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-A256-01A | TCGA-AR-A256 | CA3|MYBL1 | CA3 | MYBL1 | 8 | 8 | 1 | -1 | 2 | 4 | 4 | 3.9 | 86356355 | 67479227 | tier2 | In-frame | 2835 | validated | 0.36734 |
| OV | TCGA-20-1682-01A | TCGA-20-1682 | ALDH7A1|PIP | ALDH7A1 | PIP | 5 | 7 | -1 | 1 | 7 | 2 | 1 | 0.029 | 125911112 | 142832287 | tier2 | In-frame | 808 | NA | 0.35353 |
| BLCA | TCGA-LC-A66R-01A | TCGA-LC-A66R | FZD6|DPYS | FZD6 | DPYS | 8 | 8 | 1 | -1 | 41 | 47 | 40 | 1 | 104312512 | 105405219 | tier1 | Out-of-frame | 6861 | NA | 0.35081 |
| CESC | TCGA-DS-A3LQ-01A | TCGA-DS-A3LQ | FZD6|BAALC | FZD6 | BAALC | 8 | 8 | 1 | 1 | 47 | 57 | 53 | 1.3 | 104312512 | 104240217 | tier1 | In-frame | 6860 | NA | 0.35497 |
| SKCM | TCGA-YD-A9TA-06A | TCGA-YD-A9TA | FZD6|SDCCAG8 | FZD6 | SDCCAG8 | 8 | 1 | 1 | 1 | 5 | 2 | 2 | 4.2 | 104312512 | 243449574 | tier1 | In-frame | 6862 | NA | 0.35023 |
| OV | TCGA-29-1770-01A | TCGA-29-1770 | SLC25A32|SMYD3 | SLC25A32 | SMYD3 | 8 | 1 | -1 | -1 | 2 | 40 | 38 | 1.9 | 104419862 | 246518396 | tier2 | CDS-5UTR | 16109 | NA | 0 |
| BLCA | TCGA-BL-A0C8-01A | TCGA-BL-A0C8 | FREM1|SLAMF7 | FREM1 | SLAMF7 | 9 | 1 | -1 | 1 | 2 | 3 | 3 | 0.079 | 14851282 | 160717984 | tier2 | Out-of-frame | 6712 | validated | 0.34288 |
| BLCA | TCGA-XF-AAMX-01A | TCGA-XF-AAMX | FREM1|UNC13B | FREM1 | UNC13B | 9 | 9 | -1 | 1 | 6 | 3 | 3 | 0.19 | 14909912 | 35228012 | tier1 | 5UTR-CDS | 6713 | NA | 0.3695 |
| PCPG | TCGA-QT-A5XJ-01A | TCGA-QT-A5XJ | PSIP1|TBL1X | PSIP1 | TBL1X | 9 | X | -1 | 1 | 4 | 14 | 12 | 0.2 | 15486004 | 9621585 | tier4 | CDS-5UTR | 13699 | NA | 0.38349 |
| LIHC | TCGA-G3-A25X-01A | TCGA-G3-A25X | SYK|AUH | SYK | AUH | 9 | 9 | 1 | -1 | 6 | 1 | 1 | 0.98 | 93564175 | 94060358 | tier3 | 5UTR-CDS | 17232 | NA | 0 |
| CESC | TCGA-ZJ-A8QO-01A | TCGA-ZJ-A8QO | ABCA1|PTGR1 | ABCA1 | PTGR1 | 9 | 9 | -1 | -1 | 22 | 11 | 9 | 0.25 | 107665895 | 114359712 | tier1 | CDS-5UTR | 35 | NA | 0.38077 |
| BRCA | TCGA-EW-A3U0-01A | TCGA-EW-A3U0 | ABCA1|HDHD3 | ABCA1 | HDHD3 | 9 | 9 | -1 | -1 | 3 | 3 | 3 | 2.4 | 107690216 | 116137847 | tier1 | 5UTR-5UTR | 34 | non-validated | 0.3794 |
| LUSC | TCGA-39-5028-01A | TCGA-39-5028 | ABCA1|ZBTB26 | ABCA1 | ZBTB26 | 9 | 9 | -1 | -1 | 2 | 1 | 1 | 5.8 | 107645320 | 125682223 | tier3 | CDS-5UTR | 36 | NA | 0.38763 |
| LUSC | TCGA-39-5028-01A | TCGA-39-5028 | ABCA1|ZBTB6 | ABCA1 | ZBTB6 | 9 | 9 | -1 | -1 | 6 | 5 | 5 | 0.44 | 107645320 | 125674360 | tier1 | CDS-5UTR | 37 | NA | 0.38585 |
| SKCM | TCGA-BF-AAP6-01A | TCGA-BF-AAP6 | ABCA1|ZNF483 | ABCA1 | ZNF483 | 9 | 9 | -1 | 1 | 47 | 36 | 33 | 0.39 | 107645320 | 114338645 | tier1 | In-frame | 38 | NA | 0.38874 |
| HNSC | TCGA-BA-6868-01B | TCGA-BA-6868 | MAMDC2|MRPS28 | MAMDC2 | MRPS28 | 9 | 8 | 1 | -1 | 107 | 94 | 87 | 1.3 | 72746528 | 80831383 | tier1 | Out-of-frame | 9781 | NA | 0.34713 |
| HNSC | TCGA-BA-6868-01B | TCGA-BA-6868 | MAMDC2|TPD52 | MAMDC2 | TPD52 | 9 | 8 | 1 | -1 | 10 | 5 | 5 | 0.42 | 72746528 | 80870670 | tier1 | Out-of-frame | 9782 | NA | 0.35302 |
| KIRP | TCGA-DW-7839-01A | TCGA-DW-7839 | ALDH1A1|TYK2 | ALDH1A1 | TYK2 | 9 | 19 | -1 | -1 | 2 | 2 | 1 | 1.1 | 75515578 | 10491352 | tier3 | 3UTR-5UTR | 797 | NA | 0.37626 |
| LIHC | TCGA-ZS-A9CF-02A | TCGA-ZS-A9CF | ALDH1A1|FXYD1 | ALDH1A1 | FXYD1 | 9 | 19 | -1 | 1 | 30 | 20 | 19 | 0.51 | 75538935 | 35630980 | tier1 | CDS-5UTR | 796 | NA | 0.36218 |
| BRCA | TCGA-LL-A5YO-01A | TCGA-LL-A5YO | TRPV6|KEL | TRPV6 | KEL | 7 | 7 | -1 | -1 | 42 | 21 | 16 | 0.084 | 142583134 | 142640970 | tier1 | Out-of-frame | 18742 | NA | 0 |
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