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 |
| LIHC | TCGA-KR-A7K8-01A | TCGA-KR-A7K8 | PLCL2|TSEN2 | PLCL2 | TSEN2 | 3 | 3 | 1 | 1 | 13 | 7 | 7 | 1.4 | 16926865 | 12558110 | tier1 | 5UTR-CDS | 12975 | NA | 0.36133 |
| LGG | TCGA-HT-A617-01A | TCGA-HT-A617 | EPHB1|BFSP2 | EPHB1 | BFSP2 | 3 | 3 | 1 | 1 | 20 | 10 | 8 | 0.9 | 134873118 | 133166161 | tier1 | In-frame | 5676 | NA | 0.38494 |
| STAD | TCGA-D7-8579-01A | TCGA-D7-8579 | PTPRN2|IMMP2L | PTPRN2 | IMMP2L | 7 | 7 | -1 | -1 | 2 | 21 | 19 | 0.89 | 158380250 | 111161505 | tier3 | CDS-5UTR | 13904 | NA | 0 |
| BRCA | TCGA-AC-A62Y-01A | TCGA-AC-A62Y | PTPRN2|GALNT11 | PTPRN2 | GALNT11 | 7 | 7 | -1 | 1 | 2 | 2 | 2 | 5.6 | 157959623 | 151797883 | tier3 | In-frame | 13903 | NA | 0 |
| UCEC | TCGA-BK-A139-02A | TCGA-BK-A139 | PTPRN2|LRRC37B | PTPRN2 | LRRC37B | 7 | 17 | -1 | 1 | 2 | 1 | 1 | 0.042 | 157903521 | 30357675 | tier2 | In-frame | 13905 | NA | 0 |
| LGG | TCGA-DU-A7TA-01A | TCGA-DU-A7TA | AZIN1|ITPR1 | AZIN1 | ITPR1 | 8 | 3 | -1 | 1 | 4 | 3 | 2 | 1.7 | 103870241 | 4669447 | tier1 | 5UTR-CDS | 1843 | NA | 0.37293 |
| SKCM | TCGA-BF-A1PX-01A | TCGA-BF-A1PX | AZIN1|ATP6V1C1 | AZIN1 | ATP6V1C1 | 8 | 8 | -1 | 1 | 7 | 7 | 6 | 3.3 | 103870241 | 104053026 | tier1 | 5UTR-5UTR | 1842 | NA | 0.34377 |
| PRAD | TCGA-CH-5767-01A | TCGA-CH-5767 | AZIN1|ZFPM2 | AZIN1 | ZFPM2 | 8 | 8 | -1 | 1 | 40 | 46 | 40 | 0.79 | 103870241 | 106456508 | tier1 | 5UTR-5UTR | 1845 | NA | 0.36326 |
| SKCM | TCGA-FR-A2OS-01A | TCGA-FR-A2OS | AZIN1|RNF19A | AZIN1 | RNF19A | 8 | 8 | -1 | -1 | 33 | 23 | 21 | 0.21 | 103870241 | 101325600 | tier1 | NA | 1844 | NA | 0.3667 |
| LIHC | TCGA-RC-A6M6-01A | TCGA-RC-A6M6 | ATP6V1C1|KB-1507C5.2 | ATP6V1C1 | KB-1507C5.2 | 8 | 8 | 1 | 1 | 48 | 22 | 14 | 1.5 | 104033453 | 103892123 | tier1 | 5UTR-3UTR | 1756 | NA | 0.32829 |
| BRCA | TCGA-AR-A24Z-01A | TCGA-AR-A24Z | CDK19|ZFAND3 | CDK19 | ZFAND3 | 6 | 6 | -1 | 1 | 10 | 6 | 5 | 0.005 | 111136212 | 38120011 | tier1 | Out-of-frame | 3425 | non-validated | 0.33826 |
| LIHC | TCGA-BC-A10T-01A | TCGA-BC-A10T | PI4K2A|UBTD1 | PI4K2A | UBTD1 | 10 | 10 | 1 | 1 | 7 | 5 | 5 | 0.88 | 99344671 | 99329895 | tier1 | In-frame | 12777 | NA | 0.35691 |
| LUAD | TCGA-44-2668-01A | TCGA-44-2668 | SLC16A1|SENP6 | SLC16A1 | SENP6 | 1 | 6 | -1 | 1 | 3 | 3 | 2 | 1 | 113471714 | 76331248 | tier1 | In-frame | 16026 | non-validated | 0 |
| ESCA | TCGA-R6-A8W5-01B | TCGA-R6-A8W5 | SLC7A7|ACIN1 | SLC7A7 | ACIN1 | 14 | 14 | -1 | -1 | 3 | 20 | 17 | 0.12 | 23282109 | 23533697 | tier1 | In-frame | 16295 | NA | 0 |
| SKCM | TCGA-EE-A2M7-06A | TCGA-EE-A2M7 | GRIA1|RAD17 | GRIA1 | RAD17 | 5 | 5 | 1 | 1 | 8 | 6 | 2 | 0.64 | 153085627 | 68677728 | tier1 | Out-of-frame | 7440 | NA | 0.38227 |
| PRAD | TCGA-CH-5746-01A | TCGA-CH-5746 | PDIA4|CBX5 | PDIA4 | CBX5 | 7 | 12 | -1 | -1 | 2 | 5 | 4 | 0.098 | 148700154 | 54673955 | tier3 | 3UTR-5UTR | 12540 | NA | 0.36596 |
| THCA | TCGA-EL-A3ZR-01A | TCGA-EL-A3ZR | PDIA4|SIAE | PDIA4 | SIAE | 7 | 11 | -1 | -1 | 2 | 8 | 8 | 0.58 | 148700154 | 124543777 | tier3 | 3UTR-5UTR | 12544 | NA | 0.35188 |
| CESC | TCGA-C5-A1ML-01A | TCGA-C5-A1ML | PDIA4|FAR1 | PDIA4 | FAR1 | 7 | 11 | -1 | 1 | 2 | 1 | 1 | 2.1 | 148700154 | 13744912 | tier4 | NA | 12541 | non-validated | 0.35739 |
| LIHC | TCGA-ZP-A9D0-01A | TCGA-ZP-A9D0 | PDIA4|RP11-150O12.1 | PDIA4 | RP11-150O12.1 | 7 | 8 | -1 | -1 | 6 | 4 | 3 | 0.91 | 148705251 | 37279087 | tier1 | CDS-3UTR | 12543 | NA | 0.35094 |
| PRAD | TCGA-KK-A6E6-01A | TCGA-KK-A6E6 | PDIA4|HACE1 | PDIA4 | HACE1 | 7 | 6 | -1 | -1 | 15 | 15 | 12 | 0.003 | 148725413 | 105232360 | tier1 | Out-of-frame | 12542 | NA | 0.36191 |
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