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-A2-A4RW-01A | TCGA-A2-A4RW | LRRK1|ADAMTS17 | LRRK1 | ADAMTS17 | 15 | 15 | 1 | -1 | 24 | 20 | 19 | 0.003 | 101529603 | 100591936 | tier1 | In-frame | 9615 | NA | 0.36766 |
| SARC | TCGA-DX-A3M1-01A | TCGA-DX-A3M1 | ABCA9|CEP112 | ABCA9 | CEP112 | 17 | 17 | -1 | -1 | 2 | 10 | 10 | 0.23 | 67020355 | 63685336 | tier2 | Out-of-frame | 47 | validated | 0.33823 |
| SARC | TCGA-FX-A2QS-01A | TCGA-FX-A2QS | ABCA9|TANC2 | ABCA9 | TANC2 | 17 | 17 | -1 | 1 | 15 | 11 | 11 | 0.78 | 66978703 | 61345109 | tier1 | In-frame | 48 | non-validated | 0.35065 |
| CESC | TCGA-VS-A8QC-01A | TCGA-VS-A8QC | ABCA5|MBTD1 | ABCA5 | MBTD1 | 17 | 17 | -1 | -1 | 5 | 7 | 6 | 0.15 | 67290796 | 49258055 | tier1 | In-frame | 45 | NA | 0.34481 |
| BRCA | TCGA-A2-A3XZ-01A | TCGA-A2-A3XZ | ABCA5|BCAS3 | ABCA5 | BCAS3 | 17 | 17 | -1 | 1 | 4 | 8 | 7 | 0.34 | 67323193 | 58786580 | tier1 | 5UTR-CDS | 43 | NA | 0.34517 |
| LUSC | TCGA-6A-AB49-01A | TCGA-6A-AB49 | ABCA5|C17orf67 | ABCA5 | C17orf67 | 17 | 17 | -1 | -1 | 44 | 34 | 31 | 2.3 | 67280094 | 54872541 | tier1 | Out-of-frame | 44 | NA | 0 |
| BRCA | TCGA-D8-A1XB-01A | TCGA-D8-A1XB | TNIK|MTHFD1L | TNIK | MTHFD1L | 3 | 6 | -1 | 1 | 3 | 2 | 2 | 0.26 | 171087409 | 151413603 | tier1 | In-frame | 18348 | NA | 0 |
| LGG | TCGA-TM-A84B-01A | TCGA-TM-A84B | TNIK|DGCR8 | TNIK | DGCR8 | 3 | 22 | -1 | 1 | 6 | 4 | 3 | 0.026 | 170841385 | 20093700 | tier1 | Out-of-frame | 18346 | NA | 0 |
| LGG | TCGA-TM-A84B-01A | TCGA-TM-A84B | TNIK|KCNMB2 | TNIK | KCNMB2 | 3 | 3 | -1 | 1 | 22 | 18 | 18 | 0.18 | 171087409 | 178525131 | tier1 | CDS-5UTR | 18347 | NA | 0 |
| LUSC | TCGA-56-7730-01A | TCGA-56-7730 | TNIK|SPATA16 | TNIK | SPATA16 | 3 | 3 | -1 | -1 | 2 | 1 | 1 | 0.52 | 171177796 | 172835539 | tier3 | CDS-5UTR | 18349 | NA | 0 |
| SKCM | TCGA-EE-A2M6-06A | TCGA-EE-A2M6 | TNIK|STXBP5L | TNIK | STXBP5L | 3 | 3 | -1 | 1 | 10 | 5 | 4 | 0.016 | 170801944 | 121097563 | tier1 | In-frame | 18350 | NA | 0 |
| SKCM | TCGA-YD-A89C-06A | TCGA-YD-A89C | OBSCN|KCNK2 | OBSCN | KCNK2 | 1 | 1 | 1 | 1 | 66 | 30 | 24 | 0.88 | 228525084 | 215368296 | tier1 | Out-of-frame | 11993 | NA | 0.3768 |
| BRCA | TCGA-A1-A0SK-01A | TCGA-A1-A0SK | OBSCN|IGSF21 | OBSCN | IGSF21 | 1 | 1 | 1 | 1 | 4 | 2 | 2 | 0.042 | 228402799 | 18554392 | tier4 | In-frame | 11992 | NA | 0.38209 |
| HNSC | TCGA-BB-4223-01A | TCGA-BB-4223 | OBSCN|CASZ1 | OBSCN | CASZ1 | 1 | 1 | 1 | -1 | 7 | 4 | 4 | 0.004 | 228412435 | 10725628 | tier1 | In-frame | 11990 | NA | 0.37451 |
| SKCM | TCGA-EB-A5SE-01A | TCGA-EB-A5SE | OBSCN|DISC1 | OBSCN | DISC1 | 1 | 1 | 1 | 1 | 15 | 8 | 7 | 0.004 | 228434504 | 231829572 | tier1 | In-frame | 11991 | NA | 0.37604 |
| PRAD | TCGA-ZG-A9M4-01A | TCGA-ZG-A9M4 | CXADR|HERC1 | CXADR | HERC1 | 21 | 15 | 1 | -1 | 4 | 6 | 6 | 0.28 | 18937929 | 63908881 | tier1 | Out-of-frame | 4472 | NA | 0.38021 |
| PRAD | TCGA-CH-5792-01A | TCGA-CH-5792 | CXADR|APP | CXADR | APP | 21 | 21 | 1 | -1 | 220 | 221 | 209 | 0.23 | 18885490 | 27425664 | tier1 | In-frame | 4471 | NA | 0.38325 |
| KIRC | TCGA-CJ-5681-01A | TCGA-CJ-5681 | CXADR|MTCP1NB | CXADR | MTCP1NB | 21 | X | 1 | -1 | 5 | 7 | 7 | 0.24 | 18885490 | 154292308 | tier1 | CDS-5UTR | 4473 | non-validated | 0.36377 |
| LUAD | TCGA-75-6214-01A | TCGA-75-6214 | L3MBTL4|LAMA1 | L3MBTL4 | LAMA1 | 18 | 18 | -1 | -1 | 2 | 1 | 1 | 0.45 | 6414800 | 6962058 | tier2 | 5UTR-CDS | 9177 | NA | 0.3681 |
| BRCA | TCGA-AR-A0TZ-01A | TCGA-AR-A0TZ | OXNAD1|LRRTM4 | OXNAD1 | LRRTM4 | 3 | 2 | 1 | -1 | 27 | 19 | 18 | 0.51 | 16327955 | 76976042 | tier1 | Out-of-frame | 12123 | NA | 0.34466 |
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