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-D9-A1X3-01A | TCGA-D9-A1X3 | TRIO|CLNK | TRIO | CLNK | 5 | 4 | 1 | -1 | 3 | 5 | 4 | 0.18 | 14401173 | 10586579 | tier1 | Out-of-frame | 18660 | NA | 0 |
| MESO | TCGA-3H-AB3M-01A | TCGA-3H-AB3M | VCAN|GABRA5 | VCAN | GABRA5 | 5 | 15 | 1 | 1 | 60 | 40 | 39 | 0.42 | 82849341 | 27188362 | tier1 | In-frame | 19530 | NA | 0 |
| LUAD | TCGA-05-4427-01A | TCGA-05-4427 | CDH1|CDKL3 | CDH1 | CDKL3 | 16 | 5 | 1 | -1 | 42 | 22 | 21 | 0.37 | 68856128 | 133644157 | tier1 | Out-of-frame | 3374 | NA | 0.37752 |
| BRCA | TCGA-AQ-A04L-01B | TCGA-AQ-A04L | CDH1|NPFFR2 | CDH1 | NPFFR2 | 16 | 4 | 1 | 1 | 14 | 16 | 15 | 1.2 | 68772314 | 73003757 | tier1 | In-frame | 3376 | NA | 0.37792 |
| PRAD | TCGA-VP-A879-01A | TCGA-VP-A879 | CDH1|TRHDE | CDH1 | TRHDE | 16 | 12 | 1 | 1 | 10 | 4 | 4 | 0.28 | 68835796 | 72771775 | tier1 | In-frame | 3377 | NA | 0.37579 |
| PRAD | TCGA-G9-A9S7-01A | TCGA-G9-A9S7 | CDH1|CA1 | CDH1 | CA1 | 16 | 8 | 1 | -1 | 22 | 20 | 17 | 0.14 | 68772314 | 86245849 | tier1 | Out-of-frame | 3372 | NA | 0.37372 |
| BRCA | TCGA-AO-A12E-01A | TCGA-AO-A12E | CDH1|CCDC132 | CDH1 | CCDC132 | 16 | 7 | 1 | 1 | 243 | 305 | 279 | 2.2 | 68857529 | 92952923 | tier1 | In-frame | 3373 | NA | 0.37086 |
| BRCA | TCGA-B6-A0RN-01A | TCGA-B6-A0RN | CDH1|DEXI | CDH1 | DEXI | 16 | 16 | 1 | -1 | 59 | 121 | 112 | 0.27 | 68842751 | 11023416 | tier1 | CDS-3UTR | 3375 | NA | 0.37653 |
| LUSC | TCGA-43-6770-01A | TCGA-43-6770 | RTN4R|TMEM22 | RTN4R | TMEM22 | 22 | 3 | -1 | 1 | 5 | 5 | 5 | 0.013 | 20255594 | 136573285 | tier1 | CDS-5UTR | 15172 | NA | 0 |
| LUSC | TCGA-96-A4JK-01A | TCGA-96-A4JK | RTN4R|DNAH2 | RTN4R | DNAH2 | 22 | 17 | -1 | 1 | 5 | 4 | 4 | 0.024 | 20255594 | 7719889 | tier1 | Out-of-frame | 15171 | NA | 0 |
| LIHC | TCGA-ZS-A9CD-01A | TCGA-ZS-A9CD | PHF23|TOM1 | PHF23 | TOM1 | 17 | 22 | -1 | 1 | 2 | 13 | 10 | 0.65 | 7142565 | 35741718 | tier3 | Out-of-frame | 12734 | NA | 0.36662 |
| LUAD | TCGA-50-6595-01A | TCGA-50-6595 | TNC|CDH3 | TNC | CDH3 | 9 | 16 | -1 | 1 | 2 | 1 | 1 | 0.29 | 117782839 | 68678151 | tier3 | 3UTR-5UTR | 18326 | NA | 0 |
| LUAD | TCGA-91-6836-01A | TCGA-91-6836 | TG|THADA | TG | THADA | 8 | 2 | 1 | -1 | 4 | 6 | 6 | 0.6 | 133984986 | 43520352 | tier1 | In-frame | 17731 | NA | 0 |
| ACC | TCGA-OR-A5JK-01A | TCGA-OR-A5JK | PHF15|UBE2B | PHF15 | UBE2B | 5 | 5 | 1 | 1 | 18 | 12 | 10 | 2 | 133861701 | 133725916 | tier1 | 5UTR-CDS | 12706 | NA | 0.3643 |
| LIHC | TCGA-2Y-A9GY-01A | TCGA-2Y-A9GY | PHF15|UBE2B | PHF15 | UBE2B | 5 | 5 | 1 | 1 | 6 | 3 | 3 | 2 | 133909452 | 133724016 | tier1 | In-frame | 12705 | NA | 0.3643 |
| PRAD | TCGA-YL-A9WY-01A | TCGA-YL-A9WY | PHF15|SGCD | PHF15 | SGCD | 5 | 5 | 1 | 1 | 3 | 5 | 5 | 0.63 | 133873773 | 155756544 | tier1 | CDS-5UTR | 12704 | NA | 0.35852 |
| THYM | TCGA-ZB-A96L-01A | TCGA-ZB-A96L | EPHA3|ABCA9 | EPHA3 | ABCA9 | 3 | 17 | 1 | -1 | 9 | 6 | 5 | 0.11 | 89480509 | 67047280 | tier1 | CDS-5UTR | 5669 | NA | 0.38168 |
| BRCA | TCGA-AC-A3OD-01B | TCGA-AC-A3OD | ATP6V1H|ST8SIA4 | ATP6V1H | ST8SIA4 | 8 | 5 | -1 | -1 | 3 | 1 | 1 | 1.1 | 54723724 | 100231489 | tier2 | Out-of-frame | 1763 | NA | 0.35135 |
| LUSC | TCGA-66-2758-01A | TCGA-66-2758 | ATP6V1H|RP1 | ATP6V1H | RP1 | 8 | 8 | -1 | 1 | 2 | 2 | 1 | 0.6 | 54656137 | 55667363 | tier3 | Out-of-frame | 1762 | NA | 0.35509 |
| BRCA | TCGA-BH-A18V-01A | TCGA-BH-A18V | CP|SOX5 | CP | SOX5 | 3 | 12 | -1 | -1 | 22 | 12 | 12 | 0.33 | 148939434 | 23999127 | tier1 | Out-of-frame | 4095 | NA | 0.36613 |
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