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 |
| PRAD | TCGA-CH-5737-01A | TCGA-CH-5737 | JHDM1D|BRAF | JHDM1D | BRAF | 7 | 7 | -1 | -1 | 5 | 2 | 2 | 0.23 | 139810895 | 140481493 | tier1 | In-frame | 8498 | NA | 0.38816 |
| BRCA | TCGA-B6-A0IN-01A | TCGA-B6-A0IN | JHDM1D|SND1 | JHDM1D | SND1 | 7 | 7 | -1 | 1 | 2 | 4 | 4 | 1.1 | 139793856 | 127631000 | tier2 | Out-of-frame | 8499 | NA | 0.3724 |
| PRAD | TCGA-J4-AATZ-01A | TCGA-J4-AATZ | JHDM1D|AGK | JHDM1D | AGK | 7 | 7 | -1 | 1 | 17 | 11 | 11 | 0.36 | 139876544 | 141349063 | tier1 | Out-of-frame | 8497 | NA | 0.35758 |
| SKCM | TCGA-ER-A2NH-06A | TCGA-ER-A2NH | CDKL3|SIL1 | CDKL3 | SIL1 | 5 | 5 | -1 | -1 | 3 | 24 | 23 | 0.51 | 133706689 | 138463542 | tier1 | 5UTR-5UTR | 3462 | NA | 0.35624 |
| BRCA | TCGA-A1-A0SQ-01A | TCGA-A1-A0SQ | MARK4|LYPD5 | MARK4 | LYPD5 | 19 | 19 | 1 | -1 | 15 | 10 | 9 | 0.01 | 45797710 | 44303986 | tier1 | Out-of-frame | 10010 | NA | 0.38311 |
| ESCA | TCGA-L5-A4OH-01A | TCGA-L5-A4OH | NOS2|MYO18A | NOS2 | MYO18A | 17 | 17 | -1 | -1 | 2 | 12 | 9 | 0.32 | 26125726 | 27449271 | tier2 | Out-of-frame | 11658 | NA | 0.36373 |
| LUAD | TCGA-78-7146-01A | TCGA-78-7146 | SCN4A|TRIM47 | SCN4A | TRIM47 | 17 | 17 | -1 | -1 | 7 | 4 | 4 | 0.052 | 62034522 | 73872573 | tier1 | In-frame | 15426 | validated | 0 |
| SKCM | TCGA-ER-A19T-01A | TCGA-ER-A19T | CACNA2D2|THRSP | CACNA2D2 | THRSP | 3 | 11 | -1 | 1 | 10 | 7 | 7 | 0.23 | 50540649 | 77778705 | tier1 | CDS-3UTR | 2869 | non-validated | 0.33354 |
| HNSC | TCGA-MZ-A7D7-01A | TCGA-MZ-A7D7 | JARID2|HFE | JARID2 | HFE | 6 | 6 | 1 | 1 | 8 | 7 | 7 | 0.31 | 15452406 | 26091069 | tier1 | In-frame | 8481 | NA | 0.3696 |
| LUAD | TCGA-50-6594-01A | TCGA-50-6594 | JARID2|ATM | JARID2 | ATM | 6 | 11 | 1 | 1 | 10 | 6 | 6 | 0.064 | 15246815 | 108213949 | tier1 | In-frame | 8476 | NA | 0.38182 |
| BRCA | TCGA-E2-A9RU-01A | TCGA-E2-A9RU | JARID2|BMP6 | JARID2 | BMP6 | 6 | 6 | 1 | 1 | 7 | 11 | 11 | 0.047 | 15410596 | 7879307 | tier1 | Out-of-frame | 8477 | NA | 0.37521 |
| LUAD | TCGA-44-8117-01A | TCGA-44-8117 | JARID2|HSD3B1 | JARID2 | HSD3B1 | 6 | 1 | 1 | 1 | 10 | 4 | 3 | 1.2 | 15246815 | 120050015 | tier1 | CDS-5UTR | 8483 | NA | 0.3646 |
| BLCA | TCGA-KQ-A41R-01A | TCGA-KQ-A41R | JARID2|CDKAL1 | JARID2 | CDKAL1 | 6 | 6 | 1 | 1 | 12 | 7 | 6 | 0.67 | 15410596 | 20649524 | tier1 | Out-of-frame | 8478 | NA | 0.36251 |
| BLCA | TCGA-DK-AA76-01A | TCGA-DK-AA76 | JARID2|HIVEP1 | JARID2 | HIVEP1 | 6 | 6 | 1 | 1 | 2 | 1 | 1 | 0.15 | 15501640 | 12129992 | tier2 | In-frame | 8482 | NA | 0.36926 |
| BLCA | TCGA-K4-A3WV-01A | TCGA-K4-A3WV | JARID2|PPP1R10 | JARID2 | PPP1R10 | 6 | 6 | 1 | -1 | 94 | 61 | 57 | 0.076 | 15374483 | 30584775 | tier1 | CDS-5UTR | 8485 | NA | 0.3632 |
| BLCA | TCGA-FD-A6TG-01A | TCGA-FD-A6TG | JARID2|SGCZ | JARID2 | SGCZ | 6 | 8 | 1 | -1 | 3 | 1 | 1 | 1.6 | 15246815 | 14022211 | tier4 | Out-of-frame | 8486 | NA | 0.3632 |
| LUSC | TCGA-98-A53A-01A | TCGA-98-A53A | JARID2|DTNBP1 | JARID2 | DTNBP1 | 6 | 6 | 1 | -1 | 2 | 1 | 1 | 0.39 | 15246815 | 15638035 | tier4 | Out-of-frame | 8480 | NA | 0.36609 |
| SARC | TCGA-DX-A1L3-01A | TCGA-DX-A1L3 | JARID2|DNM3 | JARID2 | DNM3 | 6 | 1 | 1 | 1 | 9 | 6 | 6 | 0.45 | 15246815 | 171890888 | tier1 | Out-of-frame | 8479 | validated | 0.36926 |
| SKCM | TCGA-ER-A3EV-06A | TCGA-ER-A3EV | JARID2|NEDD9 | JARID2 | NEDD9 | 6 | 6 | 1 | -1 | 4 | 9 | 9 | 0.27 | 15246815 | 11306388 | tier1 | CDS-5UTR | 8484 | NA | 0.38422 |
| KIRP | TCGA-B9-4116-01A | TCGA-B9-4116 | ADAM22|ASB4 | ADAM22 | ASB4 | 7 | 7 | 1 | 1 | 2 | 4 | 3 | 0.1 | 87754974 | 95166883 | tier2 | In-frame | 413 | validated | 0.37049 |
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