIHC | TCGA-BC-A217-01A | TCGA-BC-A217 | PSEN1|ACSM1 | PSEN1 | ACSM1 | 14 | 16 | 1 | -1 | 5 | 2 | 2 | 0.025 | 73603291 | 20709110 | tier1 | NA | 13698 | non-validated | 0.38192 |
| LUSC | TCGA-66-2758-01A | TCGA-66-2758 | HSP90AA1|RAGE | HSP90AA1 | RAGE | 14 | 14 | -1 | -1 | 12 | 2 | 2 | 0.069 | 102605587 | 102718332 | tier1 | Out-of-frame | 7984 | NA | 0.37662 |
| BRCA | TCGA-AR-A256-01A | TCGA-AR-A256 | STK17B|HECW2 | STK17B | HECW2 | 2 | 2 | -1 | -1 | 2 | 4 | 4 | 0.37 | 197008284 | 197208488 | tier3 | In-frame | 17056 | non-validated | 0 |
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