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-AR-A24R-01A | TCGA-AR-A24R | AURKA|PCK1 | AURKA | PCK1 | 20 | 20 | -1 | 1 | 19 | 12 | 9 | 0.85 | 54963212 | 56136428 | tier1 | CDS-5UTR | 1822 | NA | 0.37044 |
| BLCA | TCGA-ZF-AA4T-01A | TCGA-ZF-AA4T | PTPN4|LCT | PTPN4 | LCT | 2 | 2 | 1 | -1 | 8 | 4 | 4 | 0.66 | 120567567 | 136590760 | tier1 | Out-of-frame | 13838 | NA | 0.36904 |
| LUSC | TCGA-NC-A5HM-01A | TCGA-NC-A5HM | PTPN4|GRID1 | PTPN4 | GRID1 | 2 | 10 | 1 | -1 | 4 | 3 | 3 | 0.18 | 120567567 | 87489371 | tier1 | In-frame | 13837 | NA | 0.37039 |
| STAD | TCGA-CG-4475-01A | TCGA-CG-4475 | PTPN4|AC069154.2 | PTPN4 | AC069154.2 | 2 | 2 | 1 | 1 | 4 | 1 | 1 | 0.35 | 120517960 | 120395835 | tier2 | 5UTR-CDS | 13835 | NA | 0.36509 |
| UCEC | TCGA-EO-A1Y7-01A | TCGA-EO-A1Y7 | PTPN4|AC069154.2 | PTPN4 | AC069154.2 | 2 | 2 | 1 | 1 | 35 | 21 | 20 | 0.35 | 120567567 | 120409550 | tier1 | Out-of-frame | 13836 | NA | 0.36509 |
| BRCA | TCGA-BH-A0H7-01A | TCGA-BH-A0H7 | EDEM2|DOK5 | EDEM2 | DOK5 | 20 | 20 | -1 | 1 | 14 | 4 | 4 | 2 | 33730176 | 53205022 | tier1 | Out-of-frame | 5272 | NA | 0.37345 |
| KIRC | TCGA-B0-5084-01A | TCGA-B0-5084 | EDEM2|UQCC | EDEM2 | UQCC | 20 | 20 | -1 | -1 | 3 | 3 | 3 | 1.1 | 33859808 | 33935075 | tier1 | 5UTR-CDS | 5274 | NA | 0.34787 |
| SKCM | TCGA-EB-A431-01A | TCGA-EB-A431 | EDEM2|UQCC | EDEM2 | UQCC | 20 | 20 | -1 | -1 | 13 | 13 | 8 | 1.1 | 33859808 | 33935075 | tier1 | 5UTR-CDS | 5275 | NA | 0.34787 |
| STAD | TCGA-BR-7197-01A | TCGA-BR-7197 | EDEM2|PEX14 | EDEM2 | PEX14 | 20 | 1 | -1 | 1 | 3 | 16 | 12 | 100 | 33859808 | 10659295 | tier1 | 5UTR-CDS | 5273 | NA | 0.35498 |
| KIRP | TCGA-Y8-A8S1-01A | TCGA-Y8-A8S1 | DNMT3B|MMP9 | DNMT3B | MMP9 | 20 | 20 | 1 | 1 | 3 | 4 | 3 | 0.1 | 31350505 | 44638505 | tier1 | 5UTR-CDS | 5014 | NA | 0.36854 |
| BLCA | TCGA-K4-A3WS-01A | TCGA-K4-A3WS | DNMT3B|DUSP15 | DNMT3B | DUSP15 | 20 | 20 | 1 | -1 | 12 | 3 | 2 | 0.076 | 31376818 | 30457400 | tier1 | CDS-5UTR | 5012 | NA | 0.3586 |
| LAML | TCGA-AB-2904-03A | TCGA-AB-2904 | DNMT3B|MDM4 | DNMT3B | MDM4 | 20 | 1 | 1 | 1 | 7 | 18 | 16 | 5.4 | 31390276 | 204494612 | tier1 | CDS-5UTR | 5013 | NA | 0.37311 |
| UCS | TCGA-NA-A5I1-01A | TCGA-NA-A5I1 | DNMT3B|COMMD7 | DNMT3B | COMMD7 | 20 | 20 | 1 | -1 | 29 | 14 | 11 | 0.29 | 31369220 | 31315949 | tier1 | In-frame | 5011 | NA | 0.35588 |
| LUSC | TCGA-56-8503-01A | TCGA-56-8503 | ATRN|TNKS2 | ATRN | TNKS2 | 20 | 10 | 1 | 1 | 22 | 6 | 6 | 0.54 | 3565527 | 93572740 | tier1 | In-frame | 1788 | NA | 0.36897 |
| BRCA | TCGA-A2-A1FW-01A | TCGA-A2-A1FW | ATRN|RNF24 | ATRN | RNF24 | 20 | 20 | 1 | -1 | 48 | 41 | 39 | 1 | 3557644 | 3915720 | tier1 | Out-of-frame | 1787 | NA | 0.35644 |
| SARC | TCGA-FX-A3NK-01A | TCGA-FX-A3NK | ATRN|C20orf194 | ATRN | C20orf194 | 20 | 20 | 1 | -1 | 6 | 5 | 5 | 0.61 | 3452164 | 3363153 | tier1 | In-frame | 1786 | NA | 0 |
| SARC | TCGA-K1-A42X-01A | TCGA-K1-A42X | ATRN|UQCRB | ATRN | UQCRB | 20 | 8 | 1 | -1 | 23 | 20 | 19 | 0.49 | 3541552 | 97245455 | tier1 | In-frame | 1789 | NA | 0.3561 |
| LIHC | TCGA-DD-A4NO-01A | TCGA-DD-A4NO | SMOX|SLC24A3 | SMOX | SLC24A3 | 20 | 20 | 1 | 1 | 9 | 2 | 2 | 0.31 | 4129624 | 19634706 | tier1 | 5UTR-CDS | 16431 | NA | 0 |
| LGG | TCGA-CS-5397-01A | TCGA-CS-5397 | SMOX|EIF3D | SMOX | EIF3D | 20 | 22 | 1 | -1 | 37 | 21 | 21 | 0.049 | 4129624 | 36922178 | tier1 | 5UTR-5UTR | 16429 | NA | 0 |
| PRAD | TCGA-YJ-A8SW-01A | TCGA-YJ-A8SW | SMOX|PANK2 | SMOX | PANK2 | 20 | 20 | 1 | 1 | 3 | 10 | 8 | 0.38 | 4129624 | 3888573 | tier1 | 5UTR-5UTR | 16430 | NA | 0 |
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