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-FR-A7U8-06A | TCGA-FR-A7U8 | CCDC50|OSTN | CCDC50 | OSTN | 3 | 3 | 1 | 1 | 211 | 290 | 270 | 0.077 | 191078948 | 190980655 | tier1 | Out-of-frame | 3144 | NA | 0.33282 |
| GBM | TCGA-06-2557-01A | TCGA-06-2557 | CASD1|VWC2 | CASD1 | VWC2 | 7 | 7 | 1 | 1 | 8 | 45 | 43 | 0.92 | 94147635 | 49951630 | tier1 | Out-of-frame | 3013 | validated | 0.33614 |
| LGG | TCGA-HT-7477-01B | TCGA-HT-7477 | MAGI2|VWC2 | MAGI2 | VWC2 | 7 | 7 | -1 | 1 | 3 | 1 | 1 | 0.46 | 79082336 | 49842307 | tier3 | Out-of-frame | 9771 | NA | 0.36931 |
| GBM | TCGA-06-0210-01A | TCGA-06-0210 | NFASC|PRELP | NFASC | PRELP | 1 | 1 | 1 | 1 | 21 | 92 | 71 | 0.63 | 204797910 | 203452297 | tier1 | 5UTR-5UTR | 11429 | non-validated | 0.36692 |
| LUAD | TCGA-44-7660-01A | TCGA-44-7660 | MORF4L2|GLRA4 | MORF4L2 | GLRA4 | X | X | -1 | -1 | 116 | 126 | 115 | 0.61 | 102933427 | 102974199 | tier1 | 5UTR-CDS | 10577 | NA | 0.3581 |
| GBM | TCGA-06-0129-01A | TCGA-06-0129 | FGD4|LRRK2 | FGD4 | LRRK2 | 12 | 12 | 1 | 1 | 2 | 1 | 1 | 0.018 | 32552893 | 40619357 | tier2 | In-frame | 6434 | NA | 0.36892 |
| LUAD | TCGA-44-8117-01A | TCGA-44-8117 | CCDC6|LIPI | CCDC6 | LIPI | 10 | 21 | -1 | -1 | 70 | 48 | 41 | 0.098 | 61612311 | 15481401 | tier1 | Out-of-frame | 3159 | NA | 0.36379 |
| LIHC | TCGA-NI-A8LF-01A | TCGA-NI-A8LF | DNAJC2|RELN | DNAJC2 | RELN | 7 | 7 | -1 | -1 | 2 | 1 | 1 | 1.3 | 102953394 | 103124297 | tier2 | Out-of-frame | 4941 | NA | 0.36936 |
| LUSC | TCGA-68-8250-01A | TCGA-68-8250 | AGAP3|RELN | AGAP3 | RELN | 7 | 7 | 1 | -1 | 18 | 6 | 6 | 0.38 | 150784159 | 103191743 | tier1 | Out-of-frame | 634 | validated | 0.37346 |
| UCEC | TCGA-AJ-A2QM-01A | TCGA-AJ-A2QM | NAPEPLD|RELN | NAPEPLD | RELN | 7 | 7 | -1 | -1 | 18 | 7 | 5 | 0.17 | 102768930 | 103143677 | tier1 | In-frame | 11089 | NA | 0.36465 |
| ACC | TCGA-OR-A5J1-01A | TCGA-OR-A5J1 | PPP1R2|APOD | PPP1R2 | APOD | 3 | 3 | -1 | -1 | 3 | 11 | 11 | 1.7 | 195269727 | 195296006 | tier1 | Out-of-frame | 13380 | NA | 0.37164 |
| OV | TCGA-24-2262-01A | TCGA-24-2262 | ACAP2|APOD | ACAP2 | APOD | 3 | 3 | -1 | -1 | 4 | 17 | 16 | 3.5 | 195101738 | 195300842 | tier1 | In-frame | 247 | NA | 0.36128 |
| SARC | TCGA-FX-A2QS-01A | TCGA-FX-A2QS | BBX|VSTM1 | BBX | VSTM1 | 3 | 19 | 1 | -1 | 3 | 2 | 2 | 0.32 | 107245245 | 54545623 | tier1 | 5UTR-CDS | 1961 | non-validated | 0.34227 |
| UCEC | TCGA-AJ-A3NH-01A | TCGA-AJ-A3NH | ZNF646|VSTM1 | ZNF646 | VSTM1 | 16 | 19 | 1 | -1 | 27 | 12 | 11 | 0.27 | 31085952 | 54545623 | tier1 | 5UTR-CDS | 20608 | NA | 0 |
| BRCA | TCGA-AN-A0FJ-01A | TCGA-AN-A0FJ | FAM83D|SF3B3 | FAM83D | SF3B3 | 20 | 16 | 1 | 1 | 19 | 4 | 4 | 0.014 | 37570769 | 70597779 | tier1 | Out-of-frame | 6211 | NA | 0.36622 |
| PRAD | TCGA-EJ-7782-01A | TCGA-EJ-7782 | MCART6|IL1RAPL2 | MCART6 | IL1RAPL2 | X | X | -1 | 1 | 6 | 1 | 1 | 0.19 | 103401559 | 104440157 | tier2 | 5UTR-CDS | 10076 | NA | 0.34247 |
| BLCA | TCGA-K4-A5RH-01A | TCGA-K4-A5RH | CHTOP|S100A13 | CHTOP | S100A13 | 1 | 1 | 1 | -1 | 236 | 110 | 96 | 0.026 | 153609129 | 153604716 | tier1 | CDS-5UTR | 3726 | NA | 0.3494 |
| PCPG | TCGA-RW-A686-01A | TCGA-RW-A686 | APIP|S100A13 | APIP | S100A13 | 11 | 1 | -1 | -1 | 17 | 6 | 6 | 0.66 | 34937775 | 153599009 | tier1 | CDS-5UTR | 1118 | NA | 0.3541 |
| SKCM | TCGA-QB-AA9O-06A | TCGA-QB-AA9O | IPO9|S100A13 | IPO9 | S100A13 | 1 | 1 | 1 | -1 | 7 | 3 | 3 | 0.13 | 201798500 | 153600074 | tier1 | CDS-5UTR | 8304 | NA | 0.35551 |
| BRCA | TCGA-C8-A273-01A | TCGA-C8-A273 | OPHN1|MAOA | OPHN1 | MAOA | X | X | -1 | 1 | 3 | 2 | 1 | 0.008 | 67412761 | 43590488 | tier2 | Out-of-frame | 12038 | NA | 0.37648 |
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