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 |
| LUSC | TCGA-34-5232-01A | TCGA-34-5232 | ATP2A2|EP400 | ATP2A2 | EP400 | 12 | 12 | 1 | 1 | 9 | 8 | 6 | 0.3 | 110729929 | 132464242 | tier2 | In-frame | 1706 | NA | 0.38003 |
| UCEC | TCGA-AX-A2H4-01A | TCGA-AX-A2H4 | ATP2A2|IFT81 | ATP2A2 | IFT81 | 12 | 12 | 1 | 1 | 2 | 2 | 2 | 0.26 | 110765822 | 110600724 | tier3 | In-frame | 1709 | NA | 0.37729 |
| PRAD | TCGA-YJ-A8SW-01A | TCGA-YJ-A8SW | CNTNAP2|GSTK1 | CNTNAP2 | GSTK1 | 7 | 7 | 1 | 1 | 79 | 79 | 70 | 5.1 | 146536996 | 142960241 | tier1 | NA | 3955 | NA | 0.36226 |
| LUSC | TCGA-85-A50M-01A | TCGA-85-A50M | LINGO2|TLN1 | LINGO2 | TLN1 | 9 | 9 | -1 | -1 | 4 | 5 | 5 | 0.079 | 28475938 | 35708481 | tier1 | 5UTR-CDS | 9363 | NA | 0.37641 |
| HNSC | TCGA-BA-6871-01A | TCGA-BA-6871 | IL20RB|NR4A1 | IL20RB | NR4A1 | 3 | 12 | 1 | 1 | 3 | 3 | 3 | 0.006 | 136677043 | 52448111 | tier1 | CDS-5UTR | 8181 | NA | 0.3803 |
| HNSC | TCGA-CX-7086-01A | TCGA-CX-7086 | IL20RB|NCK1 | IL20RB | NCK1 | 3 | 3 | 1 | 1 | 12 | 19 | 16 | 2.1 | 136714398 | 136646826 | tier1 | CDS-5UTR | 8180 | non-validated | 0.37738 |
| LUSC | TCGA-77-A5GH-01A | TCGA-77-A5GH | SLCO2A1|RYK | SLCO2A1 | RYK | 3 | 3 | -1 | -1 | 2 | 4 | 4 | 0.43 | 133748551 | 133907767 | tier4 | Out-of-frame | 16308 | NA | 0 |
| CHOL | TCGA-W5-AA2X-01A | TCGA-W5-AA2X | SLC29A2|RAB6A | SLC29A2 | RAB6A | 11 | 11 | -1 | -1 | 39 | 52 | 48 | 0.98 | 66133407 | 73390765 | tier1 | In-frame | 16125 | NA | 0 |
| LUAD | TCGA-67-3774-01A | TCGA-67-3774 | NR1D2|AC106722.1 | NR1D2 | AC106722.1 | 3 | 3 | 1 | -1 | 2 | 4 | 4 | 0.54 | 23987085 | 151986861 | tier3 | CDS-5UTR | 11711 | NA | 0.35941 |
| LUAD | TCGA-55-A57B-01A | TCGA-55-A57B | NR1D2|UBE2E2 | NR1D2 | UBE2E2 | 3 | 3 | 1 | 1 | 4 | 10 | 10 | 0.43 | 24004096 | 23574045 | tier1 | In-frame | 11712 | NA | 0.37313 |
| BRCA | TCGA-BH-A0W3-01A | TCGA-BH-A0W3 | FZD4|LAMTOR1 | FZD4 | LAMTOR1 | 11 | 11 | -1 | -1 | 24 | 11 | 10 | 0.35 | 86665843 | 71810302 | tier2 | In-frame | 6858 | NA | 0.35606 |
| PRAD | TCGA-CH-5766-01A | TCGA-CH-5766 | FZD4|RP11-115C10.1 | FZD4 | RP11-115C10.1 | 11 | 11 | -1 | 1 | 20 | 8 | 6 | 0.36 | 86665843 | 126551678 | tier1 | Out-of-frame | 6859 | NA | 0.35606 |
| UCEC | TCGA-AX-A3G1-01A | TCGA-AX-A3G1 | PDE12|KCNJ4 | PDE12 | KCNJ4 | 3 | 22 | 1 | -1 | 4 | 4 | 1 | 3.5 | 57545115 | 38824176 | tier2 | CDS-5UTR | 12463 | NA | 0.36438 |
| SKCM | TCGA-GF-A4EO-06A | TCGA-GF-A4EO | PDE12|ROBO2 | PDE12 | ROBO2 | 3 | 3 | 1 | 1 | 3 | 3 | 3 | 4.3 | 57545115 | 77671378 | tier1 | Out-of-frame | 12464 | NA | 0.36454 |
| BRCA | TCGA-A2-A0CL-01A | TCGA-A2-A0CL | ATR|DBR1 | ATR | DBR1 | 3 | 3 | -1 | -1 | 2 | 3 | 3 | 0.018 | 142297488 | 137892468 | tier2 | In-frame | 1784 | NA | 0.37267 |
| STAD | TCGA-VQ-AA6D-01A | TCGA-VQ-AA6D | ATR|R3HDM2 | ATR | R3HDM2 | 3 | 12 | -1 | -1 | 3 | 10 | 8 | 0.37 | 142284963 | 57650294 | tier1 | In-frame | 1785 | NA | 0.37345 |
| BLCA | TCGA-DK-A3IT-01A | TCGA-DK-A3IT | PARL|ABCC5 | PARL | ABCC5 | 3 | 3 | -1 | -1 | 5 | 3 | 3 | 0.3 | 183602510 | 183655848 | tier1 | Out-of-frame | 12293 | NA | 0.34658 |
| HNSC | TCGA-BA-A6DL-01A | TCGA-BA-A6DL | PARL|ABCC5 | PARL | ABCC5 | 3 | 3 | -1 | -1 | 10 | 8 | 8 | 0.3 | 183602510 | 183732235 | tier1 | CDS-5UTR | 12292 | NA | 0.34658 |
| SARC | TCGA-VT-A80G-01A | TCGA-VT-A80G | TMEM9B|PSIP1 | TMEM9B | PSIP1 | 11 | 9 | -1 | -1 | 33 | 15 | 15 | 0.87 | 8983639 | 15490122 | tier1 | In-frame | 18071 | NA | 0 |
| LUAD | TCGA-93-A4JP-01A | TCGA-93-A4JP | PTPN2|MYL12B | PTPN2 | MYL12B | 18 | 18 | -1 | 1 | 313 | 149 | 123 | 1.2 | 12884072 | 3277251 | tier2 | Out-of-frame | 13826 | NA | 0.36879 |
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