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-DD-A11C-01A | TCGA-DD-A11C | STXBP2|TRIM4 | STXBP2 | TRIM4 | 19 | 7 | 1 | -1 | 10 | 11 | 8 | 0.23 | 7704693 | 99490369 | tier1 | Out-of-frame | 17147 | NA | 0 |
| LUAD | TCGA-44-A479-01A | TCGA-44-A479 | ATXN7L1|AGBL3 | ATXN7L1 | AGBL3 | 7 | 7 | -1 | 1 | 14 | 20 | 16 | 0.21 | 105516258 | 134819593 | tier1 | Out-of-frame | 1820 | NA | 0.34537 |
| BRCA | TCGA-AR-A24Q-01A | TCGA-AR-A24Q | LMBR1|EPHA1 | LMBR1 | EPHA1 | 7 | 7 | -1 | -1 | 2 | 2 | 1 | 2.1 | 156589083 | 143098698 | tier2 | In-frame | 9382 | NA | 0.37379 |
| LUSC | TCGA-22-5481-01A | TCGA-22-5481 | USP32|EPHA1 | USP32 | EPHA1 | 17 | 7 | -1 | -1 | 7 | 7 | 5 | 2.9 | 58469243 | 143094750 | tier1 | In-frame | 19352 | NA | 0 |
| BLCA | TCGA-GU-A42Q-01A | TCGA-GU-A42Q | PIR|TMEM27 | PIR | TMEM27 | X | X | -1 | -1 | 25 | 25 | 22 | 1 | 15509285 | 15682518 | tier1 | Out-of-frame | 12882 | NA | 0.34276 |
| BRCA | TCGA-A1-A0SN-01A | TCGA-A1-A0SN | TBL1X|CASK | TBL1X | CASK | X | X | 1 | -1 | 4 | 1 | 1 | 0.5 | 9469889 | 41712480 | tier3 | 5UTR-CDS | 17539 | NA | 0 |
| GBM | TCGA-06-0158-01A | TCGA-06-0158 | EML4|CASK | EML4 | CASK | 2 | X | 1 | -1 | 11 | 66 | 55 | 0.14 | 42396776 | 41420897 | tier1 | In-frame | 5565 | NA | 0.38061 |
| PRAD | TCGA-ZG-A9L1-01A | TCGA-ZG-A9L1 | PERP|CASK | PERP | CASK | 6 | X | -1 | -1 | 5 | 12 | 10 | 7.2 | 138428264 | 41646536 | tier1 | In-frame | 12619 | NA | 0.37593 |
| BRCA | TCGA-BH-A0BF-01A | TCGA-BH-A0BF | PDHX|KDM6A | PDHX | KDM6A | 11 | X | 1 | 1 | 19 | 12 | 12 | 0.15 | 34938362 | 44966655 | tier4 | Out-of-frame | 12538 | NA | 0.34951 |
| PRAD | TCGA-EJ-8469-01A | TCGA-EJ-8469 | ARHGAP6|KDM6A | ARHGAP6 | KDM6A | X | X | -1 | 1 | 10 | 7 | 6 | 3.8 | 11445668 | 44922667 | tier1 | 5UTR-CDS | 1267 | NA | 0.34843 |
| BRCA | TCGA-A2-A3Y0-01A | TCGA-A2-A3Y0 | PPP4R1|CCNB3 | PPP4R1 | CCNB3 | 18 | X | -1 | 1 | 7 | 2 | 1 | 0.19 | 9614476 | 50051505 | tier4 | Out-of-frame | 13436 | non-validated | 0.36418 |
| STAD | TCGA-BR-8687-01A | TCGA-BR-8687 | CHKA|CCNB3 | CHKA | CCNB3 | 11 | X | -1 | 1 | 2 | 9 | 7 | 0.42 | 67888295 | 50027542 | tier3 | CDS-5UTR | 3682 | NA | 0.36058 |
| SKCM | TCGA-EE-A2GL-06A | TCGA-EE-A2GL | RP2|CHST7 | RP2 | CHST7 | X | X | 1 | 1 | 16 | 17 | 15 | 0.31 | 46696637 | 46457195 | tier1 | CDS-3UTR | 14956 | NA | 0 |
| LUSC | TCGA-77-A5GH-01A | TCGA-77-A5GH | ATRX|LPAR4 | ATRX | LPAR4 | X | X | -1 | 1 | 4 | 2 | 1 | 0.007 | 77041468 | 78010288 | tier2 | CDS-5UTR | 1796 | NA | 0.38117 |
| SARC | TCGA-FX-A48G-01A | TCGA-FX-A48G | RPTOR|GPC3 | RPTOR | GPC3 | 17 | X | 1 | -1 | 11 | 4 | 4 | 0.18 | 78519591 | 133087238 | tier1 | Out-of-frame | 15107 | non-validated | 0 |
| LGG | TCGA-KT-A7W1-01A | TCGA-KT-A7W1 | RAP1GAP|NSDHL | RAP1GAP | NSDHL | 1 | X | -1 | 1 | 10 | 6 | 6 | 2.9 | 21976254 | 152027314 | tier1 | 5UTR-CDS | 14279 | NA | 0 |
| BRCA | TCGA-B6-A0RM-01A | TCGA-B6-A0RM | HEATR3|CHRNB3 | HEATR3 | CHRNB3 | 16 | 8 | 1 | 1 | 3 | 3 | 3 | 0.082 | 50100450 | 42585737 | tier1 | Out-of-frame | 7660 | NA | 0.34594 |
| COAD | TCGA-AZ-6606-01A | TCGA-AZ-6606 | AC113191.1|CHRNA6 | AC113191.1 | CHRNA6 | 8 | 8 | 1 | -1 | 24 | 26 | 24 | 1.9 | 42958973 | 42620347 | tier1 | Out-of-frame | 215 | NA | 0.34066 |
| HNSC | TCGA-CN-5370-01A | TCGA-CN-5370 | FOXP1|PXDNL | FOXP1 | PXDNL | 3 | 8 | -1 | -1 | 6 | 4 | 4 | 1.2 | 71542577 | 52412330 | tier1 | 5UTR-CDS | 6693 | NA | 0.36276 |
| SKCM | TCGA-ER-A19T-01A | TCGA-ER-A19T | FAM168A|PXDNL | FAM168A | PXDNL | 11 | 8 | -1 | -1 | 78 | 43 | 40 | 0.36 | 73308968 | 52339318 | tier1 | 5UTR-CDS | 6084 | non-validated | 0.35151 |
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