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 |
| LUAD | TCGA-05-4382-01A | TCGA-05-4382 | UAP1|MDM2 | UAP1 | MDM2 | 1 | 12 | 1 | 1 | 2 | 2 | 2 | 0.62 | 162531567 | 69202988 | tier2 | 5UTR-CDS | 19018 | NA | 0 |
| BLCA | TCGA-2F-A9KP-01A | TCGA-2F-A9KP | WDR59|CHST5 | WDR59 | CHST5 | 16 | 16 | -1 | -1 | 5 | 5 | 5 | 0.34 | 74922067 | 75567081 | tier1 | CDS-5UTR | 19791 | NA | 0 |
| PRAD | TCGA-ZG-A9L5-01A | TCGA-ZG-A9L5 | DOCK3|SLC9A5 | DOCK3 | SLC9A5 | 3 | 16 | 1 | 1 | 3 | 1 | 1 | 0.33 | 50879146 | 67304641 | tier2 | Out-of-frame | 5030 | NA | 0.3688 |
| BLCA | TCGA-PQ-A6FN-01A | TCGA-PQ-A6FN | GNPAT|CAPN9 | GNPAT | CAPN9 | 1 | 1 | 1 | 1 | 25 | 29 | 27 | 0.81 | 231386889 | 230923268 | tier2 | In-frame | 7246 | NA | 0.35393 |
| SKCM | TCGA-ER-A19E-06A | TCGA-ER-A19E | ARV1|CAPN9 | ARV1 | CAPN9 | 1 | 1 | 1 | 1 | 5 | 1 | 1 | 1.4 | 231126009 | 230914719 | tier2 | Out-of-frame | 1470 | validated | 0.34626 |
| HNSC | TCGA-CV-7263-01A | TCGA-CV-7263 | C1orf21|LAMC1 | C1orf21 | LAMC1 | 1 | 1 | 1 | 1 | 2 | 3 | 3 | 0.24 | 184446737 | 183085712 | tier2 | Out-of-frame | 2602 | NA | 0 |
| UCS | TCGA-N9-A4PZ-01A | TCGA-N9-A4PZ | EIF4G3|LAMC1 | EIF4G3 | LAMC1 | 1 | 1 | -1 | 1 | 41 | 22 | 16 | 1.7 | 21377359 | 183085712 | tier1 | 5UTR-CDS | 5477 | NA | 0.37239 |
| BRCA | TCGA-D8-A1XT-01A | TCGA-D8-A1XT | TRIP12|SP110 | TRIP12 | SP110 | 2 | 2 | -1 | -1 | 17 | 9 | 9 | 0.56 | 230701564 | 231037675 | tier1 | Out-of-frame | 18692 | NA | 0 |
| BRCA | TCGA-AR-A256-01A | TCGA-AR-A256 | GIGYF2|CHRND | GIGYF2 | CHRND | 2 | 2 | 1 | 1 | 8 | 5 | 5 | 0.59 | 233613792 | 233398641 | tier2 | In-frame | 7057 | validated | 0.36371 |
| STAD | TCGA-BR-7197-01A | TCGA-BR-7197 | ZFAND2B|CYP27A1 | ZFAND2B | CYP27A1 | 2 | 2 | 1 | 1 | 3 | 16 | 11 | 2 | 220071764 | 219674300 | tier1 | Out-of-frame | 20239 | NA | 0 |
| PRAD | TCGA-ZG-A8QY-01A | TCGA-ZG-A8QY | UTP20|SCYL2 | UTP20 | SCYL2 | 12 | 12 | 1 | 1 | 3 | 8 | 8 | 0.15 | 101713413 | 100727944 | tier4 | In-frame | 19451 | NA | 0 |
| SARC | TCGA-DX-A2IZ-01A | TCGA-DX-A2IZ | RAP1B|SCYL2 | RAP1B | SCYL2 | 12 | 12 | 1 | 1 | 73 | 68 | 45 | 0.44 | 69004823 | 100711581 | tier1 | 5UTR-CDS | 14274 | validated | 0 |
| SARC | TCGA-DX-A3M1-01A | TCGA-DX-A3M1 | C12orf56|APPL2 | C12orf56 | APPL2 | 12 | 12 | -1 | -1 | 2 | 3 | 3 | 0.25 | 64784094 | 105593309 | tier2 | Out-of-frame | 2444 | non-validated | 0 |
| SKCM | TCGA-EB-A44R-06A | TCGA-EB-A44R | GXYLT2|NEK3 | GXYLT2 | NEK3 | 3 | 13 | 1 | -1 | 5 | 1 | 1 | 1.3 | 72971486 | 52719026 | tier2 | In-frame | 7566 | NA | 0.37022 |
| BLCA | TCGA-4Z-AA80-01A | TCGA-4Z-AA80 | LRCH1|PHF11 | LRCH1 | PHF11 | 13 | 13 | 1 | 1 | 5 | 2 | 2 | 100 | 47303119 | 50080771 | tier1 | Out-of-frame | 9490 | NA | 0.3503 |
| UCEC | TCGA-AX-A3FX-01A | TCGA-AX-A3FX | CAB39L|SETDB2 | CAB39L | SETDB2 | 13 | 13 | -1 | 1 | 9 | 2 | 2 | 0.81 | 49987048 | 50064958 | tier1 | 5UTR-CDS | 2839 | NA | 0.35221 |
| PRAD | TCGA-KK-A8ID-01A | TCGA-KK-A8ID | SDK1|CHST12 | SDK1 | CHST12 | 7 | 7 | 1 | 1 | 24 | 25 | 24 | 0.78 | 3861215 | 2472198 | tier1 | CDS-5UTR | 15488 | NA | 0 |
| GBM | TCGA-28-1747-01C | TCGA-28-1747 | SP4|GPNMB | SP4 | GPNMB | 7 | 7 | 1 | 1 | 63 | 4 | 4 | 0.62 | 21468410 | 23313140 | tier1 | Out-of-frame | 16644 | NA | 0 |
| SKCM | TCGA-BF-AAP1-01A | TCGA-BF-AAP1 | C7orf30|GPNMB | C7orf30 | GPNMB | 7 | 7 | 1 | 1 | 256 | 218 | 190 | 3.8 | 23347568 | 23306136 | tier1 | In-frame | 2782 | NA | 0 |
| LIHC | TCGA-ZS-A9CF-01A | TCGA-ZS-A9CF | HERPUD2|AOAH | HERPUD2 | AOAH | 7 | 7 | -1 | -1 | 5 | 4 | 4 | 0.27 | 35733794 | 36580097 | tier1 | Out-of-frame | 7723 | NA | 0.34657 |
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