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 |
| PRAD | TCGA-2A-A8W1-01A | TCGA-2A-A8W1 | BRCA1|NF1 | BRCA1 | NF1 | 17 | 17 | -1 | 1 | 2 | 2 | 2 | 0.27 | 41199660 | 29654517 | tier2 | Out-of-frame | 2194 | NA | 0.38654 |
| BRCA | TCGA-AN-A0AM-01A | TCGA-AN-A0AM | MBTPS2|EDEM2 | MBTPS2 | EDEM2 | X | 20 | 1 | -1 | 10 | 13 | 12 | 0.38 | 21896810 | 33714178 | tier1 | In-frame | 10073 | NA | 0.35096 |
| BRCA | TCGA-E2-A1LL-01A | TCGA-E2-A1LL | MBTPS2|CNKSR2 | MBTPS2 | CNKSR2 | X | X | 1 | 1 | 2 | 1 | 1 | 0.9 | 21869730 | 21579589 | tier2 | Out-of-frame | 10072 | non-validated | 0.36353 |
| PRAD | TCGA-G9-6356-01A | TCGA-G9-6356 | LTF|C7 | LTF | C7 | 3 | 5 | -1 | 1 | 2 | 37 | 19 | 0.45 | 46477510 | 40954982 | tier3 | NA | 9660 | NA | 0.36289 |
| BRCA | TCGA-A7-A26G-01A | TCGA-A7-A26G | LTF|CHD1 | LTF | CHD1 | 3 | 5 | -1 | -1 | 2 | 4 | 1 | 7.6 | 46477510 | 98219587 | tier4 | NA | 9663 | non-validated | 0.37084 |
| BRCA | TCGA-PE-A5DE-01A | TCGA-PE-A5DE | LTF|CFB | LTF | CFB | 3 | 6 | -1 | 1 | 2 | 1 | 1 | 1.4 | 46477510 | 31913427 | tier3 | NA | 9662 | NA | 0.36705 |
| PRAD | TCGA-HC-7079-01A | TCGA-HC-7079 | LTF|CFB | LTF | CFB | 3 | 6 | -1 | 1 | 5 | 1 | 1 | 1.4 | 46477510 | 31913427 | tier3 | NA | 9661 | NA | 0.36705 |
| BRCA | TCGA-AO-A1KO-01A | TCGA-AO-A1KO | LTF|NCALD | LTF | NCALD | 3 | 8 | -1 | -1 | 2 | 5 | 3 | 0.4 | 46477510 | 102813898 | tier3 | 3UTR-5UTR | 9665 | NA | 0.36832 |
| LUAD | TCGA-44-7671-01A | TCGA-44-7671 | LTF|FOXP1 | LTF | FOXP1 | 3 | 3 | -1 | -1 | 2 | 4 | 3 | 0.018 | 46477510 | 71007472 | tier3 | NA | 9664 | NA | 0.3651 |
| LUSC | TCGA-85-8355-01A | TCGA-85-8355 | LTF|ZNFX1 | LTF | ZNFX1 | 3 | 20 | -1 | -1 | 2 | 24 | 22 | 0.78 | 46477510 | 47863418 | tier4 | 3UTR-CDS | 9667 | NA | 0.35751 |
| PRAD | TCGA-H9-A6BX-01A | TCGA-H9-A6BX | LTF|SEC63 | LTF | SEC63 | 3 | 6 | -1 | -1 | 2 | 63 | 53 | 2.4 | 46477510 | 108214782 | tier4 | NA | 9666 | NA | 0.36115 |
| BRCA | TCGA-AC-A23H-01A | TCGA-AC-A23H | UBR7|BTBD7 | UBR7 | BTBD7 | 14 | 14 | 1 | -1 | 9 | 7 | 6 | 0.32 | 93686757 | 93723701 | tier1 | In-frame | 19156 | NA | 0 |
| BLCA | TCGA-XF-AAMW-01A | TCGA-XF-AAMW | MAP4K5|ADCK1 | MAP4K5 | ADCK1 | 14 | 14 | -1 | 1 | 2 | 1 | 1 | 1.2 | 50971518 | 78353434 | tier2 | Out-of-frame | 9913 | NA | 0.38158 |
| BRCA | TCGA-BH-A0HY-01A | TCGA-BH-A0HY | MAP4K5|NIN | MAP4K5 | NIN | 14 | 14 | -1 | -1 | 5 | 4 | 3 | 0.46 | 50971518 | 51205004 | tier1 | Out-of-frame | 9915 | NA | 0.38277 |
| BRCA | TCGA-AC-A3W5-01A | TCGA-AC-A3W5 | MAP4K5|SAV1 | MAP4K5 | SAV1 | 14 | 14 | -1 | -1 | 8 | 6 | 6 | 0.47 | 50998660 | 51111732 | tier1 | Out-of-frame | 9916 | NA | 0.38453 |
| LUSC | TCGA-LA-A7SW-01A | TCGA-LA-A7SW | MAP4K5|ATP5S | MAP4K5 | ATP5S | 14 | 14 | -1 | 1 | 16 | 8 | 1 | 0.021 | 50941795 | 50788201 | tier2 | Out-of-frame | 9914 | NA | 0.3817 |
| BLCA | TCGA-DK-A3IS-01A | TCGA-DK-A3IS | MAN2B2|TACC3 | MAN2B2 | TACC3 | 4 | 4 | 1 | 1 | 35 | 42 | 20 | 0.22 | 6580225 | 1737458 | tier1 | Out-of-frame | 9819 | NA | 0.36413 |
| PRAD | TCGA-G9-6494-01A | TCGA-G9-6494 | SLC25A39|C17orf57 | SLC25A39 | C17orf57 | 17 | 17 | -1 | 1 | 28 | 14 | 14 | 0.28 | 42398426 | 45438744 | tier1 | In-frame | 16113 | NA | 0 |
| ACC | TCGA-OR-A5L6-01A | TCGA-OR-A5L6 | CLK1|NAPRT1 | CLK1 | NAPRT1 | 2 | 8 | -1 | -1 | 57 | 38 | 27 | 1.7 | 201719339 | 144660113 | tier1 | Out-of-frame | 3810 | NA | 0.36798 |
| HNSC | TCGA-QK-A8ZB-01A | TCGA-QK-A8ZB | HEBP1|NCK1 | HEBP1 | NCK1 | 12 | 3 | -1 | 1 | 125 | 84 | 79 | 2.1 | 13140086 | 136667101 | tier1 | Out-of-frame | 7676 | NA | 0.37653 |
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