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 |
| THCA | TCGA-DJ-A2Q7-01A | TCGA-DJ-A2Q7 | CALR|PLEKHB2 | CALR | PLEKHB2 | 19 | 2 | 1 | 1 | 2 | 3 | 1 | 1 | 13055304 | 131876464 | tier3 | 3UTR-5UTR | 2912 | NA | 0.36937 |
| UCEC | TCGA-AJ-A3BF-01A | TCGA-AJ-A3BF | CALR|TNNT1 | CALR | TNNT1 | 19 | 19 | 1 | -1 | 2 | 20 | 12 | 0.02 | 13055304 | 55646910 | tier4 | NA | 2913 | NA | 0.37192 |
| SARC | TCGA-DX-A1KW-01A | TCGA-DX-A1KW | PTPN11|EPYC | PTPN11 | EPYC | 12 | 12 | 1 | -1 | 366 | 1026 | 914 | 1.2 | 112893867 | 91372039 | tier1 | In-frame | 13810 | validated | 0.38105 |
| SARC | TCGA-DX-A23Z-01A | TCGA-DX-A23Z | PTPN11|PLAGL1 | PTPN11 | PLAGL1 | 12 | 6 | 1 | -1 | 7 | 19 | 14 | 0.009 | 112856929 | 144290115 | tier1 | CDS-5UTR | 13811 | NA | 0.38936 |
| SARC | TCGA-DX-A1KW-01A | TCGA-DX-A1KW | PTPN11|RP11-362K2.2 | PTPN11 | RP11-362K2.2 | 12 | 12 | 1 | 1 | 122 | 467 | 424 | 1.1 | 112893867 | 59206196 | tier1 | Out-of-frame | 13812 | validated | 0.37836 |
| UCS | TCGA-N6-A4VG-01A | TCGA-N6-A4VG | PTPN11|CUX2 | PTPN11 | CUX2 | 12 | 12 | 1 | 1 | 2 | 10 | 9 | 0.035 | 112910844 | 111779584 | tier4 | In-frame | 13809 | NA | 0.38117 |
| PRAD | TCGA-EJ-7327-01A | TCGA-EJ-7327 | PDXDC1|MMP14 | PDXDC1 | MMP14 | 16 | 14 | 1 | 1 | 2 | 10 | 8 | 0.52 | 15131543 | 23305829 | tier3 | NA | 12577 | NA | 0.36122 |
| LIHC | TCGA-2Y-A9H0-01A | TCGA-2Y-A9H0 | PDXDC1|GPR56 | PDXDC1 | GPR56 | 16 | 16 | 1 | 1 | 8 | 22 | 22 | 0.046 | 15092262 | 57684165 | tier1 | CDS-5UTR | 12575 | NA | 0.35539 |
| BRCA | TCGA-AN-A046-01A | TCGA-AN-A046 | PDXDC1|LMF1 | PDXDC1 | LMF1 | 16 | 16 | 1 | -1 | 6 | 15 | 14 | 4.4 | 15102704 | 943072 | tier1 | In-frame | 12576 | NA | 0.34799 |
| BRCA | TCGA-A1-A0SO-01A | TCGA-A1-A0SO | PDXDC1|RP11-82O18.1 | PDXDC1 | RP11-82O18.1 | 16 | 16 | 1 | -1 | 5 | 9 | 7 | 0.5 | 15122823 | 15457926 | tier1 | In-frame | 12580 | NA | 0.34619 |
| LGG | TCGA-DB-A64Q-01A | TCGA-DB-A64Q | PDXDC1|BFAR | PDXDC1 | BFAR | 16 | 16 | 1 | 1 | 4 | 3 | 2 | 1.5 | 15123913 | 14755749 | tier1 | Out-of-frame | 12574 | NA | 0.35956 |
| LIHC | TCGA-2Y-A9H0-01A | TCGA-2Y-A9H0 | PDXDC1|RAB11FIP4 | PDXDC1 | RAB11FIP4 | 16 | 17 | 1 | 1 | 5 | 6 | 6 | 0.028 | 15123913 | 29761052 | tier1 | In-frame | 12579 | NA | 0.35084 |
| LUSC | TCGA-85-8582-01A | TCGA-85-8582 | PDXDC1|NAV2 | PDXDC1 | NAV2 | 16 | 11 | 1 | 1 | 4 | 4 | 4 | 0.44 | 15069077 | 19854030 | tier1 | In-frame | 12578 | NA | 0.3665 |
| MESO | TCGA-MQ-A4LI-01A | TCGA-MQ-A4LI | ITLN1|DCN | ITLN1 | DCN | 1 | 12 | -1 | -1 | 3 | 9 | 3 | 1.5 | 160846329 | 91539511 | tier1 | NA | 8417 | NA | 0.36781 |
| MESO | TCGA-ZN-A9VU-01A | TCGA-ZN-A9VU | ITLN1|NDUFV1 | ITLN1 | NDUFV1 | 1 | 11 | -1 | 1 | 2 | 7 | 3 | 0.23 | 160846329 | 67375697 | tier3 | NA | 8418 | NA | 0.35376 |
| LUSC | TCGA-66-2756-01A | TCGA-66-2756 | PAK2|ECE2 | PAK2 | ECE2 | 3 | 3 | 1 | 1 | 14 | 29 | 26 | 2.6 | 196467028 | 183975261 | tier1 | 5UTR-CDS | 12213 | non-validated | 0.37934 |
| OV | TCGA-25-1328-01A | TCGA-25-1328 | PAK2|DLG1 | PAK2 | DLG1 | 3 | 3 | 1 | -1 | 6 | 10 | 10 | 0.002 | 196532254 | 196888609 | tier1 | In-frame | 12212 | NA | 0.38262 |
| KIRP | TCGA-BQ-5880-01A | TCGA-BQ-5880 | SLC47A2|ULK2 | SLC47A2 | ULK2 | 17 | 17 | -1 | -1 | 11 | 6 | 5 | 5.6 | 19619746 | 19674380 | tier1 | CDS-3UTR | 16269 | NA | 0 |
| KIRP | TCGA-GL-A4EM-01A | TCGA-GL-A4EM | SLC47A2|ALDH3A1 | SLC47A2 | ALDH3A1 | 17 | 17 | -1 | -1 | 31 | 27 | 23 | 1.9 | 19616016 | 19645525 | tier1 | In-frame | 16265 | NA | 0 |
| LGG | TCGA-HT-A617-01A | TCGA-HT-A617 | SLC47A2|ALDH3A1 | SLC47A2 | ALDH3A1 | 17 | 17 | -1 | -1 | 40 | 18 | 16 | 1.9 | 19616016 | 19646776 | tier1 | In-frame | 16266 | NA | 0 |
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