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 |
| SKCM | TCGA-BF-A5EO-01A | TCGA-BF-A5EO | TMCO7|CDH1 | TMCO7 | CDH1 | 16 | 16 | 1 | 1 | 3 | 3 | 3 | 2.9 | 68877614 | 68772200 | tier1 | Out-of-frame | 17912 | NA | 0 |
| STAD | TCGA-BR-4255-01A | TCGA-BR-4255 | ZZZ3|CDH1 | ZZZ3 | CDH1 | 1 | 16 | -1 | 1 | 4 | 37 | 36 | 0.22 | 78148947 | 68835573 | tier1 | 5UTR-CDS | 20727 | NA | 0 |
| LUSC | TCGA-85-8479-01A | TCGA-85-8479 | ALAS1|PARP3 | ALAS1 | PARP3 | 3 | 3 | 1 | 1 | 2 | 1 | 1 | 0.061 | 52232271 | 51981756 | tier3 | 5UTR-CDS | 780 | NA | 0.3555 |
| COAD | TCGA-QL-A97D-01A | TCGA-QL-A97D | DOCK9|USH2A | DOCK9 | USH2A | 13 | 1 | -1 | -1 | 4 | 3 | 3 | 0.035 | 99607689 | 215812580 | tier1 | Out-of-frame | 5050 | NA | 0.3678 |
| PRAD | TCGA-VN-A943-01A | TCGA-VN-A943 | ATF3|USH2A | ATF3 | USH2A | 1 | 1 | 1 | -1 | 4 | 11 | 10 | 0.11 | 212791576 | 216011445 | tier1 | In-frame | 1598 | NA | 0.37504 |
| BRCA | TCGA-BH-A1F0-01A | TCGA-BH-A1F0 | AGAP3|TG | AGAP3 | TG | 7 | 8 | 1 | 1 | 8 | 12 | 12 | 0.002 | 150784159 | 133948001 | tier1 | Out-of-frame | 635 | NA | 0.37046 |
| BRCA | TCGA-AO-A0JE-01A | TCGA-AO-A0JE | ZFAT|TG | ZFAT | TG | 8 | 8 | -1 | 1 | 6 | 5 | 5 | 0.41 | 135577576 | 134144056 | tier1 | Out-of-frame | 20250 | NA | 0 |
| LUSC | TCGA-21-5783-01A | TCGA-21-5783 | SAMD12|TG | SAMD12 | TG | 8 | 8 | -1 | 1 | 43 | 38 | 37 | 0.063 | 119592954 | 133923622 | tier1 | In-frame | 15284 | NA | 0 |
| PRAD | TCGA-EJ-7330-01A | TCGA-EJ-7330 | KIAA0146|TG | KIAA0146 | TG | 8 | 8 | 1 | 1 | 3 | 4 | 4 | 4.2 | 48320523 | 134042066 | tier1 | In-frame | 8739 | NA | 0.36229 |
| SKCM | TCGA-EB-A24D-01A | TCGA-EB-A24D | FAM125B|TG | FAM125B | TG | 9 | 8 | 1 | 1 | 40 | 25 | 25 | 0.034 | 129102909 | 134107288 | tier1 | In-frame | 6027 | validated | 0.36424 |
| SKCM | TCGA-EB-A24D-01A | TCGA-EB-A24D | MED27|TG | MED27 | TG | 9 | 8 | -1 | 1 | 4 | 8 | 7 | 0.43 | 134889724 | 134107288 | tier1 | Out-of-frame | 10225 | validated | 0.36547 |
| BRCA | TCGA-LL-A440-01A | TCGA-LL-A440 | CDCA2|ADAM28 | CDCA2 | ADAM28 | 8 | 8 | 1 | 1 | 4 | 2 | 2 | 0.94 | 25361060 | 24167407 | tier1 | Out-of-frame | 3368 | NA | 0.35841 |
| LIHC | TCGA-XR-A8TG-01A | TCGA-XR-A8TG | SEC24A|PHF15 | SEC24A | PHF15 | 5 | 5 | 1 | 1 | 36 | 15 | 14 | 0.42 | 134053863 | 133912458 | tier1 | Out-of-frame | 15515 | NA | 0 |
| KICH | TCGA-KL-8341-01A | TCGA-KL-8341 | STXBP5L|EPHA3 | STXBP5L | EPHA3 | 3 | 3 | 1 | 1 | 2 | 4 | 4 | 0.16 | 121100379 | 89444987 | tier2 | In-frame | 17152 | validated | 0 |
| SKCM | TCGA-EB-A550-01A | TCGA-EB-A550 | LCLAT1|EPHA3 | LCLAT1 | EPHA3 | 2 | 3 | 1 | 1 | 3 | 1 | 1 | 0.086 | 30756180 | 89390066 | tier2 | In-frame | 9252 | NA | 0.38063 |
| STAD | TCGA-BR-4363-01A | TCGA-BR-4363 | LRRFIP2|EPHA3 | LRRFIP2 | EPHA3 | 3 | 3 | -1 | 1 | 4 | 9 | 9 | 0.23 | 37190385 | 89521614 | tier1 | Out-of-frame | 9613 | NA | 0.38212 |
| SKCM | TCGA-ER-A19T-01A | TCGA-ER-A19T | FCHSD2|ATP6V1H | FCHSD2 | ATP6V1H | 11 | 8 | -1 | -1 | 31 | 3 | 2 | 1.3 | 72851076 | 54682303 | tier1 | In-frame | 6387 | non-validated | 0.36701 |
| GBM | TCGA-06-5418-01A | TCGA-06-5418 | C6orf204|ROS1 | C6orf204 | ROS1 | 6 | 6 | -1 | -1 | 5 | 8 | 6 | 0.58 | 118802942 | 117641193 | tier1 | In-frame | 2765 | NA | 0 |
| LUAD | TCGA-44-2665-01A | TCGA-44-2665 | CLTC|ROS1 | CLTC | ROS1 | 17 | 6 | 1 | -1 | 53 | 16 | 15 | 0.17 | 57768072 | 117642557 | tier4 | In-frame | 3866 | non-validated | 0.38495 |
| LUAD | TCGA-55-6986-01A | TCGA-55-6986 | EZR|ROS1 | EZR | ROS1 | 6 | 6 | -1 | -1 | 172 | 185 | 154 | 0.82 | 159191796 | 117645578 | tier1 | In-frame | 5966 | non-validated | 0.38331 |
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