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-A7-A5ZV-01A | TCGA-A7-A5ZV | TUBB6|ROBO1 | TUBB6 | ROBO1 | 18 | 3 | 1 | -1 | 14 | 12 | 8 | 0.58 | 12311052 | 78685258 | tier2 | In-frame | 18931 | NA | 0 |
| STAD | TCGA-D7-A6EV-01A | TCGA-D7-A6EV | TUBB6|OSBPL1A | TUBB6 | OSBPL1A | 18 | 18 | 1 | -1 | 2 | 43 | 39 | 1.1 | 12308794 | 21761243 | tier2 | Out-of-frame | 18930 | NA | 0 |
| BLCA | TCGA-GU-A42P-01A | TCGA-GU-A42P | YES1|SCFD2 | YES1 | SCFD2 | 18 | 4 | -1 | -1 | 60 | 18 | 16 | 0.15 | 812115 | 53787037 | tier1 | 5UTR-CDS | 20033 | NA | 0 |
| LUAD | TCGA-91-6836-01A | TCGA-91-6836 | CLK2|ASH1L | CLK2 | ASH1L | 1 | 1 | -1 | -1 | 13 | 9 | 7 | 0.26 | 155236520 | 155313533 | tier1 | In-frame | 3811 | NA | 0.37517 |
| BRCA | TCGA-AC-A62V-01A | TCGA-AC-A62V | CLK2|CD244 | CLK2 | CD244 | 1 | 1 | -1 | -1 | 19 | 15 | 15 | 2.3 | 155239279 | 160808839 | tier1 | Out-of-frame | 3812 | NA | 0.36946 |
| STAD | TCGA-HU-8610-01A | TCGA-HU-8610 | CLK2|PPP1R12B | CLK2 | PPP1R12B | 1 | 1 | -1 | 1 | 5 | 4 | 4 | 0.02 | 155242992 | 202457661 | tier1 | 5UTR-CDS | 3813 | NA | 0.37263 |
| SARC | TCGA-DX-A1KY-01A | TCGA-DX-A1KY | SLCO3A1|ITGA11 | SLCO3A1 | ITGA11 | 15 | 15 | 1 | -1 | 2 | 4 | 2 | 0.021 | 92459688 | 68643740 | tier2 | Out-of-frame | 16315 | NA | 0 |
| HNSC | TCGA-H7-A76A-01A | TCGA-H7-A76A | SLCO3A1|EPHB1 | SLCO3A1 | EPHB1 | 15 | 3 | 1 | 1 | 2 | 1 | 1 | 0.24 | 92459688 | 134959990 | tier3 | Out-of-frame | 16313 | NA | 0 |
| LUSC | TCGA-22-5485-01A | TCGA-22-5485 | SLCO3A1|BMPR2 | SLCO3A1 | BMPR2 | 15 | 2 | 1 | 1 | 31 | 25 | 22 | 0.17 | 92397318 | 203407034 | tier4 | Out-of-frame | 16312 | validated | 0 |
| COAD | TCGA-CM-5348-01A | TCGA-CM-5348 | SLCO3A1|ATPBD4 | SLCO3A1 | ATPBD4 | 15 | 15 | 1 | -1 | 7 | 4 | 3 | 1.5 | 92669489 | 35834708 | tier1 | In-frame | 16311 | NA | 0 |
| LGG | TCGA-DB-5277-01A | TCGA-DB-5277 | SLCO3A1|HDDC3 | SLCO3A1 | HDDC3 | 15 | 15 | 1 | -1 | 7 | 6 | 6 | 0.19 | 92397318 | 91475340 | tier1 | Out-of-frame | 16314 | NA | 0 |
| PAAD | TCGA-3A-A9I5-01A | TCGA-3A-A9I5 | CCDC101|CDR2 | CCDC101 | CDR2 | 16 | 16 | 1 | -1 | 2 | 1 | 1 | 1.3 | 28565418 | 22361170 | tier3 | 5UTR-CDS | 3103 | NA | 0.35711 |
| BRCA | TCGA-A8-A084-01A | TCGA-A8-A084 | BOK|MYEOV2 | BOK | MYEOV2 | 2 | 2 | 1 | -1 | 7 | 7 | 5 | 0.086 | 242501891 | 241066357 | tier1 | Out-of-frame | 2146 | NA | 0.34673 |
| LUSC | TCGA-85-8353-01A | TCGA-85-8353 | TYMS|YES1 | TYMS | YES1 | 18 | 18 | 1 | -1 | 111 | 82 | 75 | 3.4 | 662320 | 732965 | tier1 | In-frame | 19003 | NA | 0 |
| UCS | TCGA-N6-A4VE-01A | TCGA-N6-A4VE | FUT2|RASIP1 | FUT2 | RASIP1 | 19 | 19 | 1 | -1 | 135 | 63 | 60 | 1.3 | 49199336 | 49228217 | tier1 | 5UTR-CDS | 6831 | NA | 0.36358 |
| STAD | TCGA-BR-A452-01A | TCGA-BR-A452 | DEAF1|CHID1 | DEAF1 | CHID1 | 11 | 11 | -1 | -1 | 7 | 45 | 40 | 0.09 | 674536 | 870499 | tier1 | Out-of-frame | 4681 | NA | 0.35957 |
| BRCA | TCGA-D8-A1JG-01B | TCGA-D8-A1JG | DEAF1|PDDC1 | DEAF1 | PDDC1 | 11 | 11 | -1 | -1 | 21 | 10 | 7 | 0.39 | 674536 | 775142 | tier1 | Out-of-frame | 4682 | NA | 0.36112 |
| COAD | TCGA-D5-5538-01A | TCGA-D5-5538 | DEAF1|TMEM80 | DEAF1 | TMEM80 | 11 | 11 | -1 | 1 | 21 | 9 | 6 | 0.48 | 686858 | 700615 | tier1 | Out-of-frame | 4684 | NA | 0.35974 |
| STAD | TCGA-VQ-A92D-01A | TCGA-VQ-A92D | DEAF1|PIDD | DEAF1 | PIDD | 11 | 11 | -1 | -1 | 2 | 23 | 21 | 0.93 | 674536 | 804463 | tier2 | CDS-5UTR | 4683 | NA | 0.35768 |
| LUAD | TCGA-MN-A4N5-01A | TCGA-MN-A4N5 | SLC38A9|KCNIP1 | SLC38A9 | KCNIP1 | 5 | 5 | -1 | 1 | 10 | 4 | 4 | 0.29 | 54945035 | 170159804 | tier1 | Out-of-frame | 16187 | NA | 0 |
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