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 |
| UCS | TCGA-N7-A4Y8-01A | TCGA-N7-A4Y8 | PVR|SIRT2 | PVR | SIRT2 | 19 | 19 | 1 | -1 | 5 | 5 | 4 | 0.12 | 45147475 | 39372131 | tier4 | In-frame | 13970 | NA | 0 |
| OV | TCGA-25-1324-01A | TCGA-25-1324 | PVR|HPN | PVR | HPN | 19 | 19 | 1 | 1 | 15 | 80 | 70 | 0.003 | 45162033 | 35556154 | tier1 | In-frame | 13968 | NA | 0 |
| LIHC | TCGA-BC-A217-01A | TCGA-BC-A217 | PVR|IGSF23 | PVR | IGSF23 | 19 | 19 | 1 | 1 | 43 | 35 | 31 | 0.057 | 45157286 | 45127004 | tier1 | In-frame | 13969 | non-validated | 0 |
| UCEC | TCGA-B5-A5OE-01A | TCGA-B5-A5OE | PVR|ZNF233 | PVR | ZNF233 | 19 | 19 | 1 | 1 | 22 | 20 | 19 | 2 | 45150842 | 44768467 | tier1 | In-frame | 13971 | NA | 0 |
| ACC | TCGA-OR-A5JP-01A | TCGA-OR-A5JP | SCARB1|EEA1 | SCARB1 | EEA1 | 12 | 12 | -1 | -1 | 2 | 55 | 42 | 1.1 | 125262186 | 93229203 | tier3 | NA | 15389 | NA | 0 |
| ACC | TCGA-OR-A5JY-01A | TCGA-OR-A5JY | SCARB1|EIF3D | SCARB1 | EIF3D | 12 | 22 | -1 | -1 | 3 | 1 | 1 | 2.9 | 125262179 | 36922952 | tier3 | NA | 15390 | NA | 0 |
| BRCA | TCGA-B6-A0I1-01A | TCGA-B6-A0I1 | SCARB1|DHX37 | SCARB1 | DHX37 | 12 | 12 | -1 | -1 | 24 | 13 | 11 | 1.8 | 125348141 | 125462036 | tier1 | In-frame | 15388 | validated | 0 |
| LGG | TCGA-WY-A85A-01A | TCGA-WY-A85A | SCARB1|RIMBP2 | SCARB1 | RIMBP2 | 12 | 12 | -1 | -1 | 4 | 2 | 1 | 2.5 | 125270903 | 131002462 | tier2 | CDS-5UTR | 15391 | NA | 0 |
| PRAD | TCGA-KK-A7AU-01A | TCGA-KK-A7AU | SCARB1|SUB1 | SCARB1 | SUB1 | 12 | 5 | -1 | 1 | 7 | 15 | 11 | 1.4 | 125348141 | 32599067 | tier1 | In-frame | 15392 | NA | 0 |
| HNSC | TCGA-CN-A49A-01A | TCGA-CN-A49A | TP63|LEPREL1 | TP63 | LEPREL1 | 3 | 3 | 1 | -1 | 7 | 3 | 3 | 0.61 | 189526315 | 189713231 | tier1 | In-frame | 18476 | NA | 0 |
| LUSC | TCGA-77-A5G7-01B | TCGA-77-A5G7 | TP63|TPRG1 | TP63 | TPRG1 | 3 | 3 | 1 | 1 | 6 | 4 | 4 | 0.96 | 189349366 | 189028175 | tier1 | In-frame | 18477 | NA | 0 |
| MESO | TCGA-LK-A4NY-01A | TCGA-LK-A4NY | ALPK1|GALNTL6 | ALPK1 | GALNTL6 | 4 | 4 | 1 | 1 | 3 | 5 | 3 | 0.76 | 113218625 | 173803941 | tier1 | 5UTR-CDS | 847 | NA | 0.34081 |
| SKCM | TCGA-W3-A825-06A | TCGA-W3-A825 | ALPK1|NAA15 | ALPK1 | NAA15 | 4 | 4 | 1 | 1 | 3 | 4 | 4 | 0.028 | 113362261 | 140291365 | tier1 | In-frame | 848 | NA | 0.33483 |
| SKCM | TCGA-DA-A1HW-06A | TCGA-DA-A1HW | PDE8A|SLCO3A1 | PDE8A | SLCO3A1 | 15 | 15 | 1 | 1 | 19 | 24 | 23 | 0.73 | 85525579 | 92638111 | tier1 | Out-of-frame | 12518 | validated | 0.34874 |
| SARC | TCGA-DX-A1L0-01A | TCGA-DX-A1L0 | PDE8A|ATF5 | PDE8A | ATF5 | 15 | 19 | 1 | 1 | 2 | 2 | 2 | 1.1 | 85525579 | 50432500 | tier3 | CDS-5UTR | 12516 | non-validated | 0.36438 |
| SKCM | TCGA-FS-A1ZJ-06A | TCGA-FS-A1ZJ | PDE8A|BNC1 | PDE8A | BNC1 | 15 | 15 | 1 | -1 | 21 | 23 | 22 | 0.19 | 85643429 | 83926878 | tier1 | Out-of-frame | 12517 | NA | 0.36224 |
| LUSC | TCGA-56-8307-01A | TCGA-56-8307 | CLCN4|TFAP2A | CLCN4 | TFAP2A | X | 6 | 1 | -1 | 64 | 28 | 26 | 0.8 | 10126591 | 10398938 | tier1 | 5UTR-CDS | 3766 | NA | 0.36072 |
| UCS | TCGA-N8-A56S-01A | TCGA-N8-A56S | CLCN4|SHROOM2 | CLCN4 | SHROOM2 | X | X | 1 | 1 | 8 | 6 | 6 | 1.8 | 10155654 | 9841692 | tier1 | Out-of-frame | 3765 | NA | 0.35121 |
| BRCA | TCGA-A1-A0SK-01A | TCGA-A1-A0SK | KDM5A|ANO2 | KDM5A | ANO2 | 12 | 12 | -1 | -1 | 227 | 138 | 134 | 1.4 | 427272 | 5708795 | tier1 | In-frame | 8688 | NA | 0.32878 |
| BRCA | TCGA-AO-A124-01A | TCGA-AO-A124 | KDM5A|NINJ2 | KDM5A | NINJ2 | 12 | 12 | -1 | -1 | 30 | 29 | 28 | 0.011 | 404739 | 675344 | tier1 | In-frame | 8690 | validated | 0.32603 |
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