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 |
| STAD | TCGA-BR-8373-01A | TCGA-BR-8373 | ME1|SNAP91 | ME1 | SNAP91 | 6 | 6 | -1 | -1 | 2 | 8 | 8 | 2 | 84140596 | 84350921 | tier3 | Out-of-frame | 10133 | validated | 0.3586 |
| SARC | TCGA-DX-A8BJ-01A | TCGA-DX-A8BJ | CDK13|ADCY1 | CDK13 | ADCY1 | 7 | 7 | 1 | 1 | 2 | 1 | 1 | 3.3 | 39991451 | 45649978 | tier2 | Out-of-frame | 3411 | NA | 0.34922 |
| BLCA | TCGA-ZF-AA5H-01A | TCGA-ZF-AA5H | CDK13|DDX56 | CDK13 | DDX56 | 7 | 7 | 1 | -1 | 37 | 30 | 30 | 2.1 | 40041630 | 44609727 | tier1 | Out-of-frame | 3414 | NA | 0.35552 |
| BRCA | TCGA-JL-A3YW-01A | TCGA-JL-A3YW | CDK13|C7orf36 | CDK13 | C7orf36 | 7 | 7 | 1 | 1 | 2 | 2 | 2 | 0.071 | 39991451 | 39649216 | tier3 | In-frame | 3413 | NA | 0 |
| BRCA | TCGA-E2-A105-01A | TCGA-E2-A105 | CDK13|TAX1BP1 | CDK13 | TAX1BP1 | 7 | 7 | 1 | 1 | 14 | 15 | 15 | 0.75 | 40041630 | 27867357 | tier1 | Out-of-frame | 3416 | NA | 0.35715 |
| COAD | TCGA-5M-AATA-01A | TCGA-5M-AATA | CDK13|RALA | CDK13 | RALA | 7 | 7 | 1 | 1 | 9 | 4 | 4 | 0.21 | 40041630 | 39745722 | tier1 | Out-of-frame | 3415 | NA | 0.37579 |
| SKCM | TCGA-3N-A9WC-06A | TCGA-3N-A9WC | CDK13|C7orf36 | CDK13 | C7orf36 | 7 | 7 | 1 | 1 | 3 | 3 | 2 | 0.071 | 40041630 | 39610105 | tier1 | Out-of-frame | 3412 | NA | 0 |
| LUSC | TCGA-22-4613-01A | TCGA-22-4613 | PDE4A|S1PR5 | PDE4A | S1PR5 | 19 | 19 | 1 | -1 | 2 | 2 | 2 | 0.42 | 10574651 | 10625705 | tier2 | CDS-5UTR | 12471 | NA | 0.3686 |
| BRCA | TCGA-A2-A0D4-01A | TCGA-A2-A0D4 | ELAVL1|AC011498.1 | ELAVL1 | AC011498.1 | 19 | 19 | -1 | 1 | 24 | 9 | 9 | 0.012 | 8056528 | 4475272 | tier1 | Out-of-frame | 5489 | non-validated | 0.36268 |
| ESCA | TCGA-2H-A9GJ-01A | TCGA-2H-A9GJ | KDM4A|MPL | KDM4A | MPL | 1 | 1 | 1 | 1 | 2 | 55 | 51 | 0.31 | 44169783 | 43805635 | tier2 | In-frame | 8661 | NA | 0.36246 |
| BLCA | TCGA-ZF-A9RD-01A | TCGA-ZF-A9RD | KDM4A|PTPRF | KDM4A | PTPRF | 1 | 1 | 1 | 1 | 5 | 2 | 2 | 1.2 | 44115923 | 44086509 | tier1 | 5UTR-CDS | 8664 | NA | 0.37646 |
| BRCA | TCGA-A2-A04P-01A | TCGA-A2-A04P | KDM4A|PTPRF | KDM4A | PTPRF | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1.2 | 44115923 | 44083116 | tier3 | 5UTR-CDS | 8663 | validated | 0.37646 |
| LUAD | TCGA-78-7153-01A | TCGA-78-7153 | KDM4A|RYBP | KDM4A | RYBP | 1 | 3 | 1 | -1 | 2 | 3 | 2 | 0.76 | 44149475 | 72428578 | tier3 | NA | 8665 | NA | 0.36888 |
| BRCA | TCGA-BH-A18J-01A | TCGA-BH-A18J | KDM4A|CREB3L4 | KDM4A | CREB3L4 | 1 | 1 | 1 | 1 | 28 | 27 | 26 | 0.97 | 44133690 | 153945220 | tier1 | Out-of-frame | 8658 | NA | 0.34017 |
| BRCA | TCGA-D8-A1XZ-01A | TCGA-D8-A1XZ | KDM4A|HYI | KDM4A | HYI | 1 | 1 | 1 | -1 | 11 | 4 | 4 | 0.35 | 44149475 | 43917990 | tier1 | Out-of-frame | 8660 | NA | 0.3387 |
| LIHC | TCGA-2Y-A9H9-01A | TCGA-2Y-A9H9 | KDM4A|AL139289.1 | KDM4A | AL139289.1 | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 0.021 | 44134970 | 43870051 | tier3 | Out-of-frame | 8657 | NA | 0 |
| LUSC | TCGA-98-8022-01A | TCGA-98-8022 | KDM4A|PTCH2 | KDM4A | PTCH2 | 1 | 1 | 1 | -1 | 19 | 12 | 11 | 2.4 | 44137546 | 45286376 | tier1 | Out-of-frame | 8662 | validated | 0.34161 |
| SARC | TCGA-DX-AATS-01A | TCGA-DX-AATS | KDM4A|FAF1 | KDM4A | FAF1 | 1 | 1 | 1 | -1 | 2 | 5 | 4 | 0.2 | 44163684 | 50957473 | tier3 | In-frame | 8659 | NA | 0.36142 |
| BRCA | TCGA-LD-A7W5-01A | TCGA-LD-A7W5 | FGFR2|ENPP2 | FGFR2 | ENPP2 | 10 | 8 | -1 | -1 | 82 | 70 | 64 | 0.15 | 123274637 | 120650767 | tier1 | In-frame | 6466 | NA | 0.38282 |
| BRCA | TCGA-D8-A13Z-01A | TCGA-D8-A13Z | FGFR2|CCDC6 | FGFR2 | CCDC6 | 10 | 10 | -1 | -1 | 26 | 23 | 19 | 0.28 | 123243212 | 61612460 | tier1 | In-frame | 6465 | NA | 0.38295 |
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