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 |
| BRCA | TCGA-AO-A1KR-01A | TCGA-AO-A1KR | SPOP|TAC4 | SPOP | TAC4 | 17 | 17 | -1 | -1 | 16 | 5 | 4 | 0.073 | 47755295 | 47921519 | tier1 | 5UTR-CDS | 16764 | NA | 0 |
| SKCM | TCGA-EB-A3Y7-01A | TCGA-EB-A3Y7 | DUS2L|HSD11B2 | DUS2L | HSD11B2 | 16 | 16 | 1 | 1 | 70 | 34 | 32 | 0.46 | 68105011 | 67470152 | tier1 | Out-of-frame | 5172 | NA | 0.34353 |
| STAD | TCGA-BR-8373-01A | TCGA-BR-8373 | CTCF|HSD11B2 | CTCF | HSD11B2 | 16 | 16 | 1 | 1 | 2 | 6 | 3 | 0.92 | 67605167 | 67469531 | tier2 | 5UTR-CDS | 4313 | non-validated | 0.37285 |
| PRAD | TCGA-VP-A87K-01A | TCGA-VP-A87K | RBM19|CLK2 | RBM19 | CLK2 | 12 | 1 | -1 | -1 | 5 | 3 | 3 | 0.028 | 114364859 | 155240768 | tier1 | In-frame | 14450 | NA | 0 |
| COAD | TCGA-CM-5348-01A | TCGA-CM-5348 | C15orf41|SLCO3A1 | C15orf41 | SLCO3A1 | 15 | 15 | 1 | 1 | 11 | 6 | 6 | 1.6 | 36872162 | 92663695 | tier1 | Out-of-frame | 2475 | NA | 0 |
| SARC | TCGA-X6-A8C2-01A | TCGA-X6-A8C2 | SCAMP2|SLCO3A1 | SCAMP2 | SLCO3A1 | 15 | 15 | -1 | 1 | 7 | 4 | 3 | 0.039 | 75165540 | 92638111 | tier1 | Out-of-frame | 15375 | NA | 0 |
| ACC | TCGA-OR-A5JZ-01A | TCGA-OR-A5JZ | C5orf56|CCDC101 | C5orf56 | CCDC101 | 5 | 16 | 1 | 1 | 25 | 17 | 15 | 1 | 131755632 | 28592376 | tier1 | CDS-5UTR | 2743 | NA | 0 |
| KIRC | TCGA-B0-4815-01A | TCGA-B0-4815 | CCNT2|YSK4 | CCNT2 | YSK4 | 2 | 2 | 1 | -1 | 4 | 1 | 1 | 1.1 | 135705469 | 135722486 | tier3 | Out-of-frame | 3232 | NA | 0.37914 |
| LUAD | TCGA-MP-A4TK-01A | TCGA-MP-A4TK | GPBP1|BDNF | GPBP1 | BDNF | 5 | 11 | 1 | -1 | 14 | 4 | 3 | 0.22 | 56531859 | 27680132 | tier1 | CDS-5UTR | 7318 | NA | 0.36363 |
| LGG | TCGA-HT-7873-01B | TCGA-HT-7873 | CDK5RAP2|GRIN1 | CDK5RAP2 | GRIN1 | 9 | 9 | -1 | 1 | 7 | 4 | 3 | 1.1 | 123280705 | 140036465 | tier1 | In-frame | 3430 | NA | 0.37407 |
| BRCA | TCGA-EW-A6S9-01A | TCGA-EW-A6S9 | CCDC61|FUT2 | CCDC61 | FUT2 | 19 | 19 | 1 | 1 | 17 | 11 | 3 | 0.7 | 46511559 | 49206212 | tier1 | CDS-5UTR | 3174 | NA | 0.34112 |
| STAD | TCGA-BR-7901-01A | TCGA-BR-7901 | EDF1|DPP7 | EDF1 | DPP7 | 9 | 9 | -1 | -1 | 5 | 26 | 21 | 0.55 | 139760633 | 140005402 | tier1 | In-frame | 5277 | NA | 0.36428 |
| BRCA | TCGA-B6-A0X1-01A | TCGA-B6-A0X1 | ANO9|DEAF1 | ANO9 | DEAF1 | 11 | 11 | -1 | -1 | 7 | 4 | 2 | 0.79 | 428088 | 654051 | tier1 | Out-of-frame | 1040 | NA | 0.35942 |
| BRCA | TCGA-B6-A0I1-01A | TCGA-B6-A0I1 | RNH1|DEAF1 | RNH1 | DEAF1 | 11 | 11 | -1 | -1 | 5 | 5 | 5 | 0.26 | 507113 | 644654 | tier1 | 5UTR-CDS | 14858 | non-validated | 0 |
| LUSC | TCGA-85-7843-01A | TCGA-85-7843 | RASSF7|DEAF1 | RASSF7 | DEAF1 | 11 | 11 | 1 | -1 | 11 | 41 | 37 | 0.17 | 561033 | 654051 | tier1 | 5UTR-CDS | 14389 | NA | 0 |
| TGCT | TCGA-2G-AAM3-01A | TCGA-2G-AAM3 | LRRC56|DEAF1 | LRRC56 | DEAF1 | 11 | 11 | 1 | -1 | 2 | 3 | 3 | 0.86 | 549998 | 679816 | tier3 | Out-of-frame | 9574 | NA | 0.36119 |
| BLCA | TCGA-E7-A85H-01A | TCGA-E7-A85H | PPAP2A|SLC38A9 | PPAP2A | SLC38A9 | 5 | 5 | -1 | -1 | 23 | 13 | 10 | 0.8 | 54830400 | 54993820 | tier1 | CDS-5UTR | 13213 | NA | 0.3538 |
| BLCA | TCGA-FD-A6TG-01A | TCGA-FD-A6TG | PPAP2A|SLC38A9 | PPAP2A | SLC38A9 | 5 | 5 | -1 | -1 | 5 | 17 | 16 | 0.8 | 54830400 | 54993820 | tier4 | CDS-5UTR | 13214 | NA | 0.3538 |
| LUAD | TCGA-55-6975-01A | TCGA-55-6975 | CTNNA1|SLC38A9 | CTNNA1 | SLC38A9 | 5 | 5 | 1 | -1 | 9 | 7 | 6 | 0.55 | 138089199 | 55000262 | tier1 | NA | 4351 | NA | 0.36543 |
| TGCT | TCGA-2G-AAG6-01A | TCGA-2G-AAG6 | PPAP2A|SLC38A9 | PPAP2A | SLC38A9 | 5 | 5 | -1 | -1 | 4 | 6 | 6 | 0.8 | 54763697 | 54968523 | tier1 | In-frame | 13212 | NA | 0.3538 |
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