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 |
| LUAD | TCGA-91-6835-01A | TCGA-91-6835 | C1QA|CD74 | C1QA | CD74 | 1 | 5 | 1 | -1 | 2 | 1 | 1 | 0.069 | 22965442 | 149792314 | tier3 | NA | 2624 | NA | 0.37466 |
| SARC | TCGA-DX-A3LS-01A | TCGA-DX-A3LS | GLIPR1L1|RAB3IP | GLIPR1L1 | RAB3IP | 12 | 12 | 1 | 1 | 8 | 12 | 12 | 0.11 | 75728682 | 70149164 | tier1 | Out-of-frame | 7107 | validated | 0.3557 |
| LIHC | TCGA-2Y-A9H0-01A | TCGA-2Y-A9H0 | DAG1|LARS2 | DAG1 | LARS2 | 3 | 3 | 1 | 1 | 68 | 38 | 36 | 0.99 | 49548252 | 45588843 | tier1 | In-frame | 4537 | NA | 0.36673 |
| BRCA | TCGA-BH-A0H7-01A | TCGA-BH-A0H7 | DAG1|ZNF589 | DAG1 | ZNF589 | 3 | 3 | 1 | 1 | 5 | 7 | 3 | 2.4 | 49507866 | 48302303 | tier1 | 5UTR-CDS | 4538 | NA | 0.37534 |
| SKCM | TCGA-WE-A8ZM-06A | TCGA-WE-A8ZM | SMARCC1|CDC25A | SMARCC1 | CDC25A | 3 | 3 | -1 | -1 | 2 | 3 | 3 | 0.02 | 47814307 | 48229705 | tier2 | NA | 16384 | NA | 0 |
| PRAD | TCGA-HC-8265-01B | TCGA-HC-8265 | SMARCC1|SPINK8 | SMARCC1 | SPINK8 | 3 | 3 | -1 | -1 | 6 | 17 | 3 | 100 | 47777524 | 48351436 | tier1 | Out-of-frame | 16388 | NA | 0 |
| BLCA | TCGA-BL-A3JM-01A | TCGA-BL-A3JM | SMARCC1|DOCK3 | SMARCC1 | DOCK3 | 3 | 3 | -1 | 1 | 5 | 19 | 14 | 1.9 | 47814307 | 50927457 | tier1 | In-frame | 16386 | NA | 0 |
| BLCA | TCGA-BT-A20W-01A | TCGA-BT-A20W | SMARCC1|SHISA5 | SMARCC1 | SHISA5 | 3 | 3 | -1 | -1 | 20 | 33 | 32 | 0.54 | 47747899 | 48511242 | tier1 | In-frame | 16387 | NA | 0 |
| SARC | TCGA-DX-A3M1-01A | TCGA-DX-A3M1 | SMARCC1|USP32 | SMARCC1 | USP32 | 3 | 17 | -1 | -1 | 4 | 1 | 1 | 0.46 | 47727539 | 58422969 | tier3 | Out-of-frame | 16390 | non-validated | 0 |
| UCEC | TCGA-AP-A5FX-01A | TCGA-AP-A5FX | SMARCC1|SYCP2L | SMARCC1 | SYCP2L | 3 | 6 | -1 | 1 | 2 | 4 | 4 | 0.71 | 47814307 | 10942910 | tier2 | In-frame | 16389 | NA | 0 |
| UCEC | TCGA-H5-A2HR-01A | TCGA-H5-A2HR | SMARCC1|ZBTB8OS | SMARCC1 | ZBTB8OS | 3 | 1 | -1 | -1 | 53 | 46 | 37 | 0.36 | 47651556 | 33087549 | tier1 | Out-of-frame | 16391 | NA | 0 |
| UCS | TCGA-N5-A4RT-01A | TCGA-N5-A4RT | SMARCC1|DHX30 | SMARCC1 | DHX30 | 3 | 3 | -1 | 1 | 4 | 2 | 2 | 0.27 | 47814307 | 47846816 | tier1 | CDS-5UTR | 16385 | NA | 0 |
| PRAD | TCGA-HC-A8CY-01A | TCGA-HC-A8CY | PTPRM|MC2R | PTPRM | MC2R | 18 | 18 | 1 | -1 | 2 | 3 | 3 | 0.2 | 7774269 | 13885645 | tier3 | CDS-5UTR | 13902 | NA | 0 |
| BRCA | TCGA-E9-A3QA-01A | TCGA-E9-A3QA | PTPRM|KCTD1 | PTPRM | KCTD1 | 18 | 18 | 1 | -1 | 6 | 6 | 5 | 0.65 | 7926681 | 24039889 | tier1 | In-frame | 13900 | NA | 0 |
| COAD | TCGA-DM-A1D6-01A | TCGA-DM-A1D6 | PTPRM|ELP4 | PTPRM | ELP4 | 18 | 11 | 1 | 1 | 14 | 3 | 3 | 0.37 | 8143777 | 31804941 | tier2 | Out-of-frame | 13899 | NA | 0 |
| LUAD | TCGA-44-A47B-01A | TCGA-44-A47B | PTPRM|KIAA1468 | PTPRM | KIAA1468 | 18 | 18 | 1 | 1 | 2 | 1 | 1 | 1 | 7955412 | 59911997 | tier2 | Out-of-frame | 13901 | NA | 0 |
| BRCA | TCGA-A2-A0D2-01A | TCGA-A2-A0D2 | MST1|SRRD | MST1 | SRRD | 3 | 22 | -1 | 1 | 3 | 7 | 7 | 0.034 | 49721747 | 26883995 | tier1 | Out-of-frame | 10757 | non-validated | 0.35874 |
| SARC | TCGA-FX-A3TO-01A | TCGA-FX-A3TO | CSPG4|MYO1D | CSPG4 | MYO1D | 15 | 17 | -1 | -1 | 3 | 1 | 1 | 0.01 | 76005009 | 31082680 | tier2 | Out-of-frame | 4295 | NA | 0.38022 |
| BRCA | TCGA-A8-A06U-01A | TCGA-A8-A06U | CHD2|HOMER2 | CHD2 | HOMER2 | 15 | 15 | 1 | -1 | 20 | 19 | 18 | 0.2 | 93496803 | 83533011 | tier1 | In-frame | 3616 | NA | 0.36235 |
| SARC | TCGA-FX-A3TO-01A | TCGA-FX-A3TO | CHD2|DYX1C1 | CHD2 | DYX1C1 | 15 | 15 | 1 | -1 | 35 | 19 | 11 | 0.005 | 93444529 | 55677912 | tier1 | Out-of-frame | 3615 | NA | 0.3539 |
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